Citrus Sinensis ID: 042687

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------
Protein Sequence
MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSNQ
Secondary Structure (PSIPRED)
ccccccccccEEEEEEEEccccccHHHHHHHHcccccccccccccEEEEEEEEEEEccEEEEEEEEcccccHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHccEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEccccEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEccccHHHccccHHHHHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEccccccccccccccccc
Coil and Loop (DISEMBL)
MAYKVDHEYDYLFKIVLIgdsgvgksnilsrftrnefcleskstigVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAasstglpqgttinvanlsgnvkgkaccsnq
Flexible Loop (DISEMBL)
MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIgvefatrtlqvegktvkaqiwdtagQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAASstglpqgttinvanlsgnvkgkaccsnq
Low Complexity Region (SEG)
MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSNQ
Disordered region (IsUnstruct)
***KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA**************I*V****************
Disordered Region (DISOPRED)
*****DH**DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY************************************KACCS**
Disordered Region (DISEMBL)
MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKA***********LPQGTTINVANLSGNVK********
Disordered Region (DISPRO)
*****DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALA**********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSNQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	217	2.2.26 [Sep-21-2011]
Q40193	216	Ras-related protein Rab11	N/A	no	0.986	0.990	0.875	1e-107
Q39434	214	Ras-related protein Rab2B	N/A	no	0.976	0.990	0.884	1e-106
Q9LNW1	214	Ras-related protein RABA2	yes	no	0.976	0.990	0.861	1e-103
Q96283	217	Ras-related protein RABA2	no	no	0.990	0.990	0.844	2e-99
Q40523	216	Ras-related protein Rab11	N/A	no	0.986	0.990	0.870	3e-99
Q9FIF9	217	Ras-related protein RABA2	no	no	0.986	0.986	0.829	9e-98
O04486	217	Ras-related protein RABA2	no	no	0.995	0.995	0.759	2e-95
Q40723	217	Ras-related protein RGP2	no	no	0.986	0.986	0.741	1e-87
Q39572	216	Ras-related protein YPTC6	N/A	no	0.990	0.995	0.712	9e-86
Q40194	218	Ras-related protein Rab11	N/A	no	0.986	0.981	0.693	4e-84

>sp|Q40193|RB11C_LOTJA Ras-related protein Rab11C OS=Lotus japonicus GN=RAB11C PE=2 SV=1

 Score =  389 bits (998), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 189/216 (87%), Positives = 200/216 (92%), Gaps = 2/216 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA++VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+ +D   L+EKEGLSFLETSALEA N+EKAFQTIL +IYHI+SKK
Sbjct: 121 MMAGNKSDLNHLRAVSEDDGGALSEKEGLSFLETSALEATNIEKAFQTILTEIYHIVSKK 180

Query: 181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
           ALAAQEA +   +P QGTTINVA+ SGN K K CCS
Sbjct: 181 ALAAQEATAGASVPGQGTTINVADTSGNTK-KGCCS 215

Lotus japonicus (taxid: 34305)

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

 Score =  385 bits (989), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 191/216 (88%), Positives = 202/216 (93%), Gaps = 4/216 (1%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA +VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MANRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDL HLRAV+ ED Q LAEKEGLSFLETSALEA+N+EKAFQTIL +IYHIISKK
Sbjct: 121 MMAGNKSDLKHLRAVSEEDGQALAEKEGLSFLETSALEAVNIEKAFQTILTEIYHIISKK 180

Query: 181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
           ALAAQEA+S+  LP QGTTINVA+ S N + ++CCS
Sbjct: 181 ALAAQEASSN--LPGQGTTINVADASANQR-RSCCS 213

Beta vulgaris (taxid: 161934)

>sp|Q9LNW1|RAA2B_ARATH Ras-related protein RABA2b OS=Arabidopsis thaliana GN=RABA2B PE=2 SV=2

 Score =  374 bits (959), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 186/216 (86%), Positives = 198/216 (91%), Gaps = 4/216 (1%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA ++DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MANRIDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF+NV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFENVLRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLR+VA ED + LAEKEGLSFLETSALEA N+EKAFQTIL +IYHIISKK
Sbjct: 121 MMAGNKSDLNHLRSVADEDGRSLAEKEGLSFLETSALEATNIEKAFQTILSEIYHIISKK 180

Query: 181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
           ALAAQEAA +  LP QGT IN+++ S   + K CCS
Sbjct: 181 ALAAQEAAGN--LPGQGTAINISDSSATNR-KGCCS 213

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q96283|RAA2C_ARATH Ras-related protein RABA2c OS=Arabidopsis thaliana GN=RABA2C PE=2 SV=4

 Score =  361 bits (927), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 184/218 (84%), Positives = 197/218 (90%), Gaps = 3/218 (1%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           M ++VD EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT QVEGKT
Sbjct: 1   MTHRVDQEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTTQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLR+VA ED Q LAEKEGLSFLETSALEA NVEKAFQTIL +IYHIISKK
Sbjct: 121 MMAGNKSDLNHLRSVAEEDGQSLAEKEGLSFLETSALEATNVEKAFQTILGEIYHIISKK 180

Query: 181 -ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCSN 216
              A + AA+++ +P QGTTINV + SG  K +ACCS+
Sbjct: 181 ALAAQEAAAANSAIPGQGTTINVDDTSGGAK-RACCSS 217

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40523|RB11A_TOBAC Ras-related protein Rab11A OS=Nicotiana tabacum GN=RAB11A PE=2 SV=1

 Score =  360 bits (925), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 188/216 (87%), Positives = 200/216 (92%), Gaps = 2/216 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA +VDHEYDYLFK+VLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MANRVDHEYDYLFKMVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALL YDITKRQTFDNV RWLRELRDH DSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLFYDITKRQTFDNVQRWLRELRDHRDSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           ++AGNKSDL HLRAV+ +D Q L +KEGLSFLETSALEALNV+KAFQTIL DIYHIISKK
Sbjct: 121 ILAGNKSDLKHLRAVSEQDDQALVKKEGLSFLETSALEALNVDKAFQTILTDIYHIISKK 180

Query: 181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
           ALAAQEAA+ST LP QGTTINV++ S NVK + CCS
Sbjct: 181 ALAAQEAAASTALPGQGTTINVSDNSANVK-RGCCS 215

Nicotiana tabacum (taxid: 4097)

>sp|Q9FIF9|RAA2D_ARATH Ras-related protein RABA2d OS=Arabidopsis thaliana GN=RABA2D PE=2 SV=1

 Score =  355 bits (912), Expect = 9e-98,   Method: Compositional matrix adjust.
 Identities = 180/217 (82%), Positives = 196/217 (90%), Gaps = 3/217 (1%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA++V+ +YDYLFKIVLIGDSGVGK+NILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAHRVEQDYDYLFKIVLIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNK+DLNHLR+VA ED Q LAE EGLSFLETSALEA NVEKAFQT+L +IYHIISKK
Sbjct: 121 MMAGNKADLNHLRSVAEEDGQTLAETEGLSFLETSALEATNVEKAFQTVLAEIYHIISKK 180

Query: 181 -ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
              A + AA+++ +P QGTTINV + SG  K + CCS
Sbjct: 181 ALAAQEAAAANSAIPGQGTTINVEDTSGAGK-RGCCS 216

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|O04486|RAA2A_ARATH Ras-related protein RABA2a OS=Arabidopsis thaliana GN=RABA2A PE=2 SV=1

 Score =  348 bits (892), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 164/216 (75%), Positives = 190/216 (87%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA + D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQVEG+T
Sbjct: 1   MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVEGRT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGA+GALLVYD+TK  TF+NV+RWL+ELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+ GNK+DL HLRAVA EDAQ  AEKEGLSF+ETSALEALNVEKAFQTIL ++Y IISKK
Sbjct: 121 MLIGNKTDLKHLRAVATEDAQSYAEKEGLSFIETSALEALNVEKAFQTILSEVYRIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ++++ +  ++  + +G TI+VA  S +   K CCS+
Sbjct: 181 SISSDQTTANANIKEGQTIDVAATSESNAKKPCCSS 216

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40723|RLGP2_ORYSJ Ras-related protein RGP2 OS=Oryza sativa subsp. japonica GN=RGP2 PE=2 SV=2

 Score =  322 bits (825), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 161/217 (74%), Positives = 190/217 (87%), Gaps = 3/217 (1%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           M  +VDHEY YLFK+VLIGDSGVGKSNILSRFTRN F L+SKSTIGVEFAT++LQ+EGKT
Sbjct: 1   MGGRVDHEYSYLFKMVLIGDSGVGKSNILSRFTRNHFSLDSKSTIGVEFATKSLQMEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ+FDNV RWLRELRDHADS+IVI
Sbjct: 61  IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQSFDNVHRWLRELRDHADSSIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MM GNKSDL HLRAV+ ++ + LAEKEGL FLETSA+EA+NVE+AFQTI+ ++Y I+++K
Sbjct: 121 MMVGNKSDLIHLRAVSEDEGKALAEKEGLFFLETSAMEAVNVEEAFQTIITEVYGIVNRK 180

Query: 181 -ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
              A + AA+S  LP QG TI++ + +GN K +ACCS
Sbjct: 181 ALAAKEAAAASAPLPSQGKTISIDSAAGNTK-RACCS 216

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  316 bits (809), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 154/216 (71%), Positives = 177/216 (81%), Gaps = 1/216 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           M++K D +YDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT
Sbjct: 1   MSHKPDDDYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIQVDGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK  TF+NV RWL+ELRDHADSNIVI
Sbjct: 61  IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKSVTFENVERWLKELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+ GNKSDL HLR V  E AQ   E+EGLSF+ETSALE+ NVEKAFQ IL +IYHI+SKK
Sbjct: 121 MLVGNKSDLKHLRDVQTEVAQAFCEREGLSFIETSALESTNVEKAFQQILTEIYHIVSKK 180

Query: 181 ALAAQEAASSTGLPQGT-TINVANLSGNVKGKACCS 215
            L +++     G  +    I+ A+  G  K   CCS
Sbjct: 181 VLDSEDNRPKIGEGRDVIVIDNAHDDGGKKKGGCCS 216

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q40194|RB11D_LOTJA Ras-related protein Rab11D OS=Lotus japonicus GN=RAB11D PE=2 SV=1

 Score =  310 bits (795), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 149/215 (69%), Positives = 173/215 (80%), Gaps = 1/215 (0%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
            Y+ D EYDYLFK+VLIGDSGVGKSN+LSRFT+NEF LESKSTIGVEFAT+TL V+ K V
Sbjct: 3   GYRTDDEYDYLFKLVLIGDSGVGKSNLLSRFTKNEFNLESKSTIGVEFATKTLNVDAKVV 62

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM 121
           KAQIWDTAGQERYRAITSAYYRGAVGALLVYD+T+R TF+N  RWL+ELRDH D NIV+M
Sbjct: 63  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDVTRRATFENAARWLKELRDHTDPNIVVM 122

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKA 181
           + GNKSDL HL AV  ED +  AE+E L F+ETSALEA NVE AF  +L  IY I+SK+A
Sbjct: 123 LIGNKSDLRHLVAVPTEDGKSFAERESLYFMETSALEATNVENAFTEVLTQIYRIVSKRA 182

Query: 182 LAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
           + A ++ SS+GLP +G TINV   S  +K   CCS
Sbjct: 183 VEAGDSGSSSGLPSKGQTINVKEDSSVLKRFGCCS 217

Lotus japonicus (taxid: 34305)

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	217
255566524	216	protein with unknown function [Ricinus c	0.995	1.0	0.939	1e-116
449441350	216	PREDICTED: ras-related protein Rab2BV-li	0.995	1.0	0.935	1e-116
356551598	216	PREDICTED: ras-related protein Rab2BV-li	0.995	1.0	0.921	1e-114
224109432	216	predicted protein [Populus trichocarpa]	0.995	1.0	0.921	1e-114
356501105	217	PREDICTED: ras-related protein Rab2BV-li	0.995	0.995	0.912	1e-113
224101065	216	predicted protein [Populus trichocarpa]	0.995	1.0	0.921	1e-113
225449350	215	PREDICTED: ras-related protein Rab2BV [V	0.986	0.995	0.925	1e-112
388506820	216	unknown [Lotus japonicus]	0.995	1.0	0.907	1e-112
147802502	215	hypothetical protein VITISV_002485 [Viti	0.986	0.995	0.920	1e-111
357461039	216	Ras-related protein Rab11A [Medicago tru	0.995	1.0	0.893	1e-110

>gi|255566524|ref|XP_002524247.1| protein with unknown function [Ricinus communis] gi|223536524|gb|EEF38171.1| protein with unknown function [Ricinus communis]

 Score =  424 bits (1089), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 203/216 (93%), Positives = 211/216 (97%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+AEDA++LAEKEGLSFLETSALEA N+EKAFQ+ILLDIYHIISKK
Sbjct: 121 MMAGNKSDLNHLRAVSAEDARMLAEKEGLSFLETSALEAHNIEKAFQSILLDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQEAA+STGLPQGTTINVANLSGNV  + CC+N
Sbjct: 181 ALAAQEAANSTGLPQGTTINVANLSGNVNKRPCCTN 216

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441350|ref|XP_004138445.1| PREDICTED: ras-related protein Rab2BV-like [Cucumis sativus] gi|449528641|ref|XP_004171312.1| PREDICTED: ras-related protein Rab2BV-like [Cucumis sativus]

 Score =  422 bits (1085), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 202/216 (93%), Positives = 209/216 (96%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNK+DLNHLRAV+AEDAQ+LAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK
Sbjct: 121 MMAGNKADLNHLRAVSAEDAQVLAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQEA S+ GLP GTTINVAN+SGN   ++CCSN
Sbjct: 181 ALAAQEATSNPGLPHGTTINVANISGNYNKRSCCSN 216

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356551598|ref|XP_003544161.1| PREDICTED: ras-related protein Rab2BV-like [Glycine max]

 Score =  417 bits (1071), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 199/216 (92%), Positives = 206/216 (95%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFK+VLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKVVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+ EDAQ LAE+EGLSFLETSALEA NVEKAFQTIL DIYHIISKK
Sbjct: 121 MMAGNKSDLNHLRAVSTEDAQSLAEREGLSFLETSALEAYNVEKAFQTILFDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQEA SSTGLPQGTTINV+N+S N   ++CCSN
Sbjct: 181 ALAAQEANSSTGLPQGTTINVSNMSSNAGNRSCCSN 216

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109432|ref|XP_002315193.1| predicted protein [Populus trichocarpa] gi|222864233|gb|EEF01364.1| predicted protein [Populus trichocarpa]

 Score =  415 bits (1067), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 199/216 (92%), Positives = 207/216 (95%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL+SKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLDSKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVRRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+AGNKSDLNHLR+V+AEDAQ LAEKEGLSFLETSALEA NVEKAFQTILLDIY IISKK
Sbjct: 121 MLAGNKSDLNHLRSVSAEDAQTLAEKEGLSFLETSALEASNVEKAFQTILLDIYQIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           AL AQEAA+STGLPQGTTI +ANLS N+  +ACCSN
Sbjct: 181 ALTAQEAANSTGLPQGTTITIANLSSNINKRACCSN 216

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356501105|ref|XP_003519369.1| PREDICTED: ras-related protein Rab2BV-like [Glycine max]

 Score =  413 bits (1061), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 198/217 (91%), Positives = 208/217 (95%), Gaps = 1/217 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA+KVDHEYDYLFK+VLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAFKVDHEYDYLFKVVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+ EDAQ LAE+EGLSFLETSALEA NV+KAFQTIL DIYHIISKK
Sbjct: 121 MMAGNKSDLNHLRAVSTEDAQSLAEREGLSFLETSALEAYNVDKAFQTILFDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKG-KACCSN 216
           ALAAQEA SSTGLPQGTTINV+N++GN  G ++CCSN
Sbjct: 181 ALAAQEATSSTGLPQGTTINVSNMAGNAGGNRSCCSN 217

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224101065|ref|XP_002312127.1| predicted protein [Populus trichocarpa] gi|222851947|gb|EEE89494.1| predicted protein [Populus trichocarpa]

 Score =  412 bits (1060), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 199/216 (92%), Positives = 207/216 (95%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+AGNK+DLNHLR+V+AEDAQ+LAEKE LS LETSALEA NVEKAFQTILLDIY IISKK
Sbjct: 121 MLAGNKTDLNHLRSVSAEDAQMLAEKECLSCLETSALEASNVEKAFQTILLDIYQIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQEAA+STGLPQGTTIN+ NLS N+  KACCSN
Sbjct: 181 ALAAQEAANSTGLPQGTTINIGNLSTNINKKACCSN 216

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449350|ref|XP_002282090.1| PREDICTED: ras-related protein Rab2BV [Vitis vinifera]

 Score =  409 bits (1050), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 199/215 (92%), Positives = 205/215 (95%), Gaps = 1/215 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF+NV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFENVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+ +DAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK
Sbjct: 121 MMAGNKSDLNHLRAVSGDDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCS 215
           ALAAQEAA S  LP GTTINV +LSGN+  + CCS
Sbjct: 181 ALAAQEAA-SINLPHGTTINVGDLSGNMNKRTCCS 214

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388506820|gb|AFK41476.1| unknown [Lotus japonicus]

 Score =  408 bits (1049), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 196/216 (90%), Positives = 205/216 (94%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVY +TKRQTF+NV RWLRELRDHAD+NIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYGMTKRQTFENVQRWLRELRDHADANIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV++EDAQ LAEKE LSFLETSALEALNVEKAFQTIL DIY IIS+K
Sbjct: 121 MMAGNKSDLNHLRAVSSEDAQNLAEKESLSFLETSALEALNVEKAFQTILFDIYQIISRK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQEAAS+T LP GTTINV+NLS NV+ K CCSN
Sbjct: 181 ALAAQEAASTTSLPHGTTINVSNLSSNVEKKTCCSN 216

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802502|emb|CAN73117.1| hypothetical protein VITISV_002485 [Vitis vinifera]

 Score =  405 bits (1041), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 198/215 (92%), Positives = 204/215 (94%), Gaps = 1/215 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNE CLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEXCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF+NV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFENVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLRAV+ +DAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK
Sbjct: 121 MMAGNKSDLNHLRAVSGDDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCS 215
           ALAAQEAA S  LP GTTINV +LSGN+  + CCS
Sbjct: 181 ALAAQEAA-SINLPHGTTINVGDLSGNMNKRTCCS 214

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357461039|ref|XP_003600801.1| Ras-related protein Rab11A [Medicago truncatula] gi|355489849|gb|AES71052.1| Ras-related protein Rab11A [Medicago truncatula]

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 193/216 (89%), Positives = 207/216 (95%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MAYKVD+EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT+QVEGKT
Sbjct: 1   MAYKVDNEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTIQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF+NV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFENVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+AGNKSDLNHLRAV+++DAQ LAEKE LSFLETSALEALNVEKAFQTIL DIY IISKK
Sbjct: 121 MLAGNKSDLNHLRAVSSDDAQNLAEKETLSFLETSALEALNVEKAFQTILFDIYQIISKK 180

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
           ALAAQE+AS+T +P GTTINV+N+SG V+ K+CCSN
Sbjct: 181 ALAAQESASTTSVPHGTTINVSNMSGTVEKKSCCSN 216

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	217
TAIR|locus:2102777	217	RABA2c "RAB GTPase homolog A2C	0.990	0.990	0.866	6.1e-94
TAIR|locus:2024992	214	RABA2b "RAB GTPase homolog A2B	0.976	0.990	0.861	2.4e-92
TAIR|locus:2168469	217	RABA2D "RAB GTPase homolog A2D	0.986	0.986	0.852	2.4e-92
TAIR|locus:2024276	217	RAB11c "RAB GTPase 11C" [Arabi	0.995	0.995	0.759	8e-85
TAIR|locus:2159285	217	RABA1f "RAB GTPase homolog A1F	0.981	0.981	0.677	3.1e-74
UNIPROTKB|Q5ZJN2	216	RAB11A "Ras-related protein Ra	0.972	0.976	0.687	2.2e-73
UNIPROTKB|F2Z4D5	216	RAB11A "Ras-related protein Ra	0.972	0.976	0.687	2.8e-73
UNIPROTKB|P62490	216	RAB11A "Ras-related protein Ra	0.972	0.976	0.687	2.8e-73
UNIPROTKB|P62491	216	RAB11A "Ras-related protein Ra	0.972	0.976	0.687	2.8e-73
UNIPROTKB|Q52NJ1	216	RAB11A "Ras-related protein Ra	0.972	0.976	0.687	2.8e-73

TAIR|locus:2102777 RABA2c "RAB GTPase homolog A2C" [Arabidopsis thaliana (taxid:3702)]

 Score = 935 (334.2 bits), Expect = 6.1e-94, P = 6.1e-94
 Identities = 189/218 (86%), Positives = 201/218 (92%)

Query:     1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
             M ++VD EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT QVEGKT
Sbjct:     1 MTHRVDQEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTTQVEGKT 60

Query:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
             +KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct:    61 IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVI 120

Query:   121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
             MMAGNKSDLNHLR+VA ED Q LAEKEGLSFLETSALEA NVEKAFQTIL +IYHIISKK
Sbjct:   121 MMAGNKSDLNHLRSVAEEDGQSLAEKEGLSFLETSALEATNVEKAFQTILGEIYHIISKK 180

Query:   181 ALAAQEAASS-TGLP-QGTTINVANLSGNVKGKACCSN 216
             ALAAQEAA++ + +P QGTTINV + SG  K +ACCS+
Sbjct:   181 ALAAQEAAAANSAIPGQGTTINVDDTSGGAK-RACCSS 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:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

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

TAIR|locus:2024992 RABA2b "RAB GTPase homolog A2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 920 (328.9 bits), Expect = 2.4e-92, P = 2.4e-92
 Identities = 186/216 (86%), Positives = 198/216 (91%)

Query:     1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
             MA ++DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct:     1 MANRIDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
             VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF+NV RWLRELRDHADSNIVI
Sbjct:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFENVLRWLRELRDHADSNIVI 120

Query:   121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
             MMAGNKSDLNHLR+VA ED + LAEKEGLSFLETSALEA N+EKAFQTIL +IYHIISKK
Sbjct:   121 MMAGNKSDLNHLRSVADEDGRSLAEKEGLSFLETSALEATNIEKAFQTILSEIYHIISKK 180

Query:   181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCS 215
             ALAAQEAA +  LP QGT IN+++ S   + K CCS
Sbjct:   181 ALAAQEAAGN--LPGQGTAINISDSSATNR-KGCCS 213

GO:0003924 "GTPase activity" evidence=IEA

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

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:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

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

GO:0042542 "response to hydrogen peroxide" evidence=RCA

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

 Score = 920 (328.9 bits), Expect = 2.4e-92, P = 2.4e-92
 Identities = 185/217 (85%), Positives = 200/217 (92%)

Query:     1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
             MA++V+ +YDYLFKIVLIGDSGVGK+NILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct:     1 MAHRVEQDYDYLFKIVLIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
             VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVI 120

Query:   121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
             MMAGNK+DLNHLR+VA ED Q LAE EGLSFLETSALEA NVEKAFQT+L +IYHIISKK
Sbjct:   121 MMAGNKADLNHLRSVAEEDGQTLAETEGLSFLETSALEATNVEKAFQTVLAEIYHIISKK 180

Query:   181 ALAAQEAASS-TGLP-QGTTINVANLSGNVKGKACCS 215
             ALAAQEAA++ + +P QGTTINV + SG  K + CCS
Sbjct:   181 ALAAQEAAAANSAIPGQGTTINVEDTSGAGK-RGCCS 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:2024276 RAB11c "RAB GTPase 11C" [Arabidopsis thaliana (taxid:3702)]

 Score = 849 (303.9 bits), Expect = 8.0e-85, P = 8.0e-85
 Identities = 164/216 (75%), Positives = 190/216 (87%)

Query:     1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
             MA + D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQVEG+T
Sbjct:     1 MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVEGRT 60

Query:    61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
             VKAQIWDTAGQERYRAITSAYYRGA+GALLVYD+TK  TF+NV+RWL+ELRDHADSNIVI
Sbjct:    61 VKAQIWDTAGQERYRAITSAYYRGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVI 120

Query:   121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
             M+ GNK+DL HLRAVA EDAQ  AEKEGLSF+ETSALEALNVEKAFQTIL ++Y IISKK
Sbjct:   121 MLIGNKTDLKHLRAVATEDAQSYAEKEGLSFIETSALEALNVEKAFQTILSEVYRIISKK 180

Query:   181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSN 216
             ++++ +  ++  + +G TI+VA  S +   K CCS+
Sbjct:   181 SISSDQTTANANIKEGQTIDVAATSESNAKKPCCSS 216

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:0000910 "cytokinesis" evidence=IMP

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

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

GO:0019932 "second-messenger-mediated signaling" evidence=RCA

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

 Score = 749 (268.7 bits), Expect = 3.1e-74, P = 3.1e-74
 Identities = 147/217 (67%), Positives = 174/217 (80%)

Query:     2 AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
             AY+ D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++ V+ K V
Sbjct:     3 AYRADDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIHVDDKIV 62

Query:    62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM 121
             KAQIWDTAGQERYRAITSAYYRGAVGALLVYD+T+  TF+NV RWL+ELRDH D+NIVIM
Sbjct:    63 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDVTRHVTFENVERWLKELRDHTDANIVIM 122

Query:   122 MAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKA 181
               GNK+DL HLRAV+ EDA+  AE+E   F+ETSALE++NVE AF  +L  IY ++S+KA
Sbjct:   123 FVGNKADLRHLRAVSTEDAKAFAERENTFFMETSALESMNVENAFTEVLSQIYRVVSRKA 182

Query:   182 LAAQEAASSTGLPQGTTINVANLS--GNVKGKACCSN 216
             L   +  ++  LP+G TINV +      VK   CCSN
Sbjct:   183 LDIGDDPAA--LPKGQTINVGSKDDVSAVKKVGCCSN 217

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

UNIPROTKB|Q5ZJN2 RAB11A "Ras-related protein Rab-11A" [Gallus gallus (taxid:9031)]

 Score = 741 (265.9 bits), Expect = 2.2e-73, P = 2.2e-73
 Identities = 145/211 (68%), Positives = 170/211 (80%)

Query:     6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64

Query:    66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
             WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct:    65 WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 124

Query:   126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
             KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I+S+K ++ +
Sbjct:   125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDR 184

Query:   186 EAASSTGLPQGTTINVANLSGNVKGKACCSN 216
                  +       I+V   + N     CC N
Sbjct:   185 RENDMSPSNNVVPIHVPPTTENKPKMQCCQN 215

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

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

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

GO:0031175 "neuron projection development" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

GO:0072659 "protein localization to plasma membrane" evidence=IEA

GO:0032154 "cleavage furrow" evidence=ISS

UNIPROTKB|F2Z4D5 RAB11A "Ras-related protein Rab-11A" [Bos taurus (taxid:9913)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 145/211 (68%), Positives = 170/211 (80%)

Query:     6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64

Query:    66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
             WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct:    65 WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 124

Query:   126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
             KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I+S+K ++ +
Sbjct:   125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDR 184

Query:   186 EAASSTGLPQGTTINVANLSGNVKGKACCSN 216
                  +       I+V   + N     CC N
Sbjct:   185 RENDMSPSNNVVPIHVPPTTENKPKVQCCQN 215

GO:0072659 "protein localization to plasma membrane" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

GO:0032154 "cleavage furrow" evidence=IEA

GO:0031175 "neuron projection development" evidence=IEA

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

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

GO:0005739 "mitochondrion" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|P62490 RAB11A "Ras-related protein Rab-11A" [Canis lupus familiaris (taxid:9615)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 145/211 (68%), Positives = 170/211 (80%)

Query:     6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64

Query:    66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
             WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct:    65 WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 124

Query:   126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
             KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I+S+K ++ +
Sbjct:   125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDR 184

Query:   186 EAASSTGLPQGTTINVANLSGNVKGKACCSN 216
                  +       I+V   + N     CC N
Sbjct:   185 RENDMSPSNNVVPIHVPPTTENKPKVQCCQN 215

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

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

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

GO:0005739 "mitochondrion" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|P62491 RAB11A "Ras-related protein Rab-11A" [Homo sapiens (taxid:9606)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 145/211 (68%), Positives = 170/211 (80%)

Query:     6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64

Query:    66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
             WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct:    65 WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 124

Query:   126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
             KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I+S+K ++ +
Sbjct:   125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDR 184

Query:   186 EAASSTGLPQGTTINVANLSGNVKGKACCSN 216
                  +       I+V   + N     CC N
Sbjct:   185 RENDMSPSNNVVPIHVPPTTENKPKVQCCQN 215

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0030133 "transport vesicle" evidence=IEA

GO:0048169 "regulation of long-term neuronal synaptic plasticity" evidence=IEA

GO:0051223 "regulation of protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0019905 "syntaxin binding" evidence=NAS

GO:0048227 "plasma membrane to endosome transport" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0032154 "cleavage furrow" evidence=IDA

GO:0000910 "cytokinesis" evidence=IMP

GO:0003924 "GTPase activity" evidence=IDA

GO:0031175 "neuron projection development" evidence=IMP

GO:0072659 "protein localization to plasma membrane" evidence=IDA

GO:0043234 "protein complex" evidence=IDA

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

GO:0032402 "melanosome transport" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=IDA

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

GO:0006833 "water transport" evidence=TAS

GO:0030659 "cytoplasmic vesicle membrane" evidence=TAS

GO:0055085 "transmembrane transport" evidence=TAS

UNIPROTKB|Q52NJ1 RAB11A "Ras-related protein Rab-11A" [Sus scrofa (taxid:9823)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 145/211 (68%), Positives = 170/211 (80%)

Query:     6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64

Query:    66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
             WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct:    65 WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 124

Query:   126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
             KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I+S+K ++ +
Sbjct:   125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDR 184

Query:   186 EAASSTGLPQGTTINVANLSGNVKGKACCSN 216
                  +       I+V   + N     CC N
Sbjct:   185 RENDMSPSNNVVPIHVPPTTENKPKVQCCQN 215

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

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

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

GO:0005739 "mitochondrion" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q40522	RB11D_TOBAC	No assigned EC number	0.6355	0.9631	0.9414	N/A	no
Q40523	RB11A_TOBAC	No assigned EC number	0.8703	0.9861	0.9907	N/A	no
Q40520	RB11C_TOBAC	No assigned EC number	0.6338	0.9677	0.9459	N/A	no
Q5R9M7	RB11A_PONAB	No assigned EC number	0.6872	0.9723	0.9768	yes	no
Q96283	RAA2C_ARATH	No assigned EC number	0.8440	0.9907	0.9907	no	no
Q9LNW1	RAA2B_ARATH	No assigned EC number	0.8611	0.9769	0.9906	yes	no
Q40521	RB11B_TOBAC	No assigned EC number	0.6589	0.9769	0.9769	N/A	no
Q40195	RB11E_LOTJA	No assigned EC number	0.6712	0.9907	0.9862	N/A	no
Q40194	RB11D_LOTJA	No assigned EC number	0.6930	0.9861	0.9816	N/A	no
Q40191	RB11A_LOTJA	No assigned EC number	0.7005	0.8709	0.8362	N/A	no
Q40723	RLGP2_ORYSJ	No assigned EC number	0.7419	0.9861	0.9861	no	no
Q40193	RB11C_LOTJA	No assigned EC number	0.875	0.9861	0.9907	N/A	no
Q9FIF9	RAA2D_ARATH	No assigned EC number	0.8294	0.9861	0.9861	no	no
Q2TA29	RB11A_BOVIN	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P36412	RB11A_DICDI	No assigned EC number	0.6448	0.9170	0.9299	yes	no
Q39434	RB2BV_BETVU	No assigned EC number	0.8842	0.9769	0.9906	N/A	no
P17610	YPT3_SCHPO	No assigned EC number	0.6448	0.9493	0.9626	yes	no
Q01111	YPT3_NICPL	No assigned EC number	0.6712	0.9907	0.9862	N/A	no
Q5ZJN2	RB11A_CHICK	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P22129	RB11B_DIPOM	No assigned EC number	0.6666	0.9723	0.9678	N/A	no
P38555	YPT31_YEAST	No assigned EC number	0.5694	0.9585	0.9327	yes	no
O04486	RAA2A_ARATH	No assigned EC number	0.7592	0.9953	0.9953	no	no
Q39572	YPTC6_CHLRE	No assigned EC number	0.7129	0.9907	0.9953	N/A	no
Q52NJ1	RB11A_PIG	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P62491	RB11A_HUMAN	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P62490	RB11A_CANFA	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P62493	RB11A_RABIT	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P62492	RB11A_MOUSE	No assigned EC number	0.6872	0.9723	0.9768	yes	no
P62494	RB11A_RAT	No assigned EC number	0.6872	0.9723	0.9768	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: fgenesh4_pm.C_LG_X000784 hypothetical protein (216 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	217
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-155
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-124
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-105
pfam00071	162	pfam00071, Ras, Ras family	4e-87
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	1e-85
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-73
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-72
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-71
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-70
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	9e-69
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-66
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	8e-64
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	6e-63
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-62
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-61
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	6e-60
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-59
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-54
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-53
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-52
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	4e-49
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	4e-49
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-47
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	2e-47
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-46
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	4e-46
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-45
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	1e-44
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	2e-43
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	5e-43
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	7e-42
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	8e-41
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	1e-39
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-39
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	5e-38
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	2e-37
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-37
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	7e-35
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	3e-33
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	9e-32
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-31
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	4e-31
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	7e-31
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	3e-30
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	6e-30
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	3e-29
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	5e-29
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-28
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	3e-28
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	3e-27
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	1e-26
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	1e-26
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	2e-26
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	4e-26
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	6e-26
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	2e-25
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-25
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	5e-25
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	2e-24
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	3e-24
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	9e-23
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	2e-22
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	3e-22
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-21
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-21
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-21
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	1e-20
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	9e-20
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-18
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	6e-18
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	2e-17
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	4e-17
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	5e-17
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	6e-17
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-15
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	1e-14
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	2e-14
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	4e-14
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	7e-14
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	1e-13
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-13
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	3e-13
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-11
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	4e-11
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	2e-10
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	4e-10
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	8e-10
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	2e-09
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	2e-09
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	4e-09
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	6e-09
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	1e-08
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-08
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	2e-08
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	3e-08
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	6e-08
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	2e-07
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-07
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	7e-07
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	7e-07
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	2e-06
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	3e-06
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	2e-05
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	2e-04
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	2e-04
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	3e-04
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	0.001
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	0.002
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	0.003

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

 Score =  427 bits (1100), Expect = e-155
 Identities = 197/217 (90%), Positives = 206/217 (94%), Gaps = 2/217 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA++VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT
Sbjct: 1   MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV RWLRELRDHADSNIVI
Sbjct: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           MMAGNKSDLNHLR+VA ED Q LAEKEGLSFLETSALEA NVEKAFQTILL+IYHIISKK
Sbjct: 121 MMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKK 180

Query: 181 ALAAQEAASSTGLP-QGTTINVANLSGNVKGKACCSN 216
           ALAAQEAA+++GLP QGTTINVA+ SGN K + CCS 
Sbjct: 181 ALAAQEAAANSGLPGQGTTINVADTSGNNK-RGCCST 216

Length = 216

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

 Score =  347 bits (892), Expect = e-124
 Identities = 133/165 (80%), Positives = 151/165 (91%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           DYLFKIVLIGDSGVGKSN+LSRFTRNEF L+SKSTIGVEFATRT+Q++GKT+KAQIWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQERYRAITSAYYRGAVGALLVYDITK+ TF+NV RWL+ELRDHADSNIVIM+ GNKSDL
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDL 120

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            HLRAV  E+A+  AEK GLSF+ETSAL+  NVE+AF+ +L +IY
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 =  300 bits (771), Expect = e-105
 Identities = 100/164 (60%), Positives = 130/164 (79%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FKI+LIGDSGVGKS++LSRFT  +F  + KSTIGV+F T+T++V+GK VK QIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R+ITS+YYRGAVGALLVYDIT R++F+N+  WL+ELR++A  N+VIM+ GNKSDL   
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
           R V+ E+A+  AE+ GL F ETSA    NVE+AF+ +  +I   
Sbjct: 121 RQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  253 bits (650), Expect = 4e-87
 Identities = 90/161 (55%), Positives = 120/161 (74%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD GVGKS++L RFT+N+F  E   TIGV+F T+T++V+GKTVK QIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           +RA+   YYRGA G LLVYDIT R +F+NV +WL E+  HAD N+ I++ GNK DL   R
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            V+ E+ + LA++ GL F+ETSA    NVE+AF+ +  +I 
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|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  250 bits (640), Expect = 1e-85
 Identities = 91/157 (57%), Positives = 125/157 (79%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FKIVLIGDSGVGK+++L RF  N+F    KSTIGV+F ++T++V+GK VK QIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R+ITS+YYRGA GA+LVYD+T R++F+N+ +WL EL+++A  NI I++ GNKSDL   
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+AQ  A++ GL F ETSA    NV++AF+++
Sbjct: 121 RQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESL 157

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

 Score =  219 bits (560), Expect = 2e-73
 Identities = 85/164 (51%), Positives = 121/164 (73%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           DYLFK++LIGDSGVGKS +L RF+ + F     STIG++F  RT++++GK +K QIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT++YYRGA+G +LVYDIT  ++F+N+  W+R + +HA  ++  M+ GNK D+
Sbjct: 61  GQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDM 120

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+ + LA + G+ FLETSA   +NVE+AF T+  DI
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 =  216 bits (552), Expect = 4e-72
 Identities = 81/157 (51%), Positives = 111/157 (70%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GDS VGKS+I+ RF +NEF    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RYR++   YYRGA  A++VYDIT  ++F+    W++EL++H   NIVI +AGNK+DL   
Sbjct: 62  RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESK 121

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+AQ  A++ GL F+ETSA    NV + F  I
Sbjct: 122 RQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEI 158

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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  213 bits (545), Expect = 3e-71
 Identities = 89/166 (53%), Positives = 118/166 (71%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++GK +K QIWDT
Sbjct: 1   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 60

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQE +R+IT +YYRGA GALLVYDIT+R+TF+++T WL + R H++SN+ IM+ GNK D
Sbjct: 61  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCD 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V+ E+ +  A + GL F+ETSA  A NVE+AF     +IY
Sbjct: 121 LESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIY 166

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

 Score =  211 bits (540), Expect = 2e-70
 Identities = 85/163 (52%), Positives = 120/163 (73%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           YLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKTVK QIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK DL 
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             + V   +A+  A++ G+ FLETSA  A NVE+AF T+  +I
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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  207 bits (529), Expect = 9e-69
 Identities = 83/158 (52%), Positives = 113/158 (71%), Gaps = 1/158 (0%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D+LFKI+LIGDS VGK+ ++ RF    F     +TIGV+F  +TL+++GK VK QIWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT +YYR A GA++ YDIT+R +F++V  W+ E+  +  SN+V+++ GNK DL
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

Query: 130 NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
              R V  E+A  LAE  G L+ LETSA E+ NVE+AF
Sbjct: 121 EEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAF 158

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  202 bits (516), Expect = 2e-66
 Identities = 93/208 (44%), Positives = 126/208 (60%), Gaps = 2/208 (0%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++ K +K QIWDT
Sbjct: 3   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDT 62

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQE +R+IT +YYRGA GALLVYDIT+R+TF+++  WL + R HA++N+ IM+ GNK D
Sbjct: 63  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCD 122

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAA 188
           L H RAV+ E+ +  A++ GL F+E SA  A NVE+AF      IY  I          +
Sbjct: 123 LAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNES 182

Query: 189 SSTGLPQGTTINVANLSGN--VKGKACC 214
               +  G     +        +G  CC
Sbjct: 183 YGIKVGYGAIPGASGGRDGTSSQGGGCC 210

Length = 210

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

 Score =  195 bits (496), Expect = 8e-64
 Identities = 84/164 (51%), Positives = 114/164 (69%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y+FK ++IGD GVGKS +L +FT  +F  +   TIGVEF TR ++V G+ +K QIWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+RA+T +YYRGA GAL+VYDIT+R T+++++ WL + R+  + N VI + GNK+DL 
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE 120

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
             R V  E+A+  A++ GL FLE SA    NVE AF      IY
Sbjct: 121 AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIY 164

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|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  194 bits (494), Expect = 6e-63
 Identities = 88/210 (41%), Positives = 130/210 (61%), Gaps = 6/210 (2%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTA 69
           Y F++++IGDS VGKS++L RFT   F   S  T+GV+F +R +++E G  +K Q+WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSD 128
           GQER+R+IT +YYR +VG LLV+DIT R++F++V  WL E R H      V ++ G+K D
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCD 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEA- 187
           L   R V  E+A+ LA+  G+ ++ETSA    NVE+AF+ +  +IY  I +  L A +  
Sbjct: 121 LESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRGELCALDGW 180

Query: 188 -ASSTGLPQGTTINVANLSGNV--KGKACC 214
               +G P G   ++   S       K+CC
Sbjct: 181 DGVKSGFPAGRAFSLEERSPTFASPEKSCC 210

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  191 bits (487), Expect = 2e-62
 Identities = 82/162 (50%), Positives = 113/162 (69%), Gaps = 2/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            KI+LIGDSGVGKS++L RFT + F  +  STIGV+F  +T+ V+GK VK  IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
           R+R +TS+YYRGA G +LVYD+T+R TFDN+  WL EL  ++ + + V M+ GNK D  +
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKEN 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V  E+ Q  A K  + F+ETSA   + V++AF+ ++  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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  188 bits (480), Expect = 2e-61
 Identities = 84/154 (54%), Positives = 110/154 (71%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK ++IG +G GKS +L +F  N+F  +S  TIGVEF +R + V GK+VK QIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++T +YYRGA GALLVYDIT R++F+ +T WL + R  A  +IVI++ GNK DL   
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V   +A   A++ GL FLETSAL   NVE+AF
Sbjct: 121 REVTFLEASRFAQENGLLFLETSALTGENVEEAF 154

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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  186 bits (473), Expect = 6e-60
 Identities = 88/207 (42%), Positives = 126/207 (60%), Gaps = 9/207 (4%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +YD+LFK+++IGDSGVGKS++L RF  N F     +TIGV+F  RT+++ G+ VK QIWD
Sbjct: 2   DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWD 61

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS YYRG  G ++VYD+T  ++F NV RWL+E+  + D  +  ++ GNK+
Sbjct: 62  TAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDD-VCKVLVGNKN 120

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEA 187
           D    + V  EDA   A + G+S  ETSA E +NVE+ F          I++  L A++ 
Sbjct: 121 DDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNC--------ITELVLRAKKD 172

Query: 188 ASSTGLPQGTTINVANLSGNVKGKACC 214
             +    Q     V     + + K CC
Sbjct: 173 NLAKQQQQQQNDVVKLPKNSKRKKRCC 199

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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  183 bits (468), Expect = 1e-59
 Identities = 65/157 (41%), Positives = 112/157 (71%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+V +GD  VGK++I++RF  + F  + ++TIG++F ++T+ V+ KTV+ Q+WDTAGQE
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT RQ+FDN  +W+ ++RD   ++++I++ GNK+DL+  
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++    F+ETSA    NV++ F+ I
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKI 157

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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  172 bits (436), Expect = 1e-54
 Identities = 73/162 (45%), Positives = 115/162 (70%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +YD+LFKIVLIG++GVGK+ ++ RFT+  F     +TIGV+F  +T++++G+ +K QIWD
Sbjct: 3   DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWD 62

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R+IT +YYR A   +L YDIT  ++F  +  WLRE+  +A++ ++ ++ GNK 
Sbjct: 63  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKI 122

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           DL   R V+ + A+  ++ + + +LETSA E+ NVEK F  +
Sbjct: 123 DLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDL 164

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|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  168 bits (427), Expect = 2e-53
 Identities = 63/157 (40%), Positives = 97/157 (61%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+  VGK++++ R+  N+F  + +ST    F  +T+ + GK +   IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY A+   YYR A GA+LVYDIT   +F  V +W++EL+    +NI +++ GNK DL   
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+  +A+  A+  G    ETSA     +E+ F ++
Sbjct: 121 RVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSL 157

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 =  165 bits (420), Expect = 5e-52
 Identities = 78/164 (47%), Positives = 114/164 (69%), Gaps = 1/164 (0%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKS-TIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           FK++L+GDSGVGK+ +L RF    F   S   T+G++F  + + V+G  VK QIWDTAGQ
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           ER+R++T AYYR A   LL+YD+T + +FDN+  WL E+ ++A S++VIM+ GNK+D++ 
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
            R V  ED + LA++ G+ F+ETSA   LNVE AF  +  ++ H
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKH 164

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

 Score =  157 bits (399), Expect = 4e-49
 Identities = 70/162 (43%), Positives = 110/162 (67%), Gaps = 1/162 (0%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           +FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           ERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GNK D+  
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V+AE  + LA++ G  F E SA E +NV++ F+  L+DI
Sbjct: 121 ERVVSAERGRQLADQLGFEFFEASAKENINVKQVFER-LVDI 161

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|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  157 bits (400), Expect = 4e-49
 Identities = 66/183 (36%), Positives = 113/183 (61%), Gaps = 19/183 (10%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-------IVIMMAGN 125
           R++++  A+YRGA   +LVYD+T  ++F+++  W  E    A          +V+   GN
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVL---GN 117

Query: 126 KSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           K DL   R V+ + AQ   + +G + + ETSA EA+NV++AF+T        I++ AL  
Sbjct: 118 KIDLEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFET--------IARLALEQ 169

Query: 185 QEA 187
           ++ 
Sbjct: 170 EKE 172

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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  153 bits (388), Expect = 1e-47
 Identities = 69/157 (43%), Positives = 105/157 (66%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           F+++LIGDSGVGK+ +L RFT NEF     STIGV+F  +T++V+G  V+ QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY+ IT  YYR A G  LVYDI+  +++ ++ +W+ ++ ++A   +  ++ GNK+D    
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V  E    LA++ G+ F ETSA    N++++F  +
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRL 157

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

 Score =  153 bits (389), Expect = 2e-47
 Identities = 73/173 (42%), Positives = 111/173 (64%), Gaps = 11/173 (6%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE----------G 58
           YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +              
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKA 60

Query: 59  KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-N 117
             V  Q+WDTAGQER+R++T+A++R A+G LL++D+T  Q+F NV  W+ +L+ HA   N
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCEN 120

Query: 118 IVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
             I++ GNK+DL   R V+   A+ LA+K G+ + ETSA    NVEKA +T+L
Sbjct: 121 PDIVLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLL 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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score =  150 bits (382), Expect = 2e-46
 Identities = 53/161 (32%), Positives = 83/161 (51%), Gaps = 4/161 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNE-FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
            KIV++GD  VGKS +L+R   N+    E K      + T  ++ +GKT K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQ--TFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           E Y AI   YYR    +L V+DI        + + +  +E+  HA+S + I++ GNK DL
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
              + +    A + A+  G   +  SA    N++ AF+ + 
Sbjct: 122 RDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE 161

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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  151 bits (382), Expect = 4e-46
 Identities = 67/161 (41%), Positives = 111/161 (68%), Gaps = 1/161 (0%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           ++++IG  GVGK++++ RFT + FC   KST+GV+F  +T+++ GK ++ QIWDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           + +ITSAYYR A G +LVYDITK++TFD++ +W++ +  +A  +  +++ GNK D    R
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR 121

Query: 134 AVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDI 173
            +  +  +  A++  G+ F E SA +  NV++ F  ++ DI
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 162

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  150 bits (379), Expect = 1e-45
 Identities = 79/172 (45%), Positives = 111/172 (64%), Gaps = 3/172 (1%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD  FKI+LIGDSGVGKS++L  F  +    +   TIGV+F  + L V GK +K  IWDT
Sbjct: 11  YDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDT 69

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHA-DSNIVIMMAGNK 126
           AGQER+R +TS+YYR A G +LVYD+T+R+TF N++  W +E+  ++ + + V M+ GNK
Sbjct: 70  AGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNK 129

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIIS 178
            D    R V+ E+   LA++ G  FLE SA    NVE+ F+ + L I  + S
Sbjct: 130 VDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPS 181

Length = 211

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

 Score =  147 bits (373), Expect = 1e-44
 Identities = 70/209 (33%), Positives = 111/209 (53%), Gaps = 15/209 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT-VKAQIWDTAGQ 71
           FK+++IGD GVGK++I+ R+    F    K+TIGV+FA + ++ +  T V+ Q+WD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH----ADSNIVIMMAGNKS 127
           ER+  +T  YY+GAVGA++V+D+T+  TF+ V +W  +L           I  ++  NK 
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 128 DLNHLR-AVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           DL   R A   E      ++ G   + ETSA E +N+E+A           + K  L   
Sbjct: 121 DLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAM--------RFLVKNILKND 172

Query: 186 EAASSTGLPQGTTINVANLSGNVKGKACC 214
           +   S    +   I++   +   K K+CC
Sbjct: 173 KGLQSPEPDEDNVIDLKQETTTSKSKSCC 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 =  142 bits (361), Expect = 2e-43
 Identities = 59/161 (36%), Positives = 93/161 (57%), Gaps = 2/161 (1%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++G  GVGKS +  RF   EF  E   TI  +   + + V+G+T    I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHL 132
           + A+   Y R   G +LVY IT R++F+ +     ++       ++ I++ GNK DL + 
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           R V+ E+ + LAE+ G  FLETSA   +N+++ F T++ +I
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|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  142 bits (359), Expect = 5e-43
 Identities = 63/163 (38%), Positives = 95/163 (58%), Gaps = 5/163 (3%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FKI++IGDS VGK+ +  RF    F   +++TIGV+F  RT++++G+ +K Q+WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 73  RYR-AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI-MMAGNKSDLN 130
           R+R ++   YYR     + VYD+T   +F ++  W+ E   H+  N V  ++ GNK DL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR 122

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSA---LEALNVEKAFQTIL 170
               V  + AQ  A+   +   ETSA    E  +VE  F T+ 
Sbjct: 123 EQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLA 165

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

 Score =  140 bits (355), Expect = 7e-42
 Identities = 70/190 (36%), Positives = 103/190 (54%), Gaps = 18/190 (9%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           +   FKIV++GD GVGK+ +L+R   +EF      TIG     +T++   + +K Q+WDT
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKS 127
           AGQE YR++   YYRGA G L+VYD T R++ D +T  WL ELR+ A  ++ I++ GNK 
Sbjct: 62  AGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKI 121

Query: 128 DLNHLRAVAAEDAQ---------------ILAEKEGLSFLETSA--LEALNVEKAFQTIL 170
           DL   ++ + E                  +L E    + LETSA  L   NV + F+ +L
Sbjct: 122 DLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELL 181

Query: 171 LDIYHIISKK 180
             +   I K 
Sbjct: 182 RKLLEEIEKL 191

Length = 219

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

 Score =  137 bits (346), Expect = 8e-41
 Identities = 65/158 (41%), Positives = 97/158 (61%), Gaps = 1/158 (0%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYL K +L+GDS VGK  IL+              +G+++ T T+ ++G+ VK Q+WDT
Sbjct: 3   YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDT 62

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           +GQ R+  I  +Y RGA G +LVYDIT R +FD + RW++E+ +HA   +  ++ GN+  
Sbjct: 63  SGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLH 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           L   R VA E AQ  AE+ G++F E S L   N+ ++F
Sbjct: 122 LAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESF 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|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  133 bits (337), Expect = 1e-39
 Identities = 65/161 (40%), Positives = 100/161 (62%), Gaps = 6/161 (3%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWDTAGQ
Sbjct: 5   LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKS 127
           ER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ GNK 
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 128 DLNHLRAVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQ 167
           D+   R V+ E+AQ      G   + ETSA +A NV  AF+
Sbjct: 125 DIPE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFE 164

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

 Score =  133 bits (336), Expect = 1e-39
 Identities = 56/165 (33%), Positives = 94/165 (56%), Gaps = 5/165 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++ +G+SGVGKS I+ R+    F  +   TIG+++  + + V  K V+   +D +G   
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-----NIVIMMAGNKSD 128
           Y  + + +Y+   G LLVYD+T RQ+F+ +  WL+E++          NIV+++  NK D
Sbjct: 62  YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKID 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           L   RAV+ ++ ++ AE +G  + ETSA     V + FQT+   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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  129 bits (326), Expect = 5e-38
 Identities = 61/163 (37%), Positives = 96/163 (58%), Gaps = 4/163 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI  +   + ++++G+     I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
            + A+   Y R   G LLVY IT RQ+F+ + +  RE  LR     ++ I++ GNK DL 
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKK-FREQILRVKDRDDVPIVLVGNKCDLE 118

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V+ E+ + LA + G  FLETSA E +NV++AF  ++ +I
Sbjct: 119 SERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREI 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 =  127 bits (322), Expect = 2e-37
 Identities = 62/163 (38%), Positives = 97/163 (59%), Gaps = 4/163 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  E   TI  +   + ++++G+     I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
            + A+   Y R   G LLVY IT RQ+F+ + +  RE  LR     ++ I++ GNK DL 
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAK-FREQILRVKDRDDVPIVLVGNKCDLE 120

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           + R V+ E+ + LA + G  FLETSA E +NV++AF  ++ +I
Sbjct: 121 NERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREI 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|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  127 bits (320), Expect = 3e-37
 Identities = 53/156 (33%), Positives = 91/156 (58%), Gaps = 3/156 (1%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE--GKTVKAQIWDTAGQ 71
           K++++G+  VGKS+++ RF +  F  + K TIGV+F  + + +    + V+  +WDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           E + AIT AYYRGA   +LV+  T R++F+ +  W +E  +    +I +++   K DL  
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESW-KEKVEAECGDIPMVLVQTKIDLLD 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
              +  E+A+ LA++  L    TS  +  NV + F+
Sbjct: 121 QAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFE 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|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  122 bits (307), Expect = 7e-35
 Identities = 57/164 (34%), Positives = 92/164 (56%), Gaps = 6/164 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           K+V++G   VGK++++ R+  + F +   ++TIG  F  + + V  + V   IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL--- 129
           RY A++  YYRGA  A++ YD+T   +F+    W++EL++  + +  I + G KSDL   
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQN-LEEHCKIYLCGTKSDLIEQ 120

Query: 130 -NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
              LR V   D Q  A++      ETS+    NV++ FQ +  D
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAED 164

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

 Score =  117 bits (294), Expect = 3e-33
 Identities = 58/163 (35%), Positives = 95/163 (58%), Gaps = 2/163 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQLNILDTAGQE 59

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDLNH 131
            Y AI   Y+R   G LLV+ IT  ++F  +     + LR   D N+ +++ GNK DL  
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLED 119

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            R V+ E+A  LAE+ G++++ETSA    NV+K F  ++ +I 
Sbjct: 120 KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIR 162

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

 Score =  113 bits (284), Expect = 9e-32
 Identities = 55/155 (35%), Positives = 93/155 (60%), Gaps = 2/155 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F ++ F  +   TI   + T+  +++G+  +  I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWARLDILDTAGQE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
            + A+   Y R   G LLV+ +T R +F+ V ++  + LR        +++ GNK+DL H
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEH 121

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
            R V+ E+ Q LA +  + ++ETSA + +NV+KAF
Sbjct: 122 QRQVSREEGQELARQLKIPYIETSAKDRVNVDKAF 156

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

 Score =  113 bits (285), Expect = 1e-31
 Identities = 57/160 (35%), Positives = 93/160 (58%), Gaps = 4/160 (2%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD GVGK+ +  +   N F      TI   +  + + V+G+    ++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEE 59

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNKSDLN 130
           Y A+   + R   G +LVY IT R TF+ V R+   ++ ++D + +++ IM+ GNK D  
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           + R V+ E+   LA + G  F+E SA   +NVE+AF T++
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV 159

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

 Score =  111 bits (279), Expect = 4e-31
 Identities = 55/157 (35%), Positives = 87/157 (55%), Gaps = 4/157 (2%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI+L+GDS VGKS ++ RF  + +  +  ST  +       + EGKT+    WDTAGQER
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           ++ + ++YY  A   +LV+D+T++ T+ N+++W  ELR++    I  ++  NK DL+   
Sbjct: 62  FQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPE-IPCIVVANKIDLD-PS 119

Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
               +     AEK  L     SA +  NV K FQ  +
Sbjct: 120 VT--QKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAI 154

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  111 bits (278), Expect = 7e-31
 Identities = 51/128 (39%), Positives = 86/128 (67%)

Query: 42  KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFD 101
           +STIG++F ++TL ++   V+ Q+WDTAGQER+R++  +Y R +  A++VYDIT RQ+F+
Sbjct: 10  QSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFE 69

Query: 102 NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN 161
           N T+W++++ +    +++I + GNK+DL  LR V  E+    A++    F ETSA    N
Sbjct: 70  NTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHN 129

Query: 162 VEKAFQTI 169
           ++  F+ I
Sbjct: 130 IKVLFKKI 137

Length = 176

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

 Score =  109 bits (275), Expect = 3e-30
 Identities = 58/162 (35%), Positives = 94/162 (58%), Gaps = 4/162 (2%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G   VGKS++  +F    F      TI   F ++ +  +G+    +I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLNH 131
           Y  +   Y  G  G +LVY +T R++F+ V + + +  L      ++ I++ GNKSDL+ 
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFE-VVKVIYDKILDMLGKESVPIVLVGNKSDLHM 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V+AE+ + LAE  G +FLE+SA E  NVE+AF+ ++ +I
Sbjct: 121 ERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI 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|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  108 bits (272), Expect = 6e-30
 Identities = 58/165 (35%), Positives = 90/165 (54%), Gaps = 6/165 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G SGVGKS +  RF    F  E +  +   + +R + ++G+ V  +I DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLY-SRQVTIDGEQVSLEIQDTPGQQQ 59

Query: 74  YRA--ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDL 129
                      R A G +LVY IT R +FD V++ L+ +R+    D  I +++ GNK+DL
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADL 119

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALE-ALNVEKAFQTILLDI 173
            H R V+ E+ Q LA + G  F E SA E  L V+  F  +  ++
Sbjct: 120 LHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREV 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|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score =  106 bits (267), Expect = 3e-29
 Identities = 53/154 (34%), Positives = 79/154 (51%), Gaps = 3/154 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            ++  +WDTAGQE
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY     A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 118

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V  +       K+ L + E SA    N EK F
Sbjct: 119 RKVKPKQITFH-RKKNLQYYEISAKSNYNFEKPF 151

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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  106 bits (267), Expect = 5e-29
 Identities = 58/162 (35%), Positives = 92/162 (56%), Gaps = 2/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +N F  E   TI   +  +   ++ +T    I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQE 64

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
            Y A+   Y R   G L VY IT R +F+ +  +  + LR      + +++ GNK DL+ 
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS 124

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V+  + Q LA+  G+ FLETSA + +NV++AF  ++ +I
Sbjct: 125 ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREI 166

Length = 189

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

 Score =  104 bits (261), Expect = 2e-28
 Identities = 57/162 (35%), Positives = 92/162 (56%), Gaps = 3/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNH 131
            Y A+   Y R   G L V+ I  R++F+++  +  +++   DS+ V M + GNK DL  
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V+    Q LA+  G+ ++ETSA     VE+AF T++ +I
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|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score =  104 bits (260), Expect = 3e-28
 Identities = 55/156 (35%), Positives = 93/156 (59%), Gaps = 3/156 (1%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++GD  VGK+ +++RF ++ F    K+TIGV+F     +V G     Q+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH- 131
           ++ I S YYRGA   ++V+D+T   + ++  +WL + L+++  S++++ + G K DL+  
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSP 121

Query: 132 -LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
              A+  +DA  LA +    +   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|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score =  103 bits (258), Expect = 3e-27
 Identities = 58/159 (36%), Positives = 85/159 (53%), Gaps = 13/159 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE-----FATRTLQVEGKTVKAQIWD 67
           FK+V++GD G GK+  + R    EF  + + TIGVE     F T      GK ++   WD
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNC----GK-IRFYCWD 68

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQE++  +   YY     A++++D+T R T+ NV  W R+L    + NI I++ GNK 
Sbjct: 69  TAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKV 127

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           D+ + R V A+       K+ L + E SA    N EK F
Sbjct: 128 DVKN-RQVKAKQVT-FHRKKNLQYYEISAKSNYNFEKPF 164

Length = 219

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

 Score =   99 bits (250), Expect = 1e-26
 Identities = 50/169 (29%), Positives = 85/169 (50%), Gaps = 15/169 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GD  VGK+ +L  +T N+F  E   T+  +  +  + V+GK V   +WDTAGQE 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      LL + +    +F+NV T+W  E++ +   N+ I++ G K DL   
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDLRDD 119

Query: 130 --------NHLRAVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQTI 169
                      + +  E+ + LA++ G   ++E SAL    +++ F   
Sbjct: 120 GNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEA 168

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|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  101 bits (252), Expect = 1e-26
 Identities = 55/173 (31%), Positives = 92/173 (53%), Gaps = 4/173 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-TVKAQIWDTAGQ 71
            KIV++GD   GK++++ RF +  F    K TIG++F +R + + G   V  Q+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL---RELRDHADSNIVIMMAGNKSD 128
           +    +   Y  GA    LVYDIT  Q+F+N+  WL   +++ + +++   +++ GNK+D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKA 181
           L H R V AE     A++  +  +  SA     V   FQ I  ++  +   +A
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLGVKLSQA 173

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 99.5 bits (248), Expect = 2e-26
 Identities = 56/168 (33%), Positives = 92/168 (54%), Gaps = 5/168 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +KIV++G  GVGKS +  +F +N F      TI   +    ++++G+    +I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRK-QVEIDGRQCDLEILDTAGTE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G LLVY +T   + + +   LRE  LR     N+ +++ GNK+DL 
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGE-LREQVLRIKDSDNVPMVLVGNKADLE 119

Query: 131 HLRAVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQTILLDIYHII 177
             R V+ ED   L+++ G   F ETSA +  NV++ F  ++  I  +I
Sbjct: 120 DDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIICVI 167

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

 Score = 98.8 bits (246), Expect = 4e-26
 Identities = 50/161 (31%), Positives = 81/161 (50%), Gaps = 5/161 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRN--EFCLESKSTIGVEFATRTLQV--EGKTVKAQIWDTA 69
           +  ++GD  VGKS ++  F  +   F      T G +   +T+ V     +V+  I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSD 128
           GQE +  +    +       +VYD+T   +F+N +RW+  +R H+   +   ++ GNK D
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           L   R V A  AQ LA+   L F ETSA E +  E  F ++
Sbjct: 122 LTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSL 162

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

 Score = 99.4 bits (248), Expect = 6e-26
 Identities = 54/156 (34%), Positives = 80/156 (51%), Gaps = 7/156 (4%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESK--STIGVEFATRTLQVEGKTVKAQIWDTAG 70
           FK++L+GD GVGK+  + R    EF  E K   T+GVE            +   +WDTAG
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEF--EKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAG 67

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QE++  +   YY     A++++D+T R T+ NV  W R++    + NI I++ GNK D+ 
Sbjct: 68  QEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVK 126

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
             R V A        K+ L + + SA    N EK F
Sbjct: 127 D-RQVKARQIT-FHRKKNLQYYDISAKSNYNFEKPF 160

Length = 215

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

 Score = 96.8 bits (241), Expect = 2e-25
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 4/163 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI   +  + ++V+G+    +I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G +LVY IT + TF+++   LRE  LR     ++ +++ GNK DL 
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQD-LREQILRVKDTEDVPMILVGNKCDLE 119

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V  E  Q LA + G +FLETSA   +NV + F  ++  I
Sbjct: 120 DERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 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|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score = 96.9 bits (242), Expect = 2e-25
 Identities = 49/168 (29%), Positives = 82/168 (48%), Gaps = 16/168 (9%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           +V++GD  VGK+ +L  +T N F  +   T+   ++   ++V+GK V+  +WDTAGQE Y
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSA-DVEVDGKPVELGLWDTAGQEDY 59

Query: 75  RAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL---- 129
             +    Y      L+ + +    +F+NV  +W  E++     N+ I++ G K DL    
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGTKLDLRNDK 118

Query: 130 --------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                        V  E  Q LA++ G + +LE SAL    V + F+ 
Sbjct: 119 STLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEE 166

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

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

 Score = 96.6 bits (241), Expect = 5e-25
 Identities = 60/195 (30%), Positives = 92/195 (47%), Gaps = 20/195 (10%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDT 68
           D   KIV++GD G GK+ +L  + +  F  E   T+  E    TLQV  GK ++  +WDT
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV-FENYVTTLQVPNGKIIELALWDT 59

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKS 127
           AGQE Y  +    Y      L+ Y +    + DNV  +W  E+  H      I++ G K+
Sbjct: 60  AGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVN-HFCPGTPIVLVGLKT 118

Query: 128 DL-------NHLRA-----VAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIY 174
           DL       + LRA     V  E  + +A+  G ++++E SA    NV++ F      I 
Sbjct: 119 DLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAA---IN 175

Query: 175 HIISKKALAAQEAAS 189
             +SK   AA++   
Sbjct: 176 VALSKSGRAARKKKK 190

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

 Score = 94.1 bits (234), Expect = 2e-24
 Identities = 39/164 (23%), Positives = 68/164 (41%), Gaps = 13/164 (7%)

Query: 16  VLIGDSGVGKSNILSRFTRNEFCLESK---STIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           V++G  GVGKS++L+     E    S    +T   +      +++   VK  + DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDV--YVKELDKGKVKLVLVDTPGLD 58

Query: 73  RY-----RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
            +       +     RGA   LLV D T R++ ++    +          I++   GNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPIIL--VGNKI 116

Query: 128 DL-NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           DL            + LA+  G+   E SA     V++ F+ ++
Sbjct: 117 DLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLI 160

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

 Score = 93.7 bits (233), Expect = 3e-24
 Identities = 49/159 (30%), Positives = 87/159 (54%), Gaps = 4/159 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F    F  +   TI  +F  + ++V+      +I DTAG E
Sbjct: 2   YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ ++   Y +   G ++VY +  +QTF ++ + +R+  +R      + I++ GNK DL 
Sbjct: 61  QFASMRDLYIKNGQGFIVVYSLVNQQTFQDI-KPMRDQIVRVKGYEKVPIILVGNKVDLE 119

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
             R V++ + + LAE+ G  F+ETSA     V + F  I
Sbjct: 120 SEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEI 158

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

 Score = 89.9 bits (223), Expect = 9e-23
 Identities = 57/167 (34%), Positives = 93/167 (55%), Gaps = 11/167 (6%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI  +   + ++V+ +    +I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH----ADSNIVIM-MAGNKS 127
           ++ A+   Y +   G  LVY IT +Q+F++    L++LR+      D+  V M + GNK 
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFND----LQDLREQILRVKDTEDVPMILVGNKC 116

Query: 128 DLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDI 173
           DL   R V+ E+ Q LA + G   FLETSA   +NV++ F  ++  I
Sbjct: 117 DLEDERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 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|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 89.0 bits (221), Expect = 2e-22
 Identities = 51/172 (29%), Positives = 88/172 (51%), Gaps = 16/172 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K VL+GD  VGK++++  +T N +  E   T    F+   + V+GK V+ Q+ DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQDE 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           +  +    Y      LL + +    +F N++ +W+ E+R H     +I++ G ++DL   
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILV-GTQADLRTD 119

Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILL 171
                       + V+   A+ LAEK G   ++E SAL   N+++ F T +L
Sbjct: 120 VNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL 171

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

 Score = 89.7 bits (222), Expect = 3e-22
 Identities = 49/149 (32%), Positives = 76/149 (51%), Gaps = 3/149 (2%)

Query: 18  IGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI 77
           +GD G GK+  + R    EF  +  +T+GVE            ++  +WDTAGQE++  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 78  TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA 137
              YY     A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   R V A
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD-RKVKA 118

Query: 138 EDAQILAEKEGLSFLETSALEALNVEKAF 166
           +       K+ L + + SA    N EK F
Sbjct: 119 KSI-TFHRKKNLQYYDISAKSNYNFEKPF 146

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

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

 Score = 87.1 bits (216), Expect = 2e-21
 Identities = 48/170 (28%), Positives = 82/170 (48%), Gaps = 22/170 (12%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI L+GD+ +GK++++ ++   EF  E   T+GV F  +T+ + G  +   IWD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL---- 129
           +  +     + AV  L ++D+T++ T +++  W R+ R    + I I++ G K DL    
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPILV-GTKYDLFADL 120

Query: 130 ---------NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
                       R  A       A K  L F   S   ++NV+K F+ +L
Sbjct: 121 PPEEQEEITKQARKYAK------AMKAPLIF--CSTSHSINVQKIFKFVL 162

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

 Score = 86.4 bits (214), Expect = 2e-21
 Identities = 46/161 (28%), Positives = 79/161 (49%), Gaps = 4/161 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++V+ G  GVGKS+++ RF +  F      TI   +  + +         QI DT G  
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKSICTLQITDTTGSH 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVT---RWLRELRDHADSNIVIMMAGNKSDL 129
           ++ A+           +LVY IT +Q+ + +      + E++ +    I IM+ GNK D 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           +  R V++ +   LA     +F+ETSA    NV++ FQ +L
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|219856 pfam08477, Miro, Miro-like protein

 Score = 84.8 bits (210), Expect = 2e-21
 Identities = 44/116 (37%), Positives = 63/116 (54%), Gaps = 4/116 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V+IGD G GKS++LS+    EF  E     G   A  TL+V+G T    IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTR---WLRELRDHADSNIVIMMAGNK 126
            +     + + A   LLVYD+T R++ + V+R   WL  LR      I +++ GNK
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRK-LGGKIPVILVGNK 115

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|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 = 84.5 bits (209), Expect = 1e-20
 Identities = 53/172 (30%), Positives = 86/172 (50%), Gaps = 4/172 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +KIV++G  GVGKS +  +F  + F      TI   + T+  +++ +     I DTAGQ 
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQ-ARIDNEPALLDILDTAGQA 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL--RDHADSNIVIMMAGNKSDLN 130
            + A+   Y R   G ++ Y +T R +F   + + +EL  R     +I +++ GNK DL 
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEF-KELITRVRLTEDIPLVLVGNKVDLE 120

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL 182
             R V  E+ + LA +    F ETSA     ++ AF  ++ +I    S  AL
Sbjct: 121 QQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESMPAL 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|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 83.4 bits (206), Expect = 9e-20
 Identities = 60/234 (25%), Positives = 96/234 (41%), Gaps = 48/234 (20%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD  VGK+++L R+    F  ++ ST+G  F  +    +       IWDTAG+E+
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAFYLK----QWGPYNISIWDTAGREQ 56

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL- 132
           +  + S Y RGA   +L YD++  Q+ + +      L D A+ + +  + GNK DL    
Sbjct: 57  FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEG 116

Query: 133 ------------------RAVAAEDAQILAEK--------EGLS------FLETSALEAL 160
                             R V  EDA+   ++        E LS        ETSA    
Sbjct: 117 ALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGY 176

Query: 161 NVEKAFQTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACC 214
           NV++ F+ +   +  +I  +   A            T   V   +       CC
Sbjct: 177 NVDELFEYLFNLVLPLILAQRAEANR----------TQGTVNLPNPKRSKSKCC 220

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

 Score = 80.1 bits (198), Expect = 2e-18
 Identities = 49/161 (30%), Positives = 84/161 (52%), Gaps = 5/161 (3%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++VL+GDSGVGKS++ + FT   +   +    G +   RT+ V+G+     ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTR---WLRELRDHADSNIVIMMAGNKSDL 129
               +  +  +     ++VY +T R +F+  +     LR  R   D  I I++ GNKSDL
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAED--IPIILVGNKSDL 118

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
              R V+ ++ +  A      F+ETSA    NV++ F+ I+
Sbjct: 119 VRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIV 159

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

 Score = 78.0 bits (192), Expect = 6e-18
 Identities = 47/163 (28%), Positives = 80/163 (49%), Gaps = 12/163 (7%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+++L+ FTR  F    + T+  E     + V+G  V+  +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTV-FENYIHDIFVDGLAVELSLWDTAGQEE 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           +  + S  Y      +L + +    + +NV ++WL E+R H    + +++   K DL   
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCPG-VKLVLVALKCDLREP 119

Query: 133 RAVAAEDAQILAEKEGLS---------FLETSALEALNVEKAF 166
           R         ++ +EGL+         +LE 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|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 76.4 bits (188), Expect = 2e-17
 Identities = 51/166 (30%), Positives = 84/166 (50%), Gaps = 14/166 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+++L  FT  EF  E   T+   + T   +V+GK V+  +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTD-CRVDGKPVQLALWDTAGQEE 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  A   L+ + I    + +NV T+W+ E+R +   N+ +++ G K DL   
Sbjct: 62  YERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQE 120

Query: 130 -------NHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQ 167
                       V  + A+++A   G   ++E SAL    V+  F+
Sbjct: 121 AVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFE 166

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

 Score = 75.3 bits (185), Expect = 4e-17
 Identities = 50/148 (33%), Positives = 77/148 (52%), Gaps = 10/148 (6%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V +GD  VGK+ +L  +T N F  +   T+   F+   + V+G TV   +WDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQED 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL 132
           Y  +    YRGA   LL + +  + +++NV  +W+ ELR +A   + I++ G K DL   
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYA-PGVPIVLVGTKLDLR-- 118

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEAL 160
                +D Q  A+  G   + T+  E L
Sbjct: 119 -----DDKQFFADHPGAVPITTAQGEEL 141

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

 Score = 75.6 bits (186), Expect = 5e-17
 Identities = 49/160 (30%), Positives = 80/160 (50%), Gaps = 5/160 (3%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           ++V +G +GVGK+ ++ RF  + F  + + T+  E  ++  +V G  V   I DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLNH 131
           + A+     +      LVY +   ++F+ V R LRE  L    D  + I++ GNK D   
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKR-LREEILEVKEDKFVPIVVVGNKIDSLA 118

Query: 132 LRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTIL 170
            R V A DA    E +    F+E SA +  NV + F+ +L
Sbjct: 119 ERQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELL 158

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

 Score = 76.3 bits (188), Expect = 6e-17
 Identities = 42/168 (25%), Positives = 86/168 (51%), Gaps = 13/168 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++V++G S VGK+ I+SRF    F  +   TI  +F  +   + G+  +  I DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 73  RYRAITS-AYYRGAVGALLVYDITKRQTFDNVTRWLRELRD---------HADSNIVIMM 122
            + A+   +   G V  +LV+ +  R++F+ V R   ++ +           +  I +++
Sbjct: 60  PFPAMRRLSILTGDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVI 118

Query: 123 AGNKSDLNHLRAVAAEDA-QILAEKEGLSFLETSALEALNVEKAFQTI 169
            GNK+D +  R V  ++  Q++   E  ++ E SA +  N+++ F+ +
Sbjct: 119 CGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRAL 166

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

 Score = 70.9 bits (174), Expect = 2e-15
 Identities = 49/173 (28%), Positives = 88/173 (50%), Gaps = 17/173 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIVL+GDS  GK+ +L  F ++ F      T+  E  T + +V+ + ++  +WDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPY 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V + W  E+R+    N  +++ G KSDL   
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFC-PNTPVLLVGCKSDLRTD 120

Query: 130 --------NHLRA-VAAEDAQILAEKEG-LSFLETSALEA-LNVEKAFQTILL 171
                   N  +  V+ E  + LA++ G  +++E SA  +  +V   F+   L
Sbjct: 121 LSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFEMATL 173

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

 Score = 68.9 bits (168), Expect = 1e-14
 Identities = 48/167 (28%), Positives = 82/167 (49%), Gaps = 16/167 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++ +T  V+G+TV   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQT-AVDGRTVSLNLWDTAGQEE 63

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH- 131
           Y  + +  Y      ++ + I    +++NV  +W  E+  H   N+ I++ G K DL + 
Sbjct: 64  YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRND 122

Query: 132 -----------LRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                         +  +    LA++   + +LE SAL    V++ F
Sbjct: 123 ADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVF 169

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|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 = 67.9 bits (166), Expect = 2e-14
 Identities = 51/171 (29%), Positives = 80/171 (46%), Gaps = 24/171 (14%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQED 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 120

Query: 133 RAVAAEDAQILAEK--------EGLS---------FLETSALEALNVEKAF 166
           +    +  + L EK        +GL+         +LE SAL    ++  F
Sbjct: 121 K----DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

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 = 67.1 bits (164), Expect = 4e-14
 Identities = 49/169 (28%), Positives = 83/169 (49%), Gaps = 16/169 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH- 131
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL + 
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 120

Query: 132 -----------LRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                         V  E+ + +AEK G   +LE SA     V + F+ 
Sbjct: 121 EHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFEM 169

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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 67.0 bits (163), Expect = 7e-14
 Identities = 46/177 (25%), Positives = 89/177 (50%), Gaps = 23/177 (12%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+  E  T + +++ + ++  +WDT+G   
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 65

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V + W  E+++    N  +++ G KSDL   
Sbjct: 66  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 124

Query: 130 --------NHLRAVAAED--AQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
                   NH +   + D  A +  +    +++E SAL++ N  +       DI+H+
Sbjct: 125 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR-------DIFHV 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|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 65.7 bits (161), Expect = 1e-13
 Identities = 34/124 (27%), Positives = 58/124 (46%), Gaps = 6/124 (4%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G  G GK+ IL +  +    + +  TIG  F   T  VE K VK  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKL-KLGEVVTTIPTIG--FNVET--VEYKNVKFTVWDVGGQDK 55

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHL 132
            R +   YY    G + V D + R+  +     L +L +  +     +++  NK DL   
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 133 RAVA 136
              +
Sbjct: 116 LTES 119

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

 Score = 65.8 bits (161), Expect = 1e-13
 Identities = 49/158 (31%), Positives = 76/158 (48%), Gaps = 8/158 (5%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +IVLIGD GVGKS+++      EF         +   T    V  + V   I DT+ + +
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRV--LPEITIPADVTPERVPTTIVDTSSRPQ 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
            RA  +A  R A    LVY + +  T + + T+WL  +R      + I++ GNKSDL   
Sbjct: 62  DRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDG 120

Query: 130 NHLRAVAAEDAQILAE-KEGLSFLETSALEALNVEKAF 166
           +    +  E   I+ E +E  + +E SA   +NV + F
Sbjct: 121 SSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVF 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|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 64.3 bits (157), Expect = 3e-13
 Identities = 37/164 (22%), Positives = 67/164 (40%), Gaps = 14/164 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQE 72
           K++L+G  GVGK+++  +    +F  +  ST G+      +   E K ++  +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 73  RYRA-----ITS-AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
            Y A     +TS + Y      LLV+D+        V  WLR+++     + VI++ G  
Sbjct: 63  IYHATHQFFLTSRSLY------LLVFDLRTGDEVSRVPYWLRQIKAFGGVSPVILV-GTH 115

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            D +    +  +                S      + +  + I 
Sbjct: 116 IDESCDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAIA 159

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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 60.0 bits (145), Expect = 2e-11
 Identities = 47/176 (26%), Positives = 83/176 (47%), Gaps = 16/176 (9%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +  + F  E   T+   +A  ++ V GK     ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTVGGKQYLLGLYDTAGQE 59

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSD--- 128
            Y  +    Y      L+ + +    +F NV   W+ EL+++A  N+  ++ G + D   
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPYLLIGTQIDLRD 118

Query: 129 -------LNHL--RAVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQTILLDIY 174
                  LN +  + +  E  Q LA++ G   ++E SAL    ++  F   ++ 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|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 59.1 bits (143), Expect = 4e-11
 Identities = 44/172 (25%), Positives = 80/172 (46%), Gaps = 16/172 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 120

Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E  + LA + + + ++E SAL    ++  F   +L
Sbjct: 121 PSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 172

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

 Score = 57.6 bits (139), Expect = 2e-10
 Identities = 37/176 (21%), Positives = 68/176 (38%), Gaps = 34/176 (19%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-----EGKTVKAQIWDT 68
           K++++GDSGVGKS+++    +N+       T+G     R         E KT   ++WD 
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 69  AGQ----ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH----------- 113
            G     E  ++  + +Y    G + V+D+T +++  N+ RW  E  +            
Sbjct: 62  GGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVTN 121

Query: 114 --------ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN 161
                   A + + +++ G K D         E  +           E    E +N
Sbjct: 122 GDYDSEQFAGNPVPLLVIGTKLD------QIPEAKRNWVLTRTAFLSEDFNAEEIN 171

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

 Score = 56.5 bits (136), Expect = 4e-10
 Identities = 40/137 (29%), Positives = 59/137 (43%), Gaps = 11/137 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G    GK+ IL +    E  + +  TIG    T    V  K +   +WD  GQ++
Sbjct: 15  RILMVGLDAAGKTTILYKLKLGE-SVTTIPTIGFNVET----VTYKNISFTVWDVGGQDK 69

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNHL 132
            R +   YY    G + V D   R   D     L R L +    + VI++  NK DL   
Sbjct: 70  IRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD- 128

Query: 133 RAVAAEDAQILAEKEGL 149
               A  A  + EK GL
Sbjct: 129 ----AMKAAEITEKLGL 141

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

 Score = 55.4 bits (134), Expect = 8e-10
 Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 10/120 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
           +K++++G    GK+ IL +F   E  + +  TIG  VE      ++  K ++  +WD  G
Sbjct: 16  YKVIIVGLDNAGKTTILYQFLLGE-VVHTSPTIGSNVE------EIVYKNIRFLMWDIGG 68

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           QE  R+  + YY      +LV D T R+        L ++  H D    V+++  NK DL
Sbjct: 69  QESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDL 128

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 55.0 bits (132), Expect = 2e-09
 Identities = 44/177 (24%), Positives = 88/177 (49%), Gaps = 23/177 (12%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GD+  GK+ +L  F ++ +  ES      E  T + +++   ++  +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYP-ESYVPTVFENYTASFEIDKHRIELNMWDTSGSSY 61

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNK----SD 128
           Y  +    Y  +   L+ +DI++ +T D+V  +W  E ++    N  +++ G K    +D
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKLVLVGCKLDMRTD 120

Query: 129 LNHLR--------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHI 176
           L+ LR         V  E   +LA + G ++++E S+  + N  +       D++H+
Sbjct: 121 LSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVR-------DVFHV 170

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 55.1 bits (132), Expect = 2e-09
 Identities = 34/117 (29%), Positives = 62/117 (52%), Gaps = 3/117 (2%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD   GK+ +L    ++ +      T+  E  T  L+ E + V+  +WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTV-FENYTACLETEEQRVELSLWDTSGSPY 73

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDL 129
           Y  +    Y  +   LL +DI++ + FD+ + +W  E+ D+   +  I++ G K+DL
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYC-PSTRILLIGCKTDL 129

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|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 55.3 bits (133), Expect = 4e-09
 Identities = 27/110 (24%), Positives = 57/110 (51%), Gaps = 13/110 (11%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ----------VEGKTVK- 62
           +++++GDSGVGKS+++    +         TIG     + +           ++G + + 
Sbjct: 23  RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERD 82

Query: 63  --AQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL 110
              ++WD +G ERY+   S +Y    G + V+D+++R+T  ++ +W  E+
Sbjct: 83  FFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV 132

Length = 334

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

 Score = 52.8 bits (127), Expect = 6e-09
 Identities = 33/127 (25%), Positives = 59/127 (46%), Gaps = 7/127 (5%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +++L+G    GKS +L +    E  + +  T+G  F    LQ+E   +   +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAEL-VTTIPTVG--FNVEMLQLEKH-LSLTVWDVGGQEK 56

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHL 132
            R +   Y     G + V D +     D   + L+  L++     + +++  NK DL   
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG- 115

Query: 133 RAVAAED 139
            A+ AE+
Sbjct: 116 -ALTAEE 121

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|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 52.2 bits (126), Expect = 1e-08
 Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 6/118 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG  F   T+    K VK  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEI-VTTIPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDL 129
             R +   Y+      + V D   R   +     L   L +   ++  +++  NK DL
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDL 127

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

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

 Score = 51.7 bits (124), Expect = 2e-08
 Identities = 35/118 (29%), Positives = 54/118 (45%), Gaps = 8/118 (6%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTI-GVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +I+++G    GK+ IL +    +    S +TI  V F   T  V  K VK  +WD  GQ+
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQ----SVTTIPTVGFNVET--VTYKNVKFNVWDVGGQD 64

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL 129
           + R +   YY G  G + V D   R   D       R + D    + ++++  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|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 51.7 bits (124), Expect = 2e-08
 Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 7/121 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV---EGKTVKAQIWDTA 69
             IV++G    GK+ +L R   NEF + +  T G  F T  ++V     K V    WD  
Sbjct: 4   LHIVMLGLDSAGKTTVLYRLKFNEF-VNTVPTKG--FNTEKIKVSLGNAKGVTFHFWDVG 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSD 128
           GQE+ R +  +Y R   G + V D    +  +     L ++   +++  V +++  NK D
Sbjct: 61  GQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQD 120

Query: 129 L 129
           L
Sbjct: 121 L 121

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|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 51.4 bits (123), Expect = 3e-08
 Identities = 47/178 (26%), Positives = 73/178 (41%), Gaps = 28/178 (15%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD----- 67
            ++ ++G  GVGK+ I+ +F   EF  E   T         + + G+     I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 68  ----TAGQE----RYRAI--TSAYYRGAVGALLVYDITKRQTFDNVTRWLR----ELRDH 113
               TAGQE    R+R +  + A+       +LVYDI    +F  V + LR    E R  
Sbjct: 61  RYPGTAGQEWMDPRFRGLRNSRAF-------ILVYDICSPDSFHYV-KLLRQQILETRPA 112

Query: 114 ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTIL 170
            +    I++ GNK D    R        +L  K     +LE SA    ++   F+ +L
Sbjct: 113 GNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELL 170

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

 Score = 50.0 bits (120), Expect = 6e-08
 Identities = 32/116 (27%), Positives = 57/116 (49%), Gaps = 5/116 (4%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           I L+G    GK+ +++     +F  ++  T+G  F  R +     T+K  +WD  GQ R+
Sbjct: 2   ITLVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGNVTIK--VWDLGGQPRF 57

Query: 75  RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDL 129
           R++   Y RG    + V D   R+  +     L +L +  +   I +++ GNK+DL
Sbjct: 58  RSMWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDL 113

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

 Score = 48.9 bits (116), Expect = 2e-07
 Identities = 35/123 (28%), Positives = 56/123 (45%), Gaps = 16/123 (13%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           ++V +G  G GK+ IL +  ++EF ++   TIG    T    VE K +K  IWD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEF-MQPIPTIGFNVET----VEYKNLKFTIWDVGGKHK 55

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL------RELRDHADSNIVIMMAGNKS 127
            R +   YY      + V D + R         L      +ELRD      ++++  NK 
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRD-----ALLLIFANKQ 110

Query: 128 DLN 130
           D+ 
Sbjct: 111 DVA 113

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

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 41/162 (25%), Positives = 71/162 (43%), Gaps = 13/162 (8%)

Query: 15  IVLIGDSGVGKSNIL----SRFTRN-EFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           ++++G    GK+  L    ++F++N +    SK T  V     T++V    +    WD  
Sbjct: 2   VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGKARLM--FWDLG 59

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSD 128
           GQE  R++   YY  + G + V D T R+ F+       + + + A   + +++  NK D
Sbjct: 60  GQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQD 119

Query: 129 LNHLRAVAA-----EDAQILAEKEGLSFLETSALEALNVEKA 165
           L    +VA      +D   L  +        SALE   VE+ 
Sbjct: 120 LPDALSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVEEG 161

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|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 47.5 bits (113), Expect = 7e-07
 Identities = 34/117 (29%), Positives = 56/117 (47%), Gaps = 6/117 (5%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G    GK+ IL +    E  + +  TIG    T    VE K +K  +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEV-VTTIPTIGFNVET----VEYKNLKFTMWDVGGQDK 73

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDL 129
            R +   YY+   G + V D   R+   +    L R L +    + V+++  NK DL
Sbjct: 74  LRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

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

 Score = 47.3 bits (112), Expect = 7e-07
 Identities = 37/129 (28%), Positives = 58/129 (44%), Gaps = 16/129 (12%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDK 73

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTF----DNVTRWLR--ELRDHADSNIVIMMAGNKS 127
            R +   Y++   G + V D   R       D + R L   ELRD      V+++  NK 
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRD-----AVLLVFANKQ 128

Query: 128 DLNHLRAVA 136
           DL +    A
Sbjct: 129 DLPNAMNAA 137

Length = 181

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 46.2 bits (110), Expect = 2e-06
 Identities = 32/117 (27%), Positives = 54/117 (46%), Gaps = 6/117 (5%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDK 56

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDL 129
            R +   Y++   G + V D   R+        L R L +    + V+++  NK DL
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDL 113

The Arf1-Arf5-like 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 and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

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

 Score = 45.5 bits (108), Expect = 3e-06
 Identities = 44/173 (25%), Positives = 65/173 (37%), Gaps = 24/173 (13%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV------------ 61
           KIV+IG  G GK+     F R         T     +         TV            
Sbjct: 12  KIVVIGPVGAGKTT----FVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED 67

Query: 62  -KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
               ++ T GQER++ +     RGAVGA+++ D ++  TF      +  L       +V+
Sbjct: 68  TGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAE-EIIDFLTSRNPIPVVV 126

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSF--LETSALEALNVEKAFQTILL 171
             A NK DL    A+  E  +   + E LS   +E  A E          +LL
Sbjct: 127 --AINKQDLFD--ALPPEKIREALKLELLSVPVIEIDATEGEGARDQLDVLLL 175

Length = 187

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

 Score = 43.8 bits (103), Expect = 2e-05
 Identities = 44/190 (23%), Positives = 76/190 (40%), Gaps = 38/190 (20%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKST--------------IGVEFATRTLQ-V 56
             K V++GD+ VGK+ ++     N+   + +                +  E   R+   V
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV 61

Query: 57  EGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHAD 115
           +G +V  ++WDT G +  +    AY R  V  LL + I    +  NV T W  E+R    
Sbjct: 62  DGVSVSLRLWDTFG-DHDKDRRFAYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIRHFCP 119

Query: 116 SNIVIMMAGNKSDLNHL-------------------RAVAAEDAQILAEKEGLSFLETSA 156
              VI++ G K DL +                      +  E  + +A++ G+ + ETS 
Sbjct: 120 RVPVILV-GCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSV 178

Query: 157 LEALNVEKAF 166
           +    V+  F
Sbjct: 179 VTQFGVKDVF 188

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|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 40.1 bits (94), Expect = 2e-04
 Identities = 45/147 (30%), Positives = 64/147 (43%), Gaps = 21/147 (14%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G  G GK+ IL R    E  + +  TIG    T    V  K +K Q+WD  GQ  
Sbjct: 1   RILILGLDGAGKTTILYRLQVGE-VVTTIPTIGFNVET----VTYKNLKFQVWDLGGQTS 55

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL------RELRDHADSNIVIMMAGNKS 127
            R     YY      + V D T R         L       EL+D      V+++  NK 
Sbjct: 56  IRPYWRCYYSNTDAIIYVVDSTDRDRLGISKSELHAMLEEEELKD-----AVLLVFANKQ 110

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLET 154
           D+      A  +A++ AEK GLS L+ 
Sbjct: 111 DM----PGALSEAEV-AEKLGLSELKD 132

Arl1 subfamily. 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. Length = 158

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 41/182 (22%), Positives = 82/182 (45%), Gaps = 38/182 (20%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE-----FATRTLQV---EGKTVKAQIW 66
           +V+ G   VGKS+++++ TR +           E     F T++L V   + K ++ Q+ 
Sbjct: 3   LVIAGYPNVGKSSLVNKLTRAK----------PEVAPYPFTTKSLFVGHFDYKYLRWQVI 52

Query: 67  DTAG------QER----YRAITS-AYYRGAVGALLVYDITKR--QTFDNVTRWLRELRDH 113
           DT G      +ER     +AIT+ A+ R AV  L   D ++    + +      +E++  
Sbjct: 53  DTPGILDRPLEERNTIEMQAITALAHLRAAV--LFFIDPSETCGYSIEEQLSLFKEIKPL 110

Query: 114 ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            +  +++++  NK DL     +   + +   EKEG   ++ S L    V++  +    ++
Sbjct: 111 FNKPVIVVL--NKIDLLTEEDL--SEIEKELEKEGEEVIKISTLTEEGVDEL-KNKACEL 165

Query: 174 YH 175
             
Sbjct: 166 LL 167

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|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 39.7 bits (93), Expect = 3e-04
 Identities = 36/140 (25%), Positives = 60/140 (42%), Gaps = 15/140 (10%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE--FATRTLQVEGKTVKAQIWDTAGQ 71
           +I+L+G    GK+ IL      +   E  S I     F  + +Q +G   K  +WD  GQ
Sbjct: 17  RILLLGLDNAGKTTIL-----KQLASEDISHITPTQGFNIKNVQADGF--KLNVWDIGGQ 69

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLN 130
            + R     Y+      + V D   R+ F+   + L EL +    + + +++  NK DL 
Sbjct: 70  RKIRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDL- 128

Query: 131 HLRAVAAEDAQILAEKEGLS 150
               + A  A+ +AE   L 
Sbjct: 129 ----LTAAPAEEVAEALNLH 144

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|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 37.9 bits (88), Expect = 0.001
 Identities = 41/159 (25%), Positives = 75/159 (47%), Gaps = 13/159 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+ ++G+   GKS ++ R+    + ++ +S  G  F    L V+G++    I D  G   
Sbjct: 2   KLGIVGNLRSGKSALVHRYLTGSY-VQLESPEGGRFKKEVL-VDGQSHLLLIRDEGGA-- 57

Query: 74  YRAITSAYYRGAVGA-LLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
                 A + G V A + V+ +    +F  V R   +L  + + S I +++ G +  ++ 
Sbjct: 58  ----PDAQFAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILVGTQDAISA 113

Query: 132 LRAVAAEDA---QILAEKEGLSFLETSALEALNVEKAFQ 167
                 +DA   Q+ A+ +  S+ ET A   LNVE+ FQ
Sbjct: 114 SNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQ 152

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. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 31/121 (25%), Positives = 50/121 (41%), Gaps = 12/121 (9%)

Query: 15  IVLIGDSGVGKSNILSRF-TRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAGQ 71
           I+++G    GK+ I+++    N        T+G  VE        +   +    +D +GQ
Sbjct: 2   ILVLGLDNSGKTTIINQLKPSNAQSQNIVPTVGFNVE------SFKKGNLSFTAFDMSGQ 55

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSD 128
            +YR +   YY+   G + V D + R         L  L +H D     I I+   NK D
Sbjct: 56  GKYRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDIKHRRIPILFYANKMD 115

Query: 129 L 129
           L
Sbjct: 116 L 116

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

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 36.5 bits (85), Expect = 0.003
 Identities = 33/120 (27%), Positives = 55/120 (45%), Gaps = 10/120 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +F   E       T+G  F  +TL+  G  +   IWD  GQ+
Sbjct: 15  MRILMLGLDNAGKTTILKKFN-GEDISTISPTLG--FNIKTLEYNGYKL--NIWDVGGQK 69

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH---ADSNIVIMMAGNKSDL 129
             R+    Y+      + V D + R   ++  R L++L      A + ++I    NK DL
Sbjct: 70  SLRSYWRNYFESTDALIWVVDSSDRARLEDCKRELQKLLVEERLAGATLLIF--ANKQDL 127

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. Length = 173

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	217
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
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	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
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	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
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	100.0
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	100.0
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.98
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.98
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
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
PTZ00099	176	rab6; Provisional	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.95
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.94
COG1100	219	GTPase SAR1 and related small G proteins [General	99.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.94
PRK12299	335	obgE GTPase CgtA; Reviewed	99.93
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.93
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.93
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.93
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.93
PRK04213	201	GTP-binding protein; Provisional	99.93
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.92
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.92
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.92
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.91
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.91
KOG1673	205	consensus Ras GTPases [General function prediction	99.91
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.91
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.9
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.9
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.9
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.9
PRK15494	339	era GTPase Era; Provisional	99.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.89
cd00881	189	GTP_translation_factor GTP translation factor fami	99.89
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.89
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.89
PRK12297	424	obgE GTPase CgtA; Reviewed	99.89
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
PRK11058	426	GTPase HflX; Provisional	99.89
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.89
PRK12296	500	obgE GTPase CgtA; Reviewed	99.89
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.88
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.88
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.88
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.88
PRK12298	390	obgE GTPase CgtA; Reviewed	99.87
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.87
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.87
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.87
PRK00089	292	era GTPase Era; Reviewed	99.87
CHL00189	742	infB translation initiation factor 2; Provisional	99.87
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.87
PRK05306	787	infB translation initiation factor IF-2; Validated	99.86
COG1159	298	Era GTPase [General function prediction only]	99.86
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.86
PRK05433	600	GTP-binding protein LepA; Provisional	99.86
PRK00093	435	GTP-binding protein Der; Reviewed	99.86
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.85
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.85
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.85
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.85
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.84
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.83
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.83
PRK00093	435	GTP-binding protein Der; Reviewed	99.83
COG2229	187	Predicted GTPase [General function prediction only	99.83
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.83
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.83
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.83
COG1160	444	Predicted GTPases [General function prediction onl	99.83
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.82
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.82
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.82
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
PRK12317	425	elongation factor 1-alpha; Reviewed	99.82
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.81
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.81
PRK10218	607	GTP-binding protein; Provisional	99.81
COG0218	200	Predicted GTPase [General function prediction only	99.81
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.81
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.81
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.81
COG0486	454	ThdF Predicted GTPase [General function prediction	99.81
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.8
PRK04004	586	translation initiation factor IF-2; Validated	99.8
PRK12736	394	elongation factor Tu; Reviewed	99.8
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
CHL00071	409	tufA elongation factor Tu	99.79
COG1160	444	Predicted GTPases [General function prediction onl	99.79
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.78
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.78
PRK12735	396	elongation factor Tu; Reviewed	99.78
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.78
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.77
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.77
COG2262	411	HflX GTPases [General function prediction only]	99.77
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.77
COG1084	346	Predicted GTPase [General function prediction only	99.76
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.75
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.75
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.75
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.74
PRK00049	396	elongation factor Tu; Reviewed	99.73
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.73
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.72
PLN00043	447	elongation factor 1-alpha; Provisional	99.71
PLN03127	447	Elongation factor Tu; Provisional	99.71
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.71
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.71
PLN03126	478	Elongation factor Tu; Provisional	99.7
COG1163	365	DRG Predicted GTPase [General function prediction	99.7
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.7
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.7
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.7
PRK13351	687	elongation factor G; Reviewed	99.7
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.69
COG3596	296	Predicted GTPase [General function prediction only	99.69
COG0536	369	Obg Predicted GTPase [General function prediction	99.68
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.68
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.68
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.68
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.68
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.68
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.67
PTZ00141	446	elongation factor 1- alpha; Provisional	99.67
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.67
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.65
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.65
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.63
PRK12739	691	elongation factor G; Reviewed	99.63
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.63
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.63
KOG1145	683	consensus Mitochondrial translation initiation fac	99.63
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.61
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.6
PRK09866	741	hypothetical protein; Provisional	99.59
PRK00007	693	elongation factor G; Reviewed	99.58
PRK09602	396	translation-associated GTPase; Reviewed	99.58
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.57
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.56
KOG0090	238	consensus Signal recognition particle receptor, be	99.55
PRK12740	668	elongation factor G; Reviewed	99.54
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.5
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.5
PTZ00258	390	GTP-binding protein; Provisional	99.48
PRK14845	1049	translation initiation factor IF-2; Provisional	99.48
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.48
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.48
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.47
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.47
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.46
PRK13768	253	GTPase; Provisional	99.44
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.44
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.44
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.43
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.42
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.42
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.42
PRK07560	731	elongation factor EF-2; Reviewed	99.42
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.41
PTZ00416	836	elongation factor 2; Provisional	99.39
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.39
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.39
PRK09601	364	GTP-binding protein YchF; Reviewed	99.39
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.38
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.38
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.38
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.37
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.37
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.36
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.35
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.34
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.33
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.32
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.3
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.29
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.28
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.27
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.26
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.25
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.23
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.23
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.23
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.21
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.17
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.17
KOG0410	410	consensus Predicted GTP binding protein [General f	99.17
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.15
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.15
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.14
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.11
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.1
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.1
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.09
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.07
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.06
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.06
PRK12289	352	GTPase RsgA; Reviewed	99.05
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.05
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.99
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.97
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.95
PRK00098	298	GTPase RsgA; Reviewed	98.95
PRK12288	347	GTPase RsgA; Reviewed	98.94
KOG0460	449	consensus Mitochondrial translation elongation fac	98.89
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.83
KOG2486	320	consensus Predicted GTPase [General function predi	98.83
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.82
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.79
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.77
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.76
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.75
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.73
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.73
KOG1143	591	consensus Predicted translation elongation factor	98.71
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.71
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.69
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.69
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.68
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.67
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.67
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.67
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.63
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.61
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.61
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.61
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.61
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.6
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.6
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.6
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.58
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.57
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.56
COG1161	322	Predicted GTPases [General function prediction onl	98.53
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.48
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.48
PRK01889	356	GTPase RsgA; Reviewed	98.46
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.45
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.45
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.42
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.4
PRK12288	347	GTPase RsgA; Reviewed	98.38
cd03112	158	CobW_like The function of this protein family is u	98.38
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.37
COG1162	301	Predicted GTPases [General function prediction onl	98.36
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.35
PRK13796	365	GTPase YqeH; Provisional	98.33
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.33
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.31
PRK14974	336	cell division protein FtsY; Provisional	98.3
COG3523	1188	IcmF Type VI protein secretion system component Va	98.3
PRK12289	352	GTPase RsgA; Reviewed	98.3
PRK13796	365	GTPase YqeH; Provisional	98.3
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.29
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.29
PRK10416	318	signal recognition particle-docking protein FtsY;	98.27
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.26
COG1162	301	Predicted GTPases [General function prediction onl	98.23
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	98.19
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.13
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.12
PRK00098	298	GTPase RsgA; Reviewed	98.12
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.12
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.11
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.09
PRK13695	174	putative NTPase; Provisional	98.06
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.01
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.0
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.99
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.98
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.96
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.96
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.92
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.87
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.86
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.86
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.84
COG0523	323	Putative GTPases (G3E family) [General function pr	97.84
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.84
PRK10867	433	signal recognition particle protein; Provisional	97.83
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.83
cd03114	148	ArgK-like The function of this protein family is u	97.82
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.8
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.8
TIGR00959	428	ffh signal recognition particle protein. This mode	97.77
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.76
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.75
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.72
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.69
KOG2484	435	consensus GTPase [General function prediction only	97.67
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.67
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.65
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.64
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.64
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.61
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.54
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.51
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.51
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.47
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.46
PRK08118	167	topology modulation protein; Reviewed	97.46
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.44
cd03111	106	CpaE_like This protein family consists of proteins	97.43
cd03110	179	Fer4_NifH_child This protein family's function is	97.42
PRK07261	171	topology modulation protein; Provisional	97.41
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.37
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.35
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.32
KOG0099	379	consensus G protein subunit Galphas, small G prote	97.3
PRK14738	206	gmk guanylate kinase; Provisional	97.26
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.26
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.25
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.25
PRK04195	482	replication factor C large subunit; Provisional	97.25
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.24
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.23
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.23
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.22
KOG1533	290	consensus Predicted GTPase [General function predi	97.22
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.21
PRK01889	356	GTPase RsgA; Reviewed	97.18
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.17
cd02036	179	MinD Bacterial cell division requires the formatio	97.17
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.17
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.15
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	97.14
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.14
PRK14737	186	gmk guanylate kinase; Provisional	97.14
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.11
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.1
PRK06217	183	hypothetical protein; Validated	97.09
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.07
smart00382	148	AAA ATPases associated with a variety of cellular	97.06
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.06
PRK10646	153	ADP-binding protein; Provisional	97.06
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.05
PF00004	132	AAA: ATPase family associated with various cellula	97.05
PRK03839	180	putative kinase; Provisional	97.04
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.02
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.01
KOG0781	587	consensus Signal recognition particle receptor, al	97.01
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.01
PRK14530	215	adenylate kinase; Provisional	97.01
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.99
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.98
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.97
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.94
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.93
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.92
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.92
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.92
PRK05480	209	uridine/cytidine kinase; Provisional	96.92
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.92
PRK14531	183	adenylate kinase; Provisional	96.91
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.91
COG0802	149	Predicted ATPase or kinase [General function predi	96.91
PRK08727	233	hypothetical protein; Validated	96.9
PRK13949	169	shikimate kinase; Provisional	96.9
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.88
PRK13851	344	type IV secretion system protein VirB11; Provision	96.88
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.88
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	96.87
PRK05541	176	adenylylsulfate kinase; Provisional	96.87
PRK14532	188	adenylate kinase; Provisional	96.87
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.83
PRK08233	182	hypothetical protein; Provisional	96.82
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.82
COG4598	256	HisP ABC-type histidine transport system, ATPase c	96.82

>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=7.7e-45  Score=257.24  Aligned_cols=202  Identities=46%  Similarity=0.777  Sum_probs=178.5

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ....++.+||+|+|..|||||.|+.||.++.|.+.+..|.++++....+.+++..++++||||+|+++|+++...|+++|
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCC
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe-EEEecCCCCCCHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS-FLETSALEALNVEK  164 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~vSa~~~~gv~~  164 (217)
                      +++|+|||+++.+||..+..|+.++..+...++|.++|+||+|+.+.+.+..++++.++..++++ ++++||+++.++++
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~  162 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVED  162 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHH
Confidence            99999999999999999999999999999889999999999999999999999999999999999 99999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCceeeecCCCCCcccccccc
Q 042687          165 AFQTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCS  215 (217)
Q Consensus       165 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (217)
                      +|..|...+.+.+........        .....++..+.+.++..++||.
T Consensus       163 ~F~~la~~lk~~~~~~~~~~~--------~~~~~~ql~~~p~~~~~~~~C~  205 (205)
T KOG0084|consen  163 AFLTLAKELKQRKGLHVKWST--------ASLESVQLKGTPVKKSNGGCCE  205 (205)
T ss_pred             HHHHHHHHHHHhcccCCCCCc--------CCCCceeeCCCCcccccCCCCC
Confidence            999998887665443332221        1223333333455566666774

>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=6.2e-41  Score=240.73  Aligned_cols=179  Identities=46%  Similarity=0.858  Sum_probs=170.6

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhh
Q 042687            2 AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAY   81 (217)
Q Consensus         2 ~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   81 (217)
                      +.|...++++.+||+++|.++||||+|+.+|..+.|...+..|.++++..+.+.+++..+.+++|||+|+++|+.+...|
T Consensus         2 ~~~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sY   81 (207)
T KOG0078|consen    2 SAMAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAY   81 (207)
T ss_pred             CccccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHH
Confidence            45656688999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      ++.|+++++|||+++..||+.+..|+..+.++.+.++|+++|+||+|+...+.+..+..+.++.++|++++|+||++|.|
T Consensus        82 yrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~N  161 (207)
T KOG0078|consen   82 YRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFN  161 (207)
T ss_pred             HhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCC
Confidence            99999999999999999999999999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHIISKK  180 (217)
Q Consensus       162 v~~~~~~l~~~~~~~~~~~  180 (217)
                      |++.|..|.+.+..+..+.
T Consensus       162 I~eaF~~La~~i~~k~~~~  180 (207)
T KOG0078|consen  162 IEEAFLSLARDILQKLEDA  180 (207)
T ss_pred             HHHHHHHHHHHHHhhcchh
Confidence            9999999999997744443

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.9e-41  Score=237.06  Aligned_cols=198  Identities=42%  Similarity=0.697  Sum_probs=173.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+++|..+||||||+.||..+.|.+...+|++..+....+.+++..++|.||||+|+++|.++.+.|+++|+++|
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            35699999999999999999999999998888999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||+++.+||..++.|+..+.+..+.++.+.+++||+|+.+.+.+..+++..++...+..++++||+++.|++++|..|
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            99999999999999999999999988788888999999999989999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhccCCCCCCceeeecCCCCCcccccccc
Q 042687          170 LLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCS  215 (217)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (217)
                      .+.+.+...+...      +.++-+.+..++..+ ++.... +||+
T Consensus       163 a~~lp~~~~~~~~------~~~~~~~g~~l~~~~-~~~~~~-~~C~  200 (200)
T KOG0092|consen  163 AEKLPCSDPQERQ------GLPNRRQGVDLNSNQ-EPARPS-GCCA  200 (200)
T ss_pred             HHhccCccccccc------cccccccceecccCC-CCcCcC-CcCC
Confidence            9988665333322      222333555555554 333333 6663

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.8e-40  Score=237.33  Aligned_cols=197  Identities=76%  Similarity=1.116  Sum_probs=182.2

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      +.+.++.+||+++|+++||||-|+.||..+.|..+..+|.++++....+.++++.++.+||||+|+++|++....|++.|
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            36788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      .++++|||++.+.+|+.+.+|+.+++.+.+.++++++|+||+||.+.+.+..+++..++...+..++++||.++.+++.+
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            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccC-CCCCCceeeec
Q 042687          166 FQTILLDIYHIISKKALAAQEAASST-GLPQGTTINVA  202 (217)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  202 (217)
                      |..++..+++..+++........-.. ...+++.++..
T Consensus       168 F~~~l~~I~~~vs~k~~~~~~~~~~~~~~~~g~~~~~~  205 (222)
T KOG0087|consen  168 FERVLTEIYKIVSKKQLDENNDPLESSSPLQGQEISVH  205 (222)
T ss_pred             HHHHHHHHHHHHHHHhhhccccccccCCCCCCcccccc
Confidence            99999999999998887776543322 44455555554

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.4e-41  Score=236.26  Aligned_cols=168  Identities=36%  Similarity=0.695  Sum_probs=158.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|..+|||||||+||+.+.|...|.+|+|.++....+.+.++++.+++|||+|+++|+.+...|++++.++|+
T Consensus        21 k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vavi  100 (221)
T KOG0094|consen   21 KKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVI  100 (221)
T ss_pred             eEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEE
Confidence            45999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCC-CCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||+++..||+...+|++.+....+. ++.+++|+||.||.+++++..+|.+..++++++.|+++||+.|.||.++|..|
T Consensus       101 VyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrI  180 (221)
T KOG0094|consen  101 VYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRI  180 (221)
T ss_pred             EEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHH
Confidence            99999999999999999999887765 48888999999999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHHH
Q 042687          170 LLDIYHIIS  178 (217)
Q Consensus       170 ~~~~~~~~~  178 (217)
                      ...+.++..
T Consensus       181 aa~l~~~~~  189 (221)
T KOG0094|consen  181 AAALPGMEV  189 (221)
T ss_pred             HHhccCccc
Confidence            887766533

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=4.2e-39  Score=242.73  Aligned_cols=214  Identities=89%  Similarity=1.231  Sum_probs=178.1

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhh
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSA   80 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   80 (217)
                      |..+.....++.+||+++|++|||||||+++|.+..+...+.+|.+.++....+.+++..+.+.+||++|++.+..++..
T Consensus         1 ~~~~~~~~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~   80 (216)
T PLN03110          1 MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSA   80 (216)
T ss_pred             CCCCcccccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHH
Confidence            45566667778899999999999999999999999988888888888888888889999999999999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ++++++++|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+..++...++...+++++++||++|.
T Consensus        81 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~  160 (216)
T PLN03110         81 YYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEAT  160 (216)
T ss_pred             HhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            99999999999999999999999999999988776689999999999998777777888888998899999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-CCCCCCceeeecCCCCCcccccccc
Q 042687          161 NVEKAFQTILLDIYHIISKKALAAQEAASS-TGLPQGTTINVANLSGNVKGKACCS  215 (217)
Q Consensus       161 gv~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  215 (217)
                      |++++|++|++.+.+...+........+.. ...++++.+...+- .+.+++|||+
T Consensus       161 ~v~~lf~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~c~  215 (216)
T PLN03110        161 NVEKAFQTILLEIYHIISKKALAAQEAAANSGLPGQGTTINVADT-SGNNKRGCCS  215 (216)
T ss_pred             CHHHHHHHHHHHHHHHhhccccccccCcccccCcCcCCcccccCc-cCCCCCCCcC
Confidence            999999999999988765544433322221 12234455555333 3345557875

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2e-39  Score=227.27  Aligned_cols=180  Identities=50%  Similarity=0.852  Sum_probs=169.4

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .+.+.+|++++|+.|||||.|+.+|+...|.+.++.|.+.++....+.++++.++++||||+|++.|++....|++.+.+
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++.+++|..+..|+..++.+...+..+++++||+||...+.++.+|.+.|++++++.++++||+++.|++++|.
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~  161 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFI  161 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHH
Confidence            99999999999999999999999999877999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhh
Q 042687          168 TILLDIYHIISKKALAAQEA  187 (217)
Q Consensus       168 ~l~~~~~~~~~~~~~~~~~~  187 (217)
                      .....+++..+..-......
T Consensus       162 nta~~Iy~~~q~g~~~~~~~  181 (216)
T KOG0098|consen  162 NTAKEIYRKIQDGVFDDINE  181 (216)
T ss_pred             HHHHHHHHHHHhcccccccc
Confidence            99999998876655444433

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=6.5e-39  Score=219.36  Aligned_cols=169  Identities=46%  Similarity=0.733  Sum_probs=159.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .+...+||+++|.+|||||||+.+|..+.|++....|++.++..+.+.+++..+++.||||+|+++|+.+...|++.|.+
T Consensus         7 ~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqG   86 (209)
T KOG0080|consen    7 GYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQG   86 (209)
T ss_pred             CcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCce
Confidence            45567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +|+|||++.+++|..+..|+.++..+.. .++..++|+||+|.+..+.+..+|...|++++++-++++||++..|++..|
T Consensus        87 iIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~F  166 (209)
T KOG0080|consen   87 IILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCF  166 (209)
T ss_pred             eEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHH
Confidence            9999999999999999999999988764 466678999999998889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      +.+++++++.
T Consensus       167 eelveKIi~t  176 (209)
T KOG0080|consen  167 EELVEKIIET  176 (209)
T ss_pred             HHHHHHHhcC
Confidence            9999988663

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=2.3e-38  Score=236.60  Aligned_cols=195  Identities=35%  Similarity=0.659  Sum_probs=164.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+|+|++|||||||+++|.++.+...+.+|.+.++....+.++ +..+.+.+||+||++.+..++..+++++|++|+|
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            589999999999999999999999988888998888877777777 7889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF  166 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~~~  166 (217)
                      ||++++++++.+..|+..+....    ..++|++||+||+|+...+.+..+++..++...+ .+++++||++|.|++++|
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            99999999999999998876542    2478999999999997656777888999999998 689999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhccCCCCCCceeeecCCCCCccccccc
Q 042687          167 QTILLDIYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACC  214 (217)
Q Consensus       167 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (217)
                      ++|++.+.+..........       ......+..++..++++.+|||
T Consensus       161 ~~l~~~l~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~  201 (201)
T cd04107         161 RFLVKNILANDKNLQQAET-------PEDGSVIDLKQTTTKKKSKGCC  201 (201)
T ss_pred             HHHHHHHHHhchhhHhhcC-------CCcccccccccceeccccCCCC
Confidence            9999988654333222222       1123455556666777777998

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.

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=2.5e-38  Score=221.33  Aligned_cols=171  Identities=37%  Similarity=0.681  Sum_probs=158.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+++|.+|+|||||++++++..|...+..|++.++..+.+.++++.+.++||||+|+++|+++...+++.+|..
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcC   85 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCC   85 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceE
Confidence            35669999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC----CCCeEEEEEeCCCCccc--cccCHHHHHHHHHHcC-CeEEEecCCCCCC
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKSDLNHL--RAVAAEDAQILAEKEG-LSFLETSALEALN  161 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~vSa~~~~g  161 (217)
                      ++|||++++.+|+.+..|..++.....    ...|+||++||+|+...  +.++...+..++...| +|||++||+...|
T Consensus        86 vlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~N  165 (210)
T KOG0394|consen   86 VLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATN  165 (210)
T ss_pred             EEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEeccccccc
Confidence            999999999999999999999877653    56899999999999663  7888899999998776 8999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHIISK  179 (217)
Q Consensus       162 v~~~~~~l~~~~~~~~~~  179 (217)
                      |+++|..+.+.+++....
T Consensus       166 V~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  166 VDEAFEEIARRALANEDR  183 (210)
T ss_pred             HHHHHHHHHHHHHhccch
Confidence            999999999998887655

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=7.4e-38  Score=230.66  Aligned_cols=166  Identities=39%  Similarity=0.726  Sum_probs=153.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .++.+||+|+|..|||||||+.+|..+.+...+.++.+.++....+.+++..+.+++||++|++.|..++..+++++|++
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            45679999999999999999999999988877778888888778888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++++++.+..|+..+....+ ++|++||+||.|+.+.+.+..++++.+++..+++++++||++|.|++++|++
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~~-~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~  161 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE  161 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            999999999999999999999977664 8999999999999877788888999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          169 ILLDIYH  175 (217)
Q Consensus       169 l~~~~~~  175 (217)
                      |++.+..
T Consensus       162 l~~~i~~  168 (189)
T cd04121         162 LARIVLM  168 (189)
T ss_pred             HHHHHHH
Confidence            9987754

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

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.7e-38  Score=214.41  Aligned_cols=169  Identities=48%  Similarity=0.819  Sum_probs=162.5

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+..++.+|+|.+|+|||+|+.+|..+.|...|..|++.++....+.++|..++++|||++|++.|+.+...|++..++
T Consensus         4 ~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthg   83 (198)
T KOG0079|consen    4 DYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHG   83 (198)
T ss_pred             cHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCce
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +++|||+++.+||..+.+|++.+...++ .+|-++|+||.|.++.+.+..+++..++...++.+|++||+++.|++.+|.
T Consensus        84 v~vVYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~  162 (198)
T KOG0079|consen   84 VIVVYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFH  162 (198)
T ss_pred             EEEEEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHH
Confidence            9999999999999999999999999998 899999999999999888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          168 TILLDIYHII  177 (217)
Q Consensus       168 ~l~~~~~~~~  177 (217)
                      -|.+.++..+
T Consensus       163 cit~qvl~~k  172 (198)
T KOG0079|consen  163 CITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHHH
Confidence            9999998887

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=2e-37  Score=230.39  Aligned_cols=164  Identities=40%  Similarity=0.795  Sum_probs=151.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +.|+++|..|||||||+++|..+.|...+.+|.+.++....+.+++..+.+++|||+|++.|+.++..+++++|++|+||
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            47999999999999999999999998888899888888888899999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+......++|+++|+||+|+...+.+...++.+++... ++.++++||++|.|++++|.+|++
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            9999999999999999887776668999999999999877888888888898875 789999999999999999999998


Q ss_pred             HHHHH
Q 042687          172 DIYHI  176 (217)
Q Consensus       172 ~~~~~  176 (217)
                      .+.+.
T Consensus       161 ~~~~~  165 (202)
T cd04120         161 DILKK  165 (202)
T ss_pred             HHHHh
Confidence            77553

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

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=9.2e-37  Score=225.69  Aligned_cols=188  Identities=41%  Similarity=0.722  Sum_probs=161.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||+++|.++.+...+.+|.+.++....+.+++..+.+.+||++|.+.+...+..+++++|++|+||
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            58999999999999999999999998778888887777777888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |+++++++..+..|+..+........|+++++||+|+.+.+.+...++..++...+++++++||++|.|++++|.+|++.
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            99999999999999999887766678999999999998767777788888888889999999999999999999999998


Q ss_pred             HHHHHHHHHHHHHhhhccCCCCCCceeeecCCCCCccccccccCC
Q 042687          173 IYHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSNQ  217 (217)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (217)
                      +.+.....                 .++..+.+++-+++.||+||
T Consensus       161 ~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~  188 (188)
T cd04125         161 IIKRLEEQ-----------------ELSPKNIKQQFKKKNNCFIN  188 (188)
T ss_pred             HHHHhhcC-----------------cCCccccccccccccCcccC
Confidence            85432111                 22224455555666899987

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.

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=1.1e-36  Score=227.15  Aligned_cols=171  Identities=47%  Similarity=0.797  Sum_probs=153.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .++.++|+|+|++|||||||+++|.+..+...+.+|.+.++....+.+++..+.+.+||+||++.+..++..++.++|++
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~i   82 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGV   82 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEE
Confidence            34679999999999999999999999998888888888888778888888888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++++++.+..|+..+..... ..|++||+||+|+.....+...+...++...+++++++||++|.|++++|++
T Consensus        83 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          83 IVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHH
Confidence            999999999999999999999877654 7899999999999876666777888888888999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          169 ILLDIYHIISKK  180 (217)
Q Consensus       169 l~~~~~~~~~~~  180 (217)
                      |.+.+++.....
T Consensus       162 l~~~~~~~~~~~  173 (199)
T cd04110         162 ITELVLRAKKDN  173 (199)
T ss_pred             HHHHHHHhhhcc
Confidence            999887654333

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

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.3e-37  Score=207.41  Aligned_cols=175  Identities=41%  Similarity=0.770  Sum_probs=165.2

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ++..++.+|++|+|...+|||||+.++.+..|.+.+..|.+.++..+.+.-....+++++|||+|++.++.+...+++++
T Consensus        15 dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRga   94 (193)
T KOG0093|consen   15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGA   94 (193)
T ss_pred             cccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhcc
Confidence            45677889999999999999999999999999999999999999998887777889999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      +++|++||+++.+|+..++.|...+......+.|+|+++||||+++++.+..+....++.++|..+|++||+.+.|++++
T Consensus        95 mgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~  174 (193)
T KOG0093|consen   95 MGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQV  174 (193)
T ss_pred             ceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHH
Confidence            99999999999999999999999999988889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIISKK  180 (217)
Q Consensus       166 ~~~l~~~~~~~~~~~  180 (217)
                      |+.++..+-+.++..
T Consensus       175 Fe~lv~~Ic~kmses  189 (193)
T KOG0093|consen  175 FERLVDIICDKMSES  189 (193)
T ss_pred             HHHHHHHHHHHhhhh
Confidence            999999888776654

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.9e-37  Score=209.74  Aligned_cols=186  Identities=49%  Similarity=0.790  Sum_probs=174.9

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR   83 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   83 (217)
                      |+.+.+++.+|++++|+.|+|||.|+++|+.++|.++...|++.++....+.+++..++++||||+|+++|++..+.|++
T Consensus         1 mmsEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYR   80 (214)
T KOG0086|consen    1 MMSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYR   80 (214)
T ss_pred             CcchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhc
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .|-++++|||++++++|+.+..|+...+......+.+++++||.|+...+++...++..|+.+..+-+.++|+++|.|++
T Consensus        81 GAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVE  160 (214)
T KOG0086|consen   81 GAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVE  160 (214)
T ss_pred             cccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHH
Confidence            99999999999999999999999999999998899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhc
Q 042687          164 KAFQTILLDIYHIISKKALAAQEAAS  189 (217)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~~~~~~~~~  189 (217)
                      +.|-...+.++....-..+.+.+..+
T Consensus       161 EaFl~c~~tIl~kIE~GElDPer~gs  186 (214)
T KOG0086|consen  161 EAFLKCARTILNKIESGELDPERMGS  186 (214)
T ss_pred             HHHHHHHHHHHHHHhhcCCCHHHccc
Confidence            99999999998887777766665543

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.7e-37  Score=206.91  Aligned_cols=208  Identities=39%  Similarity=0.683  Sum_probs=177.2

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .+...+||+++|..|+|||.|+++|..+-|++....|.+.++..+.+.+++..++++||||+|+++|++....|++.|++
T Consensus         3 dykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsaha   82 (213)
T KOG0095|consen    3 DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHA   82 (213)
T ss_pred             ccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcce
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++...+|+.+.+|+.++.......+--++|+||.|+.+.+++.....++|+......++++||++.++++.+|.
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            99999999999999999999999999988888999999999999889988889999998888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH-hhhccCCCCCCceeeecCCCCCccccccccC
Q 042687          168 TILLDIYHIISKKALAAQ-EAASSTGLPQGTTINVANLSGNVKGKACCSN  216 (217)
Q Consensus       168 ~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (217)
                      .+.-.+....+.+..... ...-+..+..+.++..-.--+.+.. .||..
T Consensus       163 ~~a~rli~~ar~~d~v~~~~a~a~~~~seg~si~l~s~aqt~~~-~cc~~  211 (213)
T KOG0095|consen  163 DLACRLISEARQNDLVNNVSAPAPNSSSEGKSIKLISYAQTQLL-TCCNF  211 (213)
T ss_pred             HHHHHHHHHHHhccchhhccccCccccCCCCcccchhHHHHHHh-ccccc
Confidence            998777665554443222 2222223455566644444333333 77754

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=1.1e-35  Score=223.35  Aligned_cols=165  Identities=32%  Similarity=0.534  Sum_probs=141.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|.+|||||||+++|..+.+.. +.+|.+.++....+    ..+.+.+||++|++.+..++..+++.+|++|+||
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            589999999999999999999999864 46666655543322    4578899999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc-------------------ccccCHHHHHHHHHHcC-----
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH-------------------LRAVAAEDAQILAEKEG-----  148 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~-----  148 (217)
                      |++++++++.+..|+..+......++|++||+||+|+.+                   .+.+..+++..++...+     
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            999999999998888887766555799999999999965                   46777889999998876     


Q ss_pred             ---------CeEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 042687          149 ---------LSFLETSALEALNVEKAFQTILLDIYHIISKKAL  182 (217)
Q Consensus       149 ---------~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~~~~~  182 (217)
                               ++|+++||++|.|++++|.++++.+++...++..
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~  198 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRA  198 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhh
Confidence                     6899999999999999999999998876655544

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

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=1.2e-35  Score=215.42  Aligned_cols=164  Identities=51%  Similarity=0.874  Sum_probs=150.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||+++|.++.+...+.+|.+.++....+.+++..+++.+||+||++.+...+..+++++|++|+|
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            48999999999999999999999999888888888888777788888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||++++++++.+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|.++++
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            99999999999999999887776668999999999999877777788899999999999999999999999999999998


Q ss_pred             HHHH
Q 042687          172 DIYH  175 (217)
Q Consensus       172 ~~~~  175 (217)
                      .+.+
T Consensus       162 ~~~~  165 (166)
T cd04122         162 KIYQ  165 (166)
T ss_pred             HHhh
Confidence            7753

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

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=5.6e-36  Score=221.78  Aligned_cols=162  Identities=35%  Similarity=0.584  Sum_probs=142.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+|+|.+|||||||+++|..+.+...+.+|.+..+ ...+.+++..+.+.+|||||++.+..++..+++.+|++|+|||
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            689999999999999999999998877777776544 4456678888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcC---CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ++++++++.+..|+..+.....   .+.|+++|+||+|+...+.+...+...++...+++++++||++|.|++++|.+++
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            9999999999999988876542   4789999999999977677777778888888899999999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       160 ~~l~~~  165 (190)
T cd04144         160 RALRQQ  165 (190)
T ss_pred             HHHHHh
Confidence            877544

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.

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=6.3e-37  Score=209.21  Aligned_cols=177  Identities=37%  Similarity=0.656  Sum_probs=163.8

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      -+...+||+++|..-+|||||+-+++.++|......|.-..+..+.+.+++....+.||||+|+++|..+-..|++..++
T Consensus         9 g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnG   88 (218)
T KOG0088|consen    9 GKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNG   88 (218)
T ss_pred             CCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCc
Confidence            34578999999999999999999999999998888887778888888999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +++|||++|++||+.++.|..+++......+-++||+||+|+++++.+..++++.++...|+.++++||+++.|+.++|+
T Consensus        89 alLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe  168 (218)
T KOG0088|consen   89 ALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFE  168 (218)
T ss_pred             eEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHH
Confidence            99999999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKKALAA  184 (217)
Q Consensus       168 ~l~~~~~~~~~~~~~~~  184 (217)
                      .|..+.++..++.+...
T Consensus       169 ~Lt~~MiE~~s~~qr~~  185 (218)
T KOG0088|consen  169 SLTAKMIEHSSQRQRTR  185 (218)
T ss_pred             HHHHHHHHHhhhccccc
Confidence            99998887765544333

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=1.9e-35  Score=218.82  Aligned_cols=164  Identities=34%  Similarity=0.566  Sum_probs=145.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|..+.+...+.+|.+..+ ...+.+++..+.+.+|||||++.+..++..+++++|++|+
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            358999999999999999999999998877778776555 5667788888999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+.... ..+.|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|.+|
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            999999999999999999887654 3478999999999997666667777888888888999999999999999999999


Q ss_pred             HHHHHH
Q 042687          170 LLDIYH  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      ++.+.+
T Consensus       163 ~~~l~~  168 (189)
T PTZ00369        163 VREIRK  168 (189)
T ss_pred             HHHHHH
Confidence            988754

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=4.1e-35  Score=220.17  Aligned_cols=171  Identities=51%  Similarity=0.869  Sum_probs=154.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+..++..++..+|++|
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            46799999999999999999999999888888888888887778888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||++++++++.+..|+..+........|+++++||+|+...+.+..++...++..++++++++||+++.|++++|.++
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            99999999999999999988877665689999999999998767778888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          170 LLDIYHIISKK  180 (217)
Q Consensus       170 ~~~~~~~~~~~  180 (217)
                      ++.+++.....
T Consensus       164 ~~~~~~~~~~~  174 (210)
T PLN03108        164 AAKIYKKIQDG  174 (210)
T ss_pred             HHHHHHHhhhc
Confidence            99887665433

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2.7e-35  Score=222.50  Aligned_cols=165  Identities=25%  Similarity=0.441  Sum_probs=148.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+++|..|||||+|+++|..+.|...+.+|.+..+. ..+.+++..+.+.||||+|++.|..+...+++++|++|
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vI   89 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVL   89 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEE
Confidence            46689999999999999999999999999888899876654 45788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++++|+.+ ..|+..+....+ +.|++||+||+|+..            .+.+..++++.++...++ .|++||
T Consensus        90 lVyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtS  168 (232)
T cd04174          90 LCFDISRPETVDSALKKWKAEIMDYCP-STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECS  168 (232)
T ss_pred             EEEECCChHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEcc
Confidence            99999999999984 899999987664 789999999999864            256788899999999998 699999


Q ss_pred             CCCCC-CHHHHHHHHHHHHHHH
Q 042687          156 ALEAL-NVEKAFQTILLDIYHI  176 (217)
Q Consensus       156 a~~~~-gv~~~~~~l~~~~~~~  176 (217)
                      |++|. |++++|..++..+++.
T Consensus       169 Aktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         169 AFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             CCcCCcCHHHHHHHHHHHHHHh
Confidence            99997 8999999999988764

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.

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=1.7e-35  Score=219.43  Aligned_cols=163  Identities=47%  Similarity=0.829  Sum_probs=146.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+|+|++|||||||+++|.++.+.. .+.+|.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|
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            589999999999999999999998864 5667777777777788888899999999999999998899999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||++++++++.+..|+..+......++|+++|+||+|+...+.+...+...++..++++++++||++|.|++++|.+|.+
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            99999999999999999998877668999999999999766666777888888889999999999999999999999998


Q ss_pred             HHHH
Q 042687          172 DIYH  175 (217)
Q Consensus       172 ~~~~  175 (217)
                      .+.+
T Consensus       161 ~~~~  164 (191)
T cd04112         161 ELKH  164 (191)
T ss_pred             HHHH
Confidence            8754

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=2e-35  Score=216.68  Aligned_cols=163  Identities=27%  Similarity=0.521  Sum_probs=146.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+++|..|||||||+++|..+.+...+.+|.+..+ ...+.+++..+.+.+|||+|++.|..++..+++++|++|
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 456778999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++++++.+ ..|+..+....+ +.|++||+||+|+.+            .+.+..+++.++++..++ +|++||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~S  160 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  160 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECC
Confidence            99999999999997 899999988765 799999999999854            245788999999999996 999999


Q ss_pred             CCCCCC-HHHHHHHHHHHHH
Q 042687          156 ALEALN-VEKAFQTILLDIY  174 (217)
Q Consensus       156 a~~~~g-v~~~~~~l~~~~~  174 (217)
                      |++|.| ++++|..+++..+
T Consensus       161 Ak~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         161 ALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             cCCCCCCHHHHHHHHHHHHh
Confidence            999998 9999999988543

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=3.6e-35  Score=213.20  Aligned_cols=165  Identities=52%  Similarity=0.910  Sum_probs=151.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+++|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            56999999999999999999999999988888888888877788888888999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||+++++++..+..|+..+......+.|+++|+||+|+.+.+....++...++...+.+++++||++|.|++++|+++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~  161 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLA  161 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999999877666899999999999987666777788888988899999999999999999999999


Q ss_pred             HHHHH
Q 042687          171 LDIYH  175 (217)
Q Consensus       171 ~~~~~  175 (217)
                      +.+..
T Consensus       162 ~~~~~  166 (167)
T cd01867         162 KDIKK  166 (167)
T ss_pred             HHHHh
Confidence            98754

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

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=2.1e-35  Score=215.34  Aligned_cols=159  Identities=32%  Similarity=0.573  Sum_probs=143.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||+.+|..+.|...+.+|.+..+ ...+.+++..+++.+|||+|++.|..++..+++++|++|+||
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            7999999999999999999999999888889987655 455678889999999999999999999999999999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcccc----------ccCHHHHHHHHHHcCC-eEEEecCCCCC
Q 042687           93 DITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLR----------AVAAEDAQILAEKEGL-SFLETSALEAL  160 (217)
Q Consensus        93 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~vSa~~~~  160 (217)
                      |++++++|+.+ ..|+..+....+ ++|++||+||+|+.+.+          .+..+++..++...++ ++++|||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAP-NVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 789999877654 79999999999996532          4778899999999998 69999999999


Q ss_pred             CHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDI  173 (217)
Q Consensus       161 gv~~~~~~l~~~~  173 (217)
                      |++++|..+++.+
T Consensus       160 nV~~~F~~~~~~~  172 (176)
T cd04133         160 NVKAVFDAAIKVV  172 (176)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999876

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,

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=3.4e-36  Score=206.58  Aligned_cols=177  Identities=44%  Similarity=0.800  Sum_probs=162.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+-++++++|++-+|||+|++.|..++++.-.+||.+.++....+.+ .+..+++++|||+|+++|+++.+.|+++.-+
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvg   84 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVG   84 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccc
Confidence            346799999999999999999999999999999999999998877766 6888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      +++|||+++++||+.++.|+.+...+..  ..+.+++|++|+|+...+++..+|+++++..+|..++++||++|.|+++.
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            9999999999999999999998766653  44556789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIISKKALAAQ  185 (217)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~~  185 (217)
                      |..|.+.+.....+...+..
T Consensus       165 F~mlaqeIf~~i~qGeik~e  184 (213)
T KOG0091|consen  165 FDMLAQEIFQAIQQGEIKLE  184 (213)
T ss_pred             HHHHHHHHHHHHhcCceeee
Confidence            99999999999888765544

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=6.8e-35  Score=210.50  Aligned_cols=160  Identities=43%  Similarity=0.772  Sum_probs=147.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+.+.+.+|.+.++....+.+++..+.+.+||++|++.+..++..++..+|++++||
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            58999999999999999999999998888888888887778888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++++++.+..|+..+......+.|+++|+||.|+.+.+.+..++...+++.++++++++||++|.|++++|.+|++.
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            99999999999999999887766679999999999998777777889999999999999999999999999999999864

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=6.8e-35  Score=212.61  Aligned_cols=164  Identities=28%  Similarity=0.485  Sum_probs=146.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|.+|||||||+++|..+.+...+.+|.+..+ ...+.+++..+.+.+||++|++.+..++..++..+|++|+|
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            37999999999999999999999999878888876444 44567888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...+++..+++++++||++|.|++++|++|+
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            99999999999998888877653 35799999999999977777888889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       161 ~~~~~~  166 (172)
T cd04141         161 REIRRK  166 (172)
T ss_pred             HHHHHh
Confidence            887653

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

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=5.7e-35  Score=220.31  Aligned_cols=164  Identities=32%  Similarity=0.575  Sum_probs=148.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC-eEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+++|.+|||||||+++|.++.+...+.+|.+.++....+.+++ ..+.+.+||++|++.+..++..+++++|++|+|
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            5899999999999999999999999888889988888777777754 578999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcC---CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      ||++++++++.+..|+..+.....   .++|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++
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   35789999999999876777788889999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          169 ILLDIYHI  176 (217)
Q Consensus       169 l~~~~~~~  176 (217)
                      |++.+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99987654

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=7.9e-35  Score=213.07  Aligned_cols=161  Identities=25%  Similarity=0.498  Sum_probs=143.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|+.|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+|||+|++.+..+...+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            37999999999999999999999999888888876655 45677889999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEEecCC
Q 042687           92 YDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLETSAL  157 (217)
Q Consensus        92 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~vSa~  157 (217)
                      ||++++++++.+ ..|+..+....+ +.|+++|+||+|+.+            .+.+..+++.+++...++ +++++||+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~-~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCP-NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCC-CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            999999999996 899999988765 799999999999854            235778899999999997 89999999


Q ss_pred             CCCC-HHHHHHHHHHHHH
Q 042687          158 EALN-VEKAFQTILLDIY  174 (217)
Q Consensus       158 ~~~g-v~~~~~~l~~~~~  174 (217)
                      +|.+ ++++|..+++..+
T Consensus       159 ~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         159 TSEKSVRDIFHVATMACL  176 (178)
T ss_pred             cCCcCHHHHHHHHHHHHh
Confidence            9995 9999999998543

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=2e-34  Score=209.07  Aligned_cols=163  Identities=52%  Similarity=0.860  Sum_probs=149.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||++++.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|
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            48999999999999999999999998887788888788778888888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||+++++++..+..|+..+......+.|+++++||+|+...+.+..+++..++...+++++++||++|.|++++|.+|++
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            99999999999999999988776557999999999999776777778888999999999999999999999999999998


Q ss_pred             HHH
Q 042687          172 DIY  174 (217)
Q Consensus       172 ~~~  174 (217)
                      .+.
T Consensus       162 ~~~  164 (166)
T cd01869         162 EIK  164 (166)
T ss_pred             HHH
Confidence            774

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

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=2.2e-34  Score=208.70  Aligned_cols=162  Identities=42%  Similarity=0.754  Sum_probs=147.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
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            79999999999999999999999998888888887777777777888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++++++.+..|+..+........|+++|+||+|+.+.+....++...++...+++++++||++|.|++++|++|.+.
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            99999999999999999877765679999999999997766667778888888889999999999999999999999886


Q ss_pred             HH
Q 042687          173 IY  174 (217)
Q Consensus       173 ~~  174 (217)
                      +.
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=2.4e-34  Score=211.26  Aligned_cols=167  Identities=43%  Similarity=0.753  Sum_probs=148.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC----------CeEEEEEEEecCChhhhccchh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE----------GKTVKAQIWDTAGQERYRAITS   79 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~   79 (217)
                      ++.+||+++|++|||||||+++|.++.+...+.+|.+.++....+.+.          +..+.+.+||+||++.+...+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            467999999999999999999999999988888888877776666554          4568899999999999999999


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      .+++++|++|+|||+++++++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++...+++++++||++
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  161 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAAT  161 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCC
Confidence            99999999999999999999999999999987654 34789999999999987677777889999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~~~  176 (217)
                      |.|++++|++|++.+.++
T Consensus       162 ~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         162 GTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999887653

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=1.5e-34  Score=214.17  Aligned_cols=161  Identities=29%  Similarity=0.520  Sum_probs=141.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|..|||||||+.+|..+.+...+.+|.+..+ ...+.+++..+.+.+|||+|++.|+.++..+++++|++|+|
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            38999999999999999999999999888888887554 44567888999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHcC-CeEEEecCC
Q 042687           92 YDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKEG-LSFLETSAL  157 (217)
Q Consensus        92 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~vSa~  157 (217)
                      ||++++++++.+. .|+..+..... ++|++||+||.|+.+.+            .+..+++..++...+ ++++++||+
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk  160 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSAL  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCC
Confidence            9999999999996 68887776554 79999999999996532            355678889999888 599999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIY  174 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~  174 (217)
                      +|.|++++|.+|++.+.
T Consensus       161 ~g~~v~e~f~~l~~~~~  177 (191)
T cd01875         161 NQDGVKEVFAEAVRAVL  177 (191)
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999998773

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

>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=2.5e-34  Score=207.64  Aligned_cols=161  Identities=37%  Similarity=0.725  Sum_probs=153.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|+.+||||||+++|.++.+...+.+|.+.+.....+.+++..+.+.+||++|++.+..+...++.++|++|+|||
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            79999999999999999999999999899998889999999999999999999999999999988999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++++++++.+..|+..+....+...|++|++||.|+.+.+.+..++++.++..++++++++||+++.|+.++|..+++.+
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            99999999999999999998876799999999999988888899999999999999999999999999999999999987


Q ss_pred             H
Q 042687          174 Y  174 (217)
Q Consensus       174 ~  174 (217)
                      +
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 ....

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=2.3e-34  Score=208.73  Aligned_cols=162  Identities=35%  Similarity=0.702  Sum_probs=147.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|+++.+...+.++.+.++....+.+++..+.+++|||+|++.+..++..+++.+|++|+||
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            58999999999999999999999998888899888888888888899999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcC-----CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHAD-----SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~-----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |++++++++.+..|+..+.....     .+.|+++|+||+|+.+.+....++...++...+++++++||++|.|++++|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999877653     4799999999999976566677788888888899999999999999999999


Q ss_pred             HHHHHHH
Q 042687          168 TILLDIY  174 (217)
Q Consensus       168 ~l~~~~~  174 (217)
                      +|++.++
T Consensus       161 ~l~~~l~  167 (168)
T cd04119         161 TLFSSIV  167 (168)
T ss_pred             HHHHHHh
Confidence            9998774

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.

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=5.8e-34  Score=207.04  Aligned_cols=166  Identities=53%  Similarity=0.896  Sum_probs=150.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ++.+||+|+|.+|||||||++++.+..+...+.++.+.++....+..++..+.+.+||+||++.+..+...+++.+|+++
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            46799999999999999999999999988888888888887888888888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||+++++++..+..|+..+......+.|+++|+||.|+...+.+..++...++...+++++++||+++.|++++|.++
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            99999999999999999999887765689999999999998666677788888898899999999999999999999999


Q ss_pred             HHHHHH
Q 042687          170 LLDIYH  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      .+.+.+
T Consensus       162 ~~~~~~  167 (168)
T cd01866         162 AKEIYE  167 (168)
T ss_pred             HHHHHh
Confidence            987754

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

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=5e-34  Score=206.75  Aligned_cols=163  Identities=80%  Similarity=1.222  Sum_probs=149.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++++++++|+
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             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++.++..+..|+..+......++|+++|+||+|+...+....++...++...+++++++||++|.|++++|++|+
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            99999999999999999999887766799999999999987677777788888888889999999999999999999998


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +.+
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

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=3.4e-34  Score=210.51  Aligned_cols=162  Identities=26%  Similarity=0.533  Sum_probs=143.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|..|||||||+++|.++.+...+.+|.+.++....+.+++..+.+.+||++|++.+..++..+++++|++++||
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            58999999999999999999999998888999988888788889999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc-----ccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH-----LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |++++++++.+..|+..+........| ++|+||+|+..     .......+...++...+++++++||++|.|++++|.
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            999999999999999998876655667 57899999842     111223567788888899999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          168 TILLDIYH  175 (217)
Q Consensus       168 ~l~~~~~~  175 (217)
                      ++.+.+.+
T Consensus       160 ~l~~~l~~  167 (182)
T cd04128         160 IVLAKAFD  167 (182)
T ss_pred             HHHHHHHh
Confidence            99988764

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=4.5e-34  Score=211.12  Aligned_cols=164  Identities=32%  Similarity=0.533  Sum_probs=140.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+|+|++|||||||+++|.++.+...+.++.+.++.. .+... +..+.+.+|||||++.+..++..++..+|++|+|
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            589999999999999999999999987887777665543 34454 7788999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc----cccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL----RAVAAEDAQILAEKEGL-SFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~  165 (217)
                      ||++++++++.+. .|+..+.... .+.|+++|+||.|+...    +.+...++.+++...++ +++++||++|.|++++
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            9999999999985 5888776554 37999999999998543    24567788889999988 9999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIIS  178 (217)
Q Consensus       166 ~~~l~~~~~~~~~  178 (217)
                      |..+++.+.....
T Consensus       159 f~~l~~~~~~~~~  171 (187)
T cd04132         159 FDTAIEEALKKEG  171 (187)
T ss_pred             HHHHHHHHHhhhh
Confidence            9999998875433

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=5.8e-34  Score=215.04  Aligned_cols=164  Identities=33%  Similarity=0.555  Sum_probs=146.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+++|.+|||||||++++..+.+...+.+|.+.++....+..++..+.+.+||++|++.+..++..+++++|++|
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            57799999999999999999999999998888899888888878878888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||++++++++.+..|+..+..... +.|+++|+||+|+.. +.+...++ .++...+++++++||++|.|++++|.||
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l  167 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYL  167 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHH
Confidence            99999999999999999999987654 799999999999864 33344444 6777788999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          170 LLDIYHI  176 (217)
Q Consensus       170 ~~~~~~~  176 (217)
                      ++.+.+.
T Consensus       168 ~~~~~~~  174 (219)
T PLN03071        168 ARKLAGD  174 (219)
T ss_pred             HHHHHcC
Confidence            9988654

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=9.6e-34  Score=206.16  Aligned_cols=163  Identities=32%  Similarity=0.620  Sum_probs=144.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|.+|||||||+++|.++.+...+.+|.+.++....+.+++..+.+++||+||++.+..++..+++.+|++++|||
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            79999999999999999999999988898998888877888888989999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccc--cCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRA--VAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      +++++++..+..|+..+... .+...|+++|+||+|+.....  ....+...++..++.+++++||++|.|++++|..|+
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            99999999999999987654 344678999999999865333  235566778888889999999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       162 ~~~~~~  167 (170)
T cd04108         162 ALTFEL  167 (170)
T ss_pred             HHHHHc
Confidence            988654

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=5.8e-34  Score=214.21  Aligned_cols=162  Identities=23%  Similarity=0.477  Sum_probs=142.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|..|||||||+++|..+.+...+.+|.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|++|+||
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            79999999999999999999999998888899876654 56788999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           93 DITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |++++++++.+ ..|...+....+ +.|++||+||+|+...            ..+..++...+++..++ +|++|||++
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~~-~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFCP-NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            99999999998 568777665554 7999999999998542            13567789999999995 899999999


Q ss_pred             CCC-HHHHHHHHHHHHHHH
Q 042687          159 ALN-VEKAFQTILLDIYHI  176 (217)
Q Consensus       159 ~~g-v~~~~~~l~~~~~~~  176 (217)
                      +.+ ++++|..++...+..
T Consensus       160 ~~~~V~~~F~~~~~~~~~~  178 (222)
T cd04173         160 SERSVRDVFHVATVASLGR  178 (222)
T ss_pred             CCcCHHHHHHHHHHHHHhc
Confidence            884 999999999977554

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=1.1e-33  Score=204.94  Aligned_cols=162  Identities=51%  Similarity=0.868  Sum_probs=146.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|++|||||||++++..+.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..+++.+|++++
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            56899999999999999999999998887777887777777788888888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+......++|+++|+||+|+...+.....++..+++..+. .++++||++|.|++++|++|
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            99999999999999999999876666899999999999987667777788888888875 78999999999999999999


Q ss_pred             HHH
Q 042687          170 LLD  172 (217)
Q Consensus       170 ~~~  172 (217)
                      .+.
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.

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=1.8e-33  Score=208.91  Aligned_cols=163  Identities=34%  Similarity=0.628  Sum_probs=142.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+|+|.+|||||||+++|.++.+.. .+.+|.+.++....+.+++..+.+.+||++|++.+..++..++.++|++|+|
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            589999999999999999999998874 5777877777777888899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc----cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL----RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      ||++++.+++.+..|+..+..... +.|+++|+||+|+...    +.+...++..++...+++++++||+++.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEE-HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCC-CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999998877643 7999999999998532    34445677788888889999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          168 TILLDIYHI  176 (217)
Q Consensus       168 ~l~~~~~~~  176 (217)
                      +|.+.+.+.
T Consensus       160 ~i~~~~~~~  168 (193)
T cd04118         160 KVAEDFVSR  168 (193)
T ss_pred             HHHHHHHHh
Confidence            999888643

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=8.1e-34  Score=207.44  Aligned_cols=159  Identities=27%  Similarity=0.489  Sum_probs=139.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|..|||||||+++|..+.+...+.+|.+..+. ..+.+++..+++.+||++|++.+..++..+++++|++|+||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            79999999999999999999999998888888776553 45677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeEEEecCCC
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~vSa~~  158 (217)
                      |++++++++.+. .|+..+....+ ++|++||+||+|+.+.            +.+..+++..+++..+ +.++++||++
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~t  159 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCC
Confidence            999999999996 69888876654 7999999999998543            4566778888888887 6999999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|++++|+.++...
T Consensus       160 g~~v~~~f~~~~~~~  174 (175)
T cd01874         160 QKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998753

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=1.3e-33  Score=204.06  Aligned_cols=160  Identities=32%  Similarity=0.569  Sum_probs=141.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||++++..+.+...+.+|.+ +.....+.+++..+.+.+|||||++.+..++..+++++|++++||
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            7999999999999999999999988777777765 444566778888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++|++
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            9999999999999998887654 347999999999999765666667777888888899999999999999999999987


Q ss_pred             HH
Q 042687          172 DI  173 (217)
Q Consensus       172 ~~  173 (217)
                      .+
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.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=1.9e-33  Score=202.92  Aligned_cols=160  Identities=53%  Similarity=0.863  Sum_probs=147.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++|+||
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            58999999999999999999999988888888887887788888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |+++++++..+..|+..+......++|+++++||.|+...+.+..+++..++...+++++++||+++.|++++|+++++.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999999998877766689999999999998767777888899999999999999999999999999999874

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=2.2e-33  Score=207.69  Aligned_cols=159  Identities=28%  Similarity=0.518  Sum_probs=137.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+.+++..+.+.+||++|++.+..++..++..+|++|+|||
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            8999999999999999999999998888888765543 455678888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHcC-CeEEEecCCCC
Q 042687           94 ITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKEG-LSFLETSALEA  159 (217)
Q Consensus        94 ~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~vSa~~~  159 (217)
                      ++++++++.+. .|+..+..... +.|+++|+||+|+.+.+            .+..++...++...+ ++++++||++|
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~-~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~  159 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCP-GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLN  159 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcC
Confidence            99999999985 69888877654 79999999999996533            234556777787776 78999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIY  174 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~  174 (217)
                      .|++++|.+|++.+.
T Consensus       160 ~~v~e~f~~l~~~~~  174 (189)
T cd04134         160 RGVNEAFTEAARVAL  174 (189)
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999998775

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.

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=2.5e-33  Score=210.54  Aligned_cols=169  Identities=46%  Similarity=0.810  Sum_probs=150.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .+||+|+|++|||||||+++|.++.+...+.+|.+.++....+.+ ++..+.+++||++|++.+..++..+++++|++|+
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            489999999999999999999999988888888888887777776 4677899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+..... ...|++||+||+|+...+.+..++...+++.++++++++||++|.|++++|++|
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            9999999999999999999876543 467889999999998767777888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          170 LLDIYHIISKK  180 (217)
Q Consensus       170 ~~~~~~~~~~~  180 (217)
                      ++.+.+.....
T Consensus       162 ~~~~~~~~~~~  172 (211)
T cd04111         162 TQEIYERIKRG  172 (211)
T ss_pred             HHHHHHHhhcC
Confidence            99887775433

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.

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1.8e-33  Score=203.67  Aligned_cols=160  Identities=33%  Similarity=0.569  Sum_probs=141.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||++++..+.+...+.+|.+..+ ...+.+++..+.+.+|||||++.+..++..+++++|++++||
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY   80 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEE
Confidence            6999999999999999999999888777777766544 456778888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++.+++.+..|+..+.... ..+.|+++|+||+|+.....+...+...++...+++++++||++|.|++++|.+|++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  160 (164)
T cd04175          81 SITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVR  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHH
Confidence            9999999999999999887653 357999999999999776666667778888888999999999999999999999987


Q ss_pred             HH
Q 042687          172 DI  173 (217)
Q Consensus       172 ~~  173 (217)
                      .+
T Consensus       161 ~l  162 (164)
T cd04175         161 QI  162 (164)
T ss_pred             Hh
Confidence            65

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=2.4e-33  Score=202.48  Aligned_cols=159  Identities=33%  Similarity=0.644  Sum_probs=143.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC--CeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE--GKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +||+++|.+|+|||||+++|.++.+...+.+|.+.++....+.+.  +..+.+.+||+||++.+...+..+++++|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999888888888877766667776  778899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++++++.+..|+..+..... ++|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~-~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            9999999999999999998876554 899999999999977667777888899999999999999999999999999997


Q ss_pred             HH
Q 042687          171 LD  172 (217)
Q Consensus       171 ~~  172 (217)
                      +.
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

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=5.3e-33  Score=200.95  Aligned_cols=163  Identities=62%  Similarity=1.004  Sum_probs=148.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+||
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            58999999999999999999999887777788888887888888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++.+++.+..|+..+......++|+++++||+|+...+....+++..++...+++++++|+.++.|++++|++|.+.
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            99999999999999999887765689999999999987766667778888888889999999999999999999999988


Q ss_pred             HHH
Q 042687          173 IYH  175 (217)
Q Consensus       173 ~~~  175 (217)
                      +.+
T Consensus       161 ~~~  163 (164)
T smart00175      161 ILK  163 (164)
T ss_pred             Hhh
Confidence            754

Rab GTPases are implicated in vesicle trafficking.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.7e-35  Score=200.71  Aligned_cols=178  Identities=42%  Similarity=0.723  Sum_probs=162.1

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC---------CeEEEEEEEecCChhhh
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE---------GKTVKAQIWDTAGQERY   74 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~   74 (217)
                      |.+..+++.+|.+.+|.+|||||+|+.++..+.|......|+++++..+.+-++         +..+.+++|||+|+++|
T Consensus         1 m~~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERF   80 (219)
T KOG0081|consen    1 MGDGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERF   80 (219)
T ss_pred             CCCccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHH
Confidence            345677889999999999999999999999999999999999999998887663         35688999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      +++...++++|=+++++||+++.+||-.+..|+..+..+. ..+.-+++++||+|+++.+.++++++..++.++++|||+
T Consensus        81 RSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfE  160 (219)
T KOG0081|consen   81 RSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFE  160 (219)
T ss_pred             HHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeee
Confidence            9999999999999999999999999999999999987765 346668999999999999999999999999999999999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYHIISKKA  181 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~~~~~~~  181 (217)
                      +||-+|.|+++..+.|+..++++..+-.
T Consensus       161 TSA~tg~Nv~kave~LldlvM~Rie~~v  188 (219)
T KOG0081|consen  161 TSACTGTNVEKAVELLLDLVMKRIEQCV  188 (219)
T ss_pred             eccccCcCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988776544

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=6.3e-33  Score=201.16  Aligned_cols=160  Identities=34%  Similarity=0.614  Sum_probs=141.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||++++..+.+...+.+|.+.+.....+..++..+.+.+|||+|++.+..++..++..+|++|+||
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            58999999999999999999998888788888887777777777888899999999999999988899999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++++++.+..|+..+..... ++|+++|+||+|+.. +... .+...++...+++++++||++|.|++++|++|++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            99999999999999999988776 899999999999873 3333 34456677778899999999999999999999988


Q ss_pred             HHH
Q 042687          173 IYH  175 (217)
Q Consensus       173 ~~~  175 (217)
                      +.+
T Consensus       158 ~~~  160 (166)
T cd00877         158 LLG  160 (166)
T ss_pred             HHh
Confidence            754

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

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=4.8e-33  Score=201.15  Aligned_cols=160  Identities=29%  Similarity=0.529  Sum_probs=140.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||++++..+.+...+.+|.+ +.....+.+++..+.+.+||+||++.+..++..+++++|++|+||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~   80 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEE
Confidence            7999999999999999999999998877777754 455567778888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+.... ..++|+++|+||+|+...+.+...+...++...+++++++||+++.|++++|.++.+
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd04176          81 SLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVR  160 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999988887654 257999999999999765666666778888888899999999999999999999987


Q ss_pred             HH
Q 042687          172 DI  173 (217)
Q Consensus       172 ~~  173 (217)
                      .+
T Consensus       161 ~l  162 (163)
T cd04176         161 QM  162 (163)
T ss_pred             hc
Confidence            54

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

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=9.6e-33  Score=200.98  Aligned_cols=162  Identities=40%  Similarity=0.710  Sum_probs=144.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..+||+++|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i   82 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL   82 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEE
Confidence            46799999999999999999999999988877788887777777888999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEK  164 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~  164 (217)
                      +|||++++++++.+..|+..+....    ..++|+++|+||+|+. .+.+...++.+++...+ .+++++||++|.|+.+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  161 (170)
T cd04116          83 LTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAA  161 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHH
Confidence            9999999999999999998876644    2468999999999986 35666778889988887 4899999999999999


Q ss_pred             HHHHHHHH
Q 042687          165 AFQTILLD  172 (217)
Q Consensus       165 ~~~~l~~~  172 (217)
                      +|+++++.
T Consensus       162 ~~~~~~~~  169 (170)
T cd04116         162 AFEEAVRR  169 (170)
T ss_pred             HHHHHHhh
Confidence            99999864

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=6.7e-33  Score=200.89  Aligned_cols=159  Identities=28%  Similarity=0.436  Sum_probs=138.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||++++.++.+...+.++.+..+ ...+..+...+.+.+||++|++.+..++..++..+|++|+||
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            7999999999999999999999998777777765433 445566777889999999999999998889999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcC---CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |++++++++.+..|+..+.....   .++|+++|+||+|+...+.+...++..++...+++++++||++|.|++++|++|
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            99999999999999887766532   479999999999997766677777888888888999999999999999999999


Q ss_pred             HHH
Q 042687          170 LLD  172 (217)
Q Consensus       170 ~~~  172 (217)
                      +++
T Consensus       161 ~~~  163 (165)
T cd04140         161 LNL  163 (165)
T ss_pred             Hhc
Confidence            763

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=7.8e-33  Score=202.06  Aligned_cols=158  Identities=30%  Similarity=0.513  Sum_probs=138.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|.+|||||||+.++..+.+...+.+|.+ +.....+.+++..+++.+|||+|++.+..++..+++++|++|+||
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            7999999999999999999999999888888875 343456678888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |++++++++.+. .|+..+....+ +.|+++|+||+|+.+.            +.+..+++..++..++. +++++||++
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  159 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  159 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccc
Confidence            999999999995 68888876654 7999999999999542            24667888899998984 999999999


Q ss_pred             CCCHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLD  172 (217)
Q Consensus       159 ~~gv~~~~~~l~~~  172 (217)
                      |.|++++|+.+++.
T Consensus       160 ~~~i~~~f~~l~~~  173 (174)
T cd01871         160 QKGLKTVFDEAIRA  173 (174)
T ss_pred             cCCHHHHHHHHHHh
Confidence            99999999998763

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

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=5.7e-33  Score=186.70  Aligned_cols=181  Identities=49%  Similarity=0.839  Sum_probs=168.8

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      -.+.+.+|-+|+|.-|+|||.|++.|...+|-.+...|.+.++....+.+.+..++++||||+|+++|+...+.|++.+-
T Consensus         6 ynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaa   85 (215)
T KOG0097|consen    6 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   85 (215)
T ss_pred             cchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcccc
Confidence            34667899999999999999999999999998889999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +.++|||++.+..+..+..|+...+.....+..+++++||.|++..+.+..++++.|+.+.|+.++++||++|.++++.|
T Consensus        86 galmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedaf  165 (215)
T KOG0097|consen   86 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAF  165 (215)
T ss_pred             ceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHH
Confidence            99999999999999999999999998888888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhh
Q 042687          167 QTILLDIYHIISKKALAAQEA  187 (217)
Q Consensus       167 ~~l~~~~~~~~~~~~~~~~~~  187 (217)
                      -....++++..+..-+.+.-.
T Consensus       166 le~akkiyqniqdgsldlnaa  186 (215)
T KOG0097|consen  166 LETAKKIYQNIQDGSLDLNAA  186 (215)
T ss_pred             HHHHHHHHHhhhcCcccccch
Confidence            999999988877666555443

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=1.4e-32  Score=198.51  Aligned_cols=159  Identities=35%  Similarity=0.587  Sum_probs=138.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||+++|.++.+.+.+.++.+.+.......+++..+.+.+|||+|++.+..++..+++++|++|+||
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            58999999999999999999999988777777666666666778888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++.+++.+..|+..+..... +.|+++|+||+|+...   ...+...++...+++++++||++|.|++++|+.+++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRP-EIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL  156 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999876544 7999999999998532   1234556677778999999999999999999999987


Q ss_pred             HHH
Q 042687          173 IYH  175 (217)
Q Consensus       173 ~~~  175 (217)
                      +.+
T Consensus       157 ~~~  159 (161)
T cd04124         157 AVS  159 (161)
T ss_pred             HHh
Confidence            765

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=1.3e-32  Score=199.10  Aligned_cols=161  Identities=35%  Similarity=0.603  Sum_probs=140.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|++|||||||+++|.+..+...+.++.+. .....+.+++..+.+.+|||||++.+..++..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIED-SYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            58999999999999999999999887777777653 33556677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+.... ..+.|+++|+||+|+...+....++...++...+++++++||++|.|++++|++|++
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            9999999999999988876654 347899999999999776666677788888888999999999999999999999988


Q ss_pred             HHH
Q 042687          172 DIY  174 (217)
Q Consensus       172 ~~~  174 (217)
                      .+.
T Consensus       160 ~~~  162 (164)
T smart00173      160 EIR  162 (164)
T ss_pred             HHh
Confidence            653

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

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=1.9e-32  Score=197.58  Aligned_cols=160  Identities=41%  Similarity=0.748  Sum_probs=144.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|+||
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            48999999999999999999999988888888888888888888888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++++++.+..|+..+......+.|+++++||+|+...+.....+...++...+++++++||+++.|++++|.+|.+.
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            99999999999999998876655579999999999996656667777888888889999999999999999999999874

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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=2.1e-32  Score=197.86  Aligned_cols=161  Identities=35%  Similarity=0.586  Sum_probs=140.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||++++.+..+...+.++.+.. ......+++..+.+.+|||||++++..++..+++.+|++++|
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            4899999999999999999999988877776776533 345566888888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++.+++.+..|+..+.... ..+.|+++++||+|+...+.+...+...++...+++++++||++|.|++++|++|+
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            99999999999999998877653 34789999999999977666666778888888889999999999999999999998


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +.+
T Consensus       161 ~~~  163 (164)
T cd04145         161 RVI  163 (164)
T ss_pred             Hhh
Confidence            764

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

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=6e-32  Score=203.34  Aligned_cols=167  Identities=47%  Similarity=0.772  Sum_probs=143.5

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|++|||||||+++|.+..+ ..+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~   89 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGI   89 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            34568999999999999999999999877 45567777777777778888888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHH-HHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           89 LLVYDITKRQTFDNVTR-WLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~-~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      |+|||++++++++.+.. |...+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|
T Consensus        90 vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~  169 (211)
T PLN03118         90 ILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCF  169 (211)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999865 655554433 2468999999999997766677777888888889999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      ++|.+.+.+.
T Consensus       170 ~~l~~~~~~~  179 (211)
T PLN03118        170 EELALKIMEV  179 (211)
T ss_pred             HHHHHHHHhh
Confidence            9999988654

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=3.9e-32  Score=196.30  Aligned_cols=161  Identities=48%  Similarity=0.833  Sum_probs=146.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+...+.++.+..+....+.+++..+.+.+||+||++.+...+..+++++|++|+||
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~   81 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVY   81 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEE
Confidence            79999999999999999999999987777788787787888889999999999999999999988999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |+++++++..+..|+..+.......+|+++++||+|+...+.....+...++...+++++++||++|.|++++|++|++.
T Consensus        82 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (163)
T cd01860          82 DITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKK  161 (163)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999888776689999999999987656667778888888889999999999999999999999886


Q ss_pred             H
Q 042687          173 I  173 (217)
Q Consensus       173 ~  173 (217)
                      +
T Consensus       162 l  162 (163)
T cd01860         162 L  162 (163)
T ss_pred             h
Confidence            5

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=2.7e-32  Score=196.70  Aligned_cols=159  Identities=33%  Similarity=0.598  Sum_probs=139.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||++|++.+..++..+++++|++++||
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            7999999999999999999999988777777765443 555677888888999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++.+++.+..|+..+.... ..+.|+++|+||+|+.+ +.....+...++...+++++++||++|.|++++|++|++
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            9999999999998988887664 34789999999999876 455566778888888999999999999999999999987


Q ss_pred             HH
Q 042687          172 DI  173 (217)
Q Consensus       172 ~~  173 (217)
                      .+
T Consensus       160 ~~  161 (162)
T cd04138         160 EI  161 (162)
T ss_pred             Hh
Confidence            54

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.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.4e-32  Score=202.85  Aligned_cols=156  Identities=31%  Similarity=0.569  Sum_probs=139.5

Q ss_pred             EcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCCh
Q 042687           18 IGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR   97 (217)
Q Consensus        18 ~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~   97 (217)
                      +|..|||||||+++|+.+.+...+.+|.+.++....+.+++..+++.+|||+|++.|..++..+++++|++|+|||++++
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            69999999999999999998888888988888888888888999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687           98 QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus        98 ~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      .+++.+..|+..+..... ++|+++|+||+|+.. +.+..++ ..++...+++++++||++|.|++++|.+|++.+.+.
T Consensus        81 ~S~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHHHHHHHHHHHhCC-CCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999988764 899999999999864 3344433 467788889999999999999999999999888553

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=3.9e-32  Score=197.81  Aligned_cols=162  Identities=37%  Similarity=0.695  Sum_probs=145.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-cchhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-AITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~ii~   90 (217)
                      .+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|++.+. .++..+++++|++|+
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            4899999999999999999999999887788888888888888889988999999999999886 568888999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC---CCCHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE---ALNVEKAF  166 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~---~~gv~~~~  166 (217)
                      |||+++++++..+..|+..+.... ..++|+++|+||+|+...+.+...+...++...+++++++||++   +.+++++|
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            999999999999999998887654 35799999999999987777777888889988899999999999   89999999


Q ss_pred             HHHHHHH
Q 042687          167 QTILLDI  173 (217)
Q Consensus       167 ~~l~~~~  173 (217)
                      ..+++.+
T Consensus       162 ~~l~~~~  168 (170)
T cd04115         162 MTLAHKL  168 (170)
T ss_pred             HHHHHHh
Confidence            9998755

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

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=3.1e-32  Score=202.49  Aligned_cols=164  Identities=23%  Similarity=0.324  Sum_probs=136.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc--------chhhhhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA--------ITSAYYRG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~   84 (217)
                      +||+|+|.+|||||||+++|.++.+...+.++.+.+.....+.+++..+.+++|||||.+.+..        .....+..
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            5899999999999999999999999888888877666666677888889999999999654321        12345789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCccccccCHHHHHHHHH-HcCCeEEEecCCCCC
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-KEGLSFLETSALEAL  160 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~  160 (217)
                      +|++|+|||++++++++.+..|+..+....   ..++|+++|+||+|+...+....++...++. ..+++++++||++|.
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   4579999999999997656566666666654 568999999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYHI  176 (217)
Q Consensus       161 gv~~~~~~l~~~~~~~  176 (217)
                      |++++|+.+++.++..
T Consensus       161 ~v~~lf~~i~~~~~~~  176 (198)
T cd04142         161 HILLLFKELLISATTR  176 (198)
T ss_pred             CHHHHHHHHHHHhhcc
Confidence            9999999999877643

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.

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=8.5e-32  Score=194.11  Aligned_cols=161  Identities=39%  Similarity=0.708  Sum_probs=144.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+...+.++.+.......+.+.+..+.+.+||+||++.+..++..++.++|++++||
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            58999999999999999999999887777677666666677777788889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++++++.+..|+..+......++|+++++||+|+.....+..++...++...+++++++|++++.|++++|++|.+.
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            99999999999999998887766689999999999998766667778888888889999999999999999999999876


Q ss_pred             H
Q 042687          173 I  173 (217)
Q Consensus       173 ~  173 (217)
                      +
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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=1.3e-31  Score=193.89  Aligned_cols=160  Identities=31%  Similarity=0.571  Sum_probs=139.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC--ccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN--EFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +||+++|++|||||||++++..+  .+...+.++.+.++....+.++ +..+.+.+||+||++.+..++..++..+|+++
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            58999999999999999999865  5667777888777766666664 56789999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||++++++++.+..|+..+.... .+.|+++|+||+|+.+...+...+...+....+++++++||+++.|++++|++|
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            9999999999999999999887765 379999999999997666666666777777888999999999999999999999


Q ss_pred             HHHH
Q 042687          170 LLDI  173 (217)
Q Consensus       170 ~~~~  173 (217)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04101         160 ARAF  163 (164)
T ss_pred             HHHh
Confidence            8865

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.

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=2.9e-31  Score=193.38  Aligned_cols=164  Identities=40%  Similarity=0.724  Sum_probs=144.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||++++.+..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|++|
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            58999999999999999999999888777788787777778888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcC----CCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~~~~  167 (217)
                      |++++++++.+..|...+.....    .++|+++|+||+|+........++...+....+ .+++++|+++|.|++++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            99999999999888877655432    379999999999997555566777778888877 7999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          168 TILLDIYHI  176 (217)
Q Consensus       168 ~l~~~~~~~  176 (217)
                      ++.+.+.+.
T Consensus       161 ~i~~~~~~~  169 (172)
T cd01862         161 TIARKALEQ  169 (172)
T ss_pred             HHHHHHHhc
Confidence            999988664

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=100.00  E-value=1.1e-31  Score=198.98  Aligned_cols=158  Identities=23%  Similarity=0.415  Sum_probs=129.3

Q ss_pred             eeEEEEEcCCCCCHHHHHh-HHhcCc-----cccCCCCCcce-eeEEEE--------EEECCeEEEEEEEecCChhhhcc
Q 042687           12 LFKIVLIGDSGVGKSNILS-RFTRNE-----FCLESKSTIGV-EFATRT--------LQVEGKTVKAQIWDTAGQERYRA   76 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~-~l~~~~-----~~~~~~~t~~~-~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~   76 (217)
                      .+||+++|..|||||||+. ++.++.     +...+.||.+. +.....        ..+++..+.+.+|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            3799999999999999995 665543     34556677642 222222        25688899999999999875  2


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcc-------------------ccccC
Q 042687           77 ITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH-------------------LRAVA  136 (217)
Q Consensus        77 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~~  136 (217)
                      ....+++++|++|+|||++++.+++.+. .|+..+....+ +.|+++|+||+|+.+                   .+.+.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4456889999999999999999999996 69988877654 789999999999864                   36778


Q ss_pred             HHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          137 AEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       137 ~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      .++++.+++.++++|++|||++|.|++++|+.+++.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            889999999999999999999999999999998763

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=1.5e-31  Score=204.76  Aligned_cols=160  Identities=25%  Similarity=0.462  Sum_probs=139.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||+++|+++.+...+.+|.+ ++....+.+++..+.+.||||+|++.|..++..++.++|++|+||
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            5899999999999999999999999877777765 555667788898999999999999999888888899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhh---------cCCCCeEEEEEeCCCCccccccCHHHHHHHHHH-cCCeEEEecCCCCCCH
Q 042687           93 DITKRQTFDNVTRWLRELRDH---------ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-EGLSFLETSALEALNV  162 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~---------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~vSa~~~~gv  162 (217)
                      |++++++|+.+..|+..+...         ...++|+++|+||+|+...+.+..+++..++.. .+++++++||++|.|+
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            999999999999998888654         224799999999999976566777777777653 4678999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          163 EKAFQTILLDI  173 (217)
Q Consensus       163 ~~~~~~l~~~~  173 (217)
                      +++|++|++.+
T Consensus       160 ~elf~~L~~~~  170 (247)
T cd04143         160 DEMFRALFSLA  170 (247)
T ss_pred             HHHHHHHHHHh
Confidence            99999998854

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=100.00  E-value=1.4e-31  Score=195.54  Aligned_cols=158  Identities=30%  Similarity=0.552  Sum_probs=137.3

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeC
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDI   94 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~   94 (217)
                      |+|+|++|||||||+++|.++.+...+.++....+ ...+.+++..+.+.+|||||++.+..++..++..+|++|+|||+
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            68999999999999999999999877777765444 45567788889999999999999999999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHcCC-eEEEecCCCCC
Q 042687           95 TKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKEGL-SFLETSALEAL  160 (217)
Q Consensus        95 ~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~vSa~~~~  160 (217)
                      +++++++.+. .|+..+....+ ++|+++|+||+|+....            .+..+++..++...+. +++++||++|.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCP-NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCC-CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9999999985 69988877654 89999999999986422            2666778889999986 99999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIY  174 (217)
Q Consensus       161 gv~~~~~~l~~~~~  174 (217)
                      |++++|+.+++.++
T Consensus       159 ~v~~lf~~l~~~~~  172 (174)
T smart00174      159 GVREVFEEAIRAAL  172 (174)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999998764

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

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=4.6e-31  Score=190.38  Aligned_cols=159  Identities=50%  Similarity=0.838  Sum_probs=142.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++||
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            58999999999999999999999887777788887777777778888889999999999999998999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+.... ..+.|+++++||+|+.. .....++...++...+++++++||++|.|++++++++++
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 35899999999999974 445567788888888999999999999999999999987


Q ss_pred             H
Q 042687          172 D  172 (217)
Q Consensus       172 ~  172 (217)
                      .
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

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=4.1e-31  Score=192.09  Aligned_cols=161  Identities=31%  Similarity=0.540  Sum_probs=141.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||+++|.++.+...+.++.+.. ....+.+++..+.+.+||+||++.+..++..+++.++++++||
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            689999999999999999999999877777776644 3566677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |++++++++.+..|...+.... ..+.|+++++||.|+...+....++...++..++ ++++++||+++.|++++|+++.
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999999988886643 3479999999999997766666777778888887 8999999999999999999998


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      ..++
T Consensus       161 ~~~~  164 (168)
T cd04177         161 RQII  164 (168)
T ss_pred             HHHh
Confidence            8664

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=2e-31  Score=191.54  Aligned_cols=153  Identities=22%  Similarity=0.393  Sum_probs=130.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|+.|||||||+.++..+.+...+.++ +..+ ...+.+++..+.+.+||++|++.     ..+++.+|++++||
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            58999999999999999999998887665544 3333 46678889889999999999964     34678899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCc--cccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLN--HLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |++++++|+.+..|+..+..... .++|+++|+||.|+.  ..+.+..++++++++.. ++.+++|||++|.|++++|..
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            99999999999999999887653 578999999999985  35677788888898776 489999999999999999999


Q ss_pred             HHHH
Q 042687          169 ILLD  172 (217)
Q Consensus       169 l~~~  172 (217)
                      +++.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            9764

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=1.6e-31  Score=193.67  Aligned_cols=160  Identities=34%  Similarity=0.546  Sum_probs=136.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-hccchhhhhcCCcEEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-YRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~ii~v~   92 (217)
                      ||+|+|++|||||||+++++.+.+...+.++....+ ...+.+++..+.+.+||+||++. +......+++.+|++|+||
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            689999999999999999999888767666654333 45567888889999999999885 3455677899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC-CCHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA-LNVEKAFQTI  169 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~-~gv~~~~~~l  169 (217)
                      |++++++++.+..|+..+....  ..+.|+++|+||+|+...+.+..+++..++...+++++++||++| .|++++|++|
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  347999999999999766677777888899888999999999999 5999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      ++.+.
T Consensus       160 ~~~~~  164 (165)
T cd04146         160 CREVR  164 (165)
T ss_pred             HHHHh
Confidence            98663

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

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=1.9e-31  Score=193.93  Aligned_cols=163  Identities=20%  Similarity=0.239  Sum_probs=139.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ...+||+++|.+|||||||+++|.++.+. ..+.+|.+.++....+.+++..+.+.+||++|.+.+..++..++.++|++
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            35799999999999999999999999998 78888888777777778888888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQ  167 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~~~  167 (217)
                      ++|||++++.+++.+..|+..+...  .++|+++|+||+|+.+.......+...++..+++ .++++||+++.|++++|+
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            9999999999999988888765332  3799999999999965443333456677777777 479999999999999999


Q ss_pred             HHHHHHH
Q 042687          168 TILLDIY  174 (217)
Q Consensus       168 ~l~~~~~  174 (217)
                      .|.+.+.
T Consensus       160 ~l~~~~~  166 (169)
T cd01892         160 KLATAAQ  166 (169)
T ss_pred             HHHHHhh
Confidence            9988764

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.

>cd04114 Rab30 Rab30 subfamily

Probab=100.00  E-value=1e-30  Score=190.03  Aligned_cols=164  Identities=44%  Similarity=0.777  Sum_probs=145.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+++|++|||||||++++.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+++
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            45699999999999999999999988887777777777777777888888889999999999999998899999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||++++++++.+..|+..+......++|+++|+||+|+...+.+.......+......+++++||++|.|++++|++|
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            99999999999999999998877766689999999999997666666666677777777899999999999999999999


Q ss_pred             HHHH
Q 042687          170 LLDI  173 (217)
Q Consensus       170 ~~~~  173 (217)
                      .+.+
T Consensus       165 ~~~~  168 (169)
T cd04114         165 ACRL  168 (169)
T ss_pred             HHHh
Confidence            8764

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.

>cd00154 Rab Rab family

Probab=100.00  E-value=6.3e-31  Score=188.53  Aligned_cols=158  Identities=57%  Similarity=0.943  Sum_probs=144.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||++++.+..+...+.++.+.++....+..++..+.+.+||+||+..+...+..+++++|++|+|+
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            58999999999999999999999998887888888888888888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |++++++++.+..|+..+......+.|+++++||+|+........++...++...+++++++|++++.|++++|.+|.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999999999998887756899999999999975566667888888888899999999999999999999986

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

>cd04148 RGK RGK subfamily

Probab=100.00  E-value=6.5e-31  Score=198.71  Aligned_cols=162  Identities=27%  Similarity=0.379  Sum_probs=138.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc-CCcEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR-GAVGALL   90 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~ii~   90 (217)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.++....+.+++..+.+.+||++|++.  .....++. ++|++|+
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            58999999999999999999988886 56666665567777788888889999999999982  23345566 9999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++.+++.+..|+..+.... ..++|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|++|
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            999999999999999999887654 2479999999999997767777777888888889999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          170 LLDIYHI  176 (217)
Q Consensus       170 ~~~~~~~  176 (217)
                      ++.+...
T Consensus       159 ~~~~~~~  165 (221)
T cd04148         159 VRQIRLR  165 (221)
T ss_pred             HHHHHhh
Confidence            9877543

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=6.4e-31  Score=191.95  Aligned_cols=157  Identities=32%  Similarity=0.572  Sum_probs=136.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|+|||||++++.++.+...+.+|. .+.....+.+++..+++.+||+||++.+..++..+++++|++|+||
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            589999999999999999999988887777775 4455556778888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           93 DITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |++++++++.+ ..|+..+..... +.|+++++||+|+..            .+.+..+++..++...+. +++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNP-KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            99999999998 468888775433 799999999999853            345667788899998887 899999999


Q ss_pred             CCCHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILL  171 (217)
Q Consensus       159 ~~gv~~~~~~l~~  171 (217)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999998764

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,

>cd04135 Tc10 TC10 subfamily

Probab=99.98  E-value=1.7e-30  Score=189.83  Aligned_cols=159  Identities=29%  Similarity=0.495  Sum_probs=136.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|+|||||+++|..+.+...+.++.. +.....+.+++..+.+.+||+||++.+...+..++..+|++|+||
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            5899999999999999999999998777777654 333446678888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |++++.+++.+. .|+..+... ..+.|+++|+||+|+.+.            +.+..+++..+++..+. +++++||++
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            999999999984 688877765 458999999999998542            24566778888888886 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|++++|+.+++.+
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

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.98  E-value=7.9e-33  Score=184.08  Aligned_cols=160  Identities=44%  Similarity=0.760  Sum_probs=149.4

Q ss_pred             EEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeC
Q 042687           16 VLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDI   94 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~   94 (217)
                      +++|.+++|||.|+-++..+.|.. ....|.++++..+.+..++..+++++|||+|+++|++....|++.+|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            378999999999999999888764 4568899999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687           95 TKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus        95 ~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      .+..||+....|+.++.+.....+.+.+++||+|+..++.+..++.+.++..+++|+.++||++|.|++..|-.|.+.+.
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHH
Confidence            99999999999999999988778889999999999888999999999999999999999999999999999999988764


Q ss_pred             H
Q 042687          175 H  175 (217)
Q Consensus       175 ~  175 (217)
                      +
T Consensus       161 k  161 (192)
T KOG0083|consen  161 K  161 (192)
T ss_pred             H
Confidence            4

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=6.9e-30  Score=184.54  Aligned_cols=161  Identities=35%  Similarity=0.580  Sum_probs=139.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||++++....+...+.++.... .......++..+.+.+||+||++.+...+..+++.+|++++||
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            589999999999999999999988877776665533 3455677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++.++..+..|+..+.... ..++|+++|+||+|+...+.....+...+...++++++++||++|.|++++|++|.+
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            9999999999988888877764 348999999999999764555666777888888999999999999999999999988


Q ss_pred             HHH
Q 042687          172 DIY  174 (217)
Q Consensus       172 ~~~  174 (217)
                      .+.
T Consensus       160 ~~~  162 (164)
T cd04139         160 EIR  162 (164)
T ss_pred             HHH
Confidence            764

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=7.6e-30  Score=183.55  Aligned_cols=158  Identities=36%  Similarity=0.623  Sum_probs=139.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+|+|++|||||||++++.+..+...+.++.. +.....+.+++..+.+.+||+||++.+...+..+++.+|++++|||
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            689999999999999999998887777777755 5556667778778899999999999998889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      +++++++..+..|+..+..... ..+|+++++||+|+...+....+++..++...+++++++|++++.|++++|++|++.
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            9999999999999888877654 589999999999998766677788888888888999999999999999999999875

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.97  E-value=4.8e-30  Score=189.17  Aligned_cols=163  Identities=34%  Similarity=0.552  Sum_probs=151.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|.+|||||+|+.+|..+.|.+.|.+|.+ +.+...+.+++..+.+.|+||+|++.+..+...++.++|++++|
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lV   81 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLV   81 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEE
Confidence            48999999999999999999999999999999987 66678888999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |+++++.||+.+..++..+.+.. ...+|+++|+||+|+...+.+..++...++..++++++++||+.+.+++++|..|+
T Consensus        82 ysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~  161 (196)
T KOG0395|consen   82 YSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELV  161 (196)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHH
Confidence            99999999999999999985544 34689999999999999899999999999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          171 LDIYH  175 (217)
Q Consensus       171 ~~~~~  175 (217)
                      +.+..
T Consensus       162 r~~~~  166 (196)
T KOG0395|consen  162 REIRL  166 (196)
T ss_pred             HHHHh
Confidence            87744

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=1.8e-29  Score=184.45  Aligned_cols=159  Identities=28%  Similarity=0.521  Sum_probs=133.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      .||+|+|++|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+...+..++.++|++++||
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            6899999999999999999999998877777766444 345677888889999999999999888888899999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |++++++++.+. .|+..+..... +.|+++|+||+|+...            ..+...+...++...+. +++++||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            999999999884 68887766543 7999999999998542            12334567777777774 899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|++++|++|.+.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998754

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.97  E-value=7.1e-32  Score=188.16  Aligned_cols=181  Identities=31%  Similarity=0.525  Sum_probs=167.5

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR   83 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   83 (217)
                      |-+++.+..+|++|+|..++||||+|++++.+.|...+..|++.++....+.+.+..+.+.+||++|+++|..+.+.|++
T Consensus        12 m~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyr   91 (246)
T KOG4252|consen   12 MDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYR   91 (246)
T ss_pred             CCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhc
Confidence            45667888999999999999999999999999999999999999998888888887788899999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|.+.++||+-+|+.||+....|++.+....+ .+|.++|-||+|+.+...+...+++.+++.++..++-+|+++..|+.
T Consensus        92 gaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~-~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~  170 (246)
T KOG4252|consen   92 GAQASVLVFSTTDRYSFEATLEWYNKVQKETE-RIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVM  170 (246)
T ss_pred             cccceEEEEecccHHHHHHHHHHHHHHHHHhc-cCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhH
Confidence            99999999999999999999999999988877 89999999999999888888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYHIISKKALAAQ  185 (217)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~~~~~  185 (217)
                      .+|.+|++++.+++.++.....
T Consensus       171 ~vF~YLaeK~~q~~kq~~~~~~  192 (246)
T KOG4252|consen  171 HVFAYLAEKLTQQKKQSLNANE  192 (246)
T ss_pred             HHHHHHHHHHHHHHHHHhhhch
Confidence            9999999999988877554433

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=1.2e-30  Score=188.79  Aligned_cols=153  Identities=18%  Similarity=0.303  Sum_probs=126.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      .|+++|++|||||||+++|.++.+...+.+|.+...    ..+++..+++.+||++|++.++.++..+++++|++|+|||
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            489999999999999999999888777778876543    2344456789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCH----HHHHHHHHHcCCeEEEecCCC------CCCHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA----EDAQILAEKEGLSFLETSALE------ALNVE  163 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~vSa~~------~~gv~  163 (217)
                      ++++.++.....|+..+.... .++|+++|+||+|+...+....    .++..++.+.+++++++||++      ++|++
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 4899999999999876443321    234556666788999999998      99999


Q ss_pred             HHHHHHHH
Q 042687          164 KAFQTILL  171 (217)
Q Consensus       164 ~~~~~l~~  171 (217)
                      ++|+.+++
T Consensus       156 ~~~~~~~~  163 (164)
T cd04162         156 DLLSQLIN  163 (164)
T ss_pred             HHHHHHhc
Confidence            99998875

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=7e-30  Score=185.48  Aligned_cols=154  Identities=21%  Similarity=0.364  Sum_probs=122.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|++|||||||+++|..+.+. .+.+|.+.+..  .+..  ..+.+.+||++|++.++.++..++.++|++|+
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            3489999999999999999999887764 35566665543  2333  34789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++.+++.+..|+..+... ...++|++||+||+|+.+.  +..+++..+..     ...++++++||++|.|+++
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~  160 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  160 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHH
Confidence            99999999999987777665443 2347899999999998642  34555555442     1235789999999999999


Q ss_pred             HHHHHHH
Q 042687          165 AFQTILL  171 (217)
Q Consensus       165 ~~~~l~~  171 (217)
                      +|+||.+
T Consensus       161 ~~~~l~~  167 (168)
T cd04149         161 GLTWLSS  167 (168)
T ss_pred             HHHHHhc
Confidence            9999964

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

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=4.1e-29  Score=183.46  Aligned_cols=162  Identities=35%  Similarity=0.552  Sum_probs=139.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      .||+|+|.+|||||||+++|.+..+...+.++....+ ...+..++..+.+.+||+||++.+...+..++..+++++++|
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            5899999999999999999999888766666654433 455677777888999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |+++..+++.+..|+..+.+.. ..+.|+++|+||+|+...+.....+...++...+++++++||+++.|+.++|.+|.+
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            9999999999988888876653 357899999999999765666666777788888899999999999999999999998


Q ss_pred             HHHH
Q 042687          172 DIYH  175 (217)
Q Consensus       172 ~~~~  175 (217)
                      .+.+
T Consensus       161 ~~~~  164 (180)
T cd04137         161 EIEK  164 (180)
T ss_pred             HHHH
Confidence            7743

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=3e-29  Score=186.93  Aligned_cols=160  Identities=28%  Similarity=0.445  Sum_probs=133.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|.+|||||||+++|.++.+...+.++.. +.....+.+.+..+.+.+||+||+..+..++..++..+|++|+|||
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            689999999999999999999988776666654 4555667778888899999999999998888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCcc-ccccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH-LRAVAAEDAQILAE-KEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ++++.+++.+..|+..+..... .++|+++|+||+|+.. .+.+...+..+... ..+++++++||++|.|++++|++|+
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            9999999999999888777653 4799999999999865 34444444444433 4567899999999999999999999


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      +.+.
T Consensus       160 ~~~~  163 (198)
T cd04147         160 RQAN  163 (198)
T ss_pred             HHhh
Confidence            8664

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=1e-28  Score=186.33  Aligned_cols=166  Identities=31%  Similarity=0.543  Sum_probs=144.3

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ......+||+++|++|||||||++++..+.+...+.+|.+.++....+..++..+.+.+||++|++.+...+..++..++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            44556799999999999999999999998888888899888888888878888899999999999999988999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++|+|||++++.++..+..|+..+..... ++|+++++||+|+.+ +.... +...++...++.++++|+++|.|+++.|
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~i~lv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f  160 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVKD-RQVKA-RQITFHRKKNLQYYDISAKSNYNFEKPF  160 (215)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccCcc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999998876654 789999999999864 22332 3345677788999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      .+|++.+..
T Consensus       161 ~~ia~~l~~  169 (215)
T PTZ00132        161 LWLARRLTN  169 (215)
T ss_pred             HHHHHHHhh
Confidence            999987754

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.5e-29  Score=185.75  Aligned_cols=158  Identities=20%  Similarity=0.329  Sum_probs=122.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|..|||||||+++|..+.+. .+.+|.+.+..  .+..  ..+.+++||+||++.++.+|..+++++|++|+
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4589999999999999999999987774 45677665443  3333  34788999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-----CCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-----GLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~vSa~~~~gv~~  164 (217)
                      |||+++++++..+..++..+... ...++|++|++||+|+.+..  ..++......-.     .+.++++||++|.|+++
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e  168 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYE  168 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCHHH
Confidence            99999999999887777765432 22479999999999987532  333333322111     12466899999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|+||.+.+.+
T Consensus       169 ~~~~l~~~~~~  179 (181)
T PLN00223        169 GLDWLSNNIAN  179 (181)
T ss_pred             HHHHHHHHHhh
Confidence            99999887754

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=2.9e-29  Score=184.73  Aligned_cols=162  Identities=20%  Similarity=0.356  Sum_probs=128.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .+||+++|++|||||||++++..+.+... .+|.+.+.....+.. ++..+.+.+|||||++.+..++..+++++|++|+
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            48999999999999999999998877543 566665555544443 4466889999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHH------HcCCeEEEecCCCCCCHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE------KEGLSFLETSALEALNVE  163 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~vSa~~~~gv~  163 (217)
                      |||++++.++..+..|+..+.... ..+.|+++|+||+|+...  ....+...+..      ..+++++++||++|.|++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~  159 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQ  159 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHH
Confidence            999999999988888887765543 347999999999998642  33344444432      113568999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYHI  176 (217)
Q Consensus       164 ~~~~~l~~~~~~~  176 (217)
                      ++|++|.+.+.+.
T Consensus       160 ~l~~~l~~~l~~~  172 (183)
T cd04152         160 EGLEKLYEMILKR  172 (183)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888543

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.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=6.2e-30  Score=187.00  Aligned_cols=156  Identities=21%  Similarity=0.345  Sum_probs=122.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|.+|||||||+++|..+.+. .+.+|.+.+..  .+...  .+.+.+||+||++.+..++..+++++|++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTYK--NISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            3589999999999999999999877763 45677665543  23333  4788999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++++++....|+..+... ...++|++||+||+|+.+..  ..+++.....     ...+.++++||++|.|+++
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  164 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYE  164 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHH
Confidence            99999999999988887776543 22478999999999986532  2333332221     2234577899999999999


Q ss_pred             HHHHHHHHH
Q 042687          165 AFQTILLDI  173 (217)
Q Consensus       165 ~~~~l~~~~  173 (217)
                      +|+||.+.+
T Consensus       165 ~~~~l~~~~  173 (175)
T smart00177      165 GLTWLSNNL  173 (175)
T ss_pred             HHHHHHHHh
Confidence            999998765

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).

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=3e-29  Score=182.43  Aligned_cols=155  Identities=21%  Similarity=0.383  Sum_probs=124.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|.+|||||||+++|.+..+. .+.+|.+..+.  .+..+  .+.+.+||+||++.+...+..++..+|++|+|||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~--~~~~~--~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVE--TVEYK--NLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCceeEE--EEEEC--CEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            6899999999999999999998764 35666654443  33333  4678899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC------CeEEEecCCCCCCHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG------LSFLETSALEALNVEKAF  166 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~------~~~~~vSa~~~~gv~~~~  166 (217)
                      +++++++..+..|+..+.... ..+.|++||+||+|+.+  ....+++..++...+      +.++++||++|.|++++|
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            999999999988888876543 23689999999999864  344556666553222      368899999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      +||.+.+.+
T Consensus       154 ~~l~~~~~~  162 (169)
T cd04158         154 DWLSRQLVA  162 (169)
T ss_pred             HHHHHHHhh
Confidence            999887654

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=8.7e-29  Score=182.83  Aligned_cols=161  Identities=30%  Similarity=0.533  Sum_probs=135.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      .||+|+|+.|+|||||+++|..+.+...+.++....+ ...+.+++..+.+.+||++|++.+......++..+|+++++|
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            5899999999999999999998888766666654443 345667788888999999999888877777889999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcc----------ccccCHHHHHHHHHHcCC-eEEEecCCCCC
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH----------LRAVAAEDAQILAEKEGL-SFLETSALEAL  160 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~  160 (217)
                      |++++++++.+. .|+..+....+ .+|+++|+||+|+..          .+.+..++...+++..+. ++|++||++|.
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            999999999985 69998877655 699999999999843          234445678888888885 89999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYH  175 (217)
Q Consensus       161 gv~~~~~~l~~~~~~  175 (217)
                      |++++|+++.+.+..
T Consensus       160 ~v~~~f~~l~~~~~~  174 (187)
T cd04129         160 GVDDVFEAATRAALL  174 (187)
T ss_pred             CHHHHHHHHHHHHhc
Confidence            999999999986633

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).

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=7.5e-29  Score=180.44  Aligned_cols=157  Identities=32%  Similarity=0.577  Sum_probs=132.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.+..+...+.++.. +.....+..++..+.+++||+||++.+......+++.+|++++||
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            5899999999999999999999998766666654 334555677888899999999999988888888889999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcccc-----------ccCHHHHHHHHHHcCC-eEEEecCCCC
Q 042687           93 DITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLR-----------AVAAEDAQILAEKEGL-SFLETSALEA  159 (217)
Q Consensus        93 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~-~~~~vSa~~~  159 (217)
                      |+++++++... ..|+..+..... +.|+++|+||+|+....           .+...+...++...+. +++++||++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCP-NVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            99999998886 567777766554 79999999999986544           2346677788888887 9999999999


Q ss_pred             CCHHHHHHHHHH
Q 042687          160 LNVEKAFQTILL  171 (217)
Q Consensus       160 ~gv~~~~~~l~~  171 (217)
                      .|++++|++|++
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999999875

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.97  E-value=1.1e-28  Score=183.22  Aligned_cols=149  Identities=23%  Similarity=0.421  Sum_probs=127.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-----CeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-----GKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +||+++|..|||||||+++|.++.+...+.+|.+.++....+.++     +..+.+.+||++|++.|..++..+++++|+
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            589999999999999999999999988888888877776666663     567899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-------------------CCCCeEEEEEeCCCCccccccCHH----HHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-------------------DSNIVIMMAGNKSDLNHLRAVAAE----DAQILA  144 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-------------------~~~~p~ivv~nK~Dl~~~~~~~~~----~~~~~~  144 (217)
                      +|+|||++++++++.+..|+..+....                   ..++|++||+||+|+.+.+.+...    ....++
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                   246899999999999765544443    245678


Q ss_pred             HHcCCeEEEecCCCCCC
Q 042687          145 EKEGLSFLETSALEALN  161 (217)
Q Consensus       145 ~~~~~~~~~vSa~~~~g  161 (217)
                      .+.+++.++.++.+...
T Consensus       161 ~~~~~~~i~~~c~~~~~  177 (202)
T cd04102         161 EQGNAEEINLNCTNGRL  177 (202)
T ss_pred             HhcCCceEEEecCCccc
Confidence            88999999998886533

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=9.2e-30  Score=183.29  Aligned_cols=152  Identities=20%  Similarity=0.388  Sum_probs=118.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|||||||++++..+.+. .+.+|.+.+..  .+...  .+.+.+||+||++.+..++..+++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            48999999999999999999888775 45677665443  33333  477899999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHH-HHHH----HHcCCeEEEecCCCCCCHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDA-QILA----EKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~----~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      |++++.++..+..|+..+... .....|++|++||+|+.+..  ...++ ..+.    ....+.++++||++|.|++++|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            999999999988877766432 22468999999999986422  22232 2221    1223467899999999999999


Q ss_pred             HHHHH
Q 042687          167 QTILL  171 (217)
Q Consensus       167 ~~l~~  171 (217)
                      +||.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99864

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=9.9e-29  Score=181.62  Aligned_cols=160  Identities=21%  Similarity=0.354  Sum_probs=122.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|++|||||||++++..+.+.. +.+|.+.++.  .+..  ..+.+.+||+||++.++.++..+++.+|++|+
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~   90 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIF   90 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            35899999999999999999998877754 5567665443  3333  34688999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||+++++++..+..++..+... ....+|++||+||.|+.+..  ...++....     ....+.++++||++|.|+++
T Consensus        91 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e  168 (182)
T PTZ00133         91 VVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYE  168 (182)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHH
Confidence            99999999999887777665432 22368999999999986422  222322211     11224577999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHII  177 (217)
Q Consensus       165 ~~~~l~~~~~~~~  177 (217)
                      +|+||.+.+.+.+
T Consensus       169 ~~~~l~~~i~~~~  181 (182)
T PTZ00133        169 GLDWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999998776543

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=2e-28  Score=177.63  Aligned_cols=160  Identities=30%  Similarity=0.404  Sum_probs=125.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|..|||||||+++|.++.+...+..+. .. ......+++..+.+.+||+||.+.+...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVL-PE-ITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCcc-cc-eEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            489999999999999999999998865543332 22 2344456667789999999999888777788889999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHHHcC--CeEEEecCCCCCCHHHHHH
Q 042687           93 DITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAEKEG--LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        93 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~--~~~~~vSa~~~~gv~~~~~  167 (217)
                      |++++++++.+. .|+..+..... +.|+++|+||+|+.+.....  .++...++...+  .+++++||++|.|++++|+
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~-~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999984 68888877654 89999999999996644321  233334443332  3899999999999999999


Q ss_pred             HHHHHHHH
Q 042687          168 TILLDIYH  175 (217)
Q Consensus       168 ~l~~~~~~  175 (217)
                      .+.+.+.+
T Consensus       158 ~~~~~~~~  165 (166)
T cd01893         158 YAQKAVLH  165 (166)
T ss_pred             HHHHHhcC
Confidence            99887643

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=1.2e-28  Score=179.83  Aligned_cols=155  Identities=23%  Similarity=0.373  Sum_probs=122.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..++|+++|++|||||||+++|.+..+ ..+.+|.+.  ....+.+++  +.+.+||+||++.++..+..++..+|+++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~--~~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGF--QIKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCcccc--ceEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            3458999999999999999999998754 344556553  333444553  67899999999999889999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||++++.++.....|+..+... ...++|+++|+||+|+.+..  ..+++..+..     ..+++++++||++|.|++
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  164 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLL  164 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHH
Confidence            999999999999888887776442 23589999999999986532  3445554442     345789999999999999


Q ss_pred             HHHHHHHH
Q 042687          164 KAFQTILL  171 (217)
Q Consensus       164 ~~~~~l~~  171 (217)
                      ++|++|++
T Consensus       165 ~l~~~l~~  172 (173)
T cd04154         165 QGIDWLVD  172 (173)
T ss_pred             HHHHHHhc
Confidence            99999864

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.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.96  E-value=5.5e-29  Score=179.89  Aligned_cols=164  Identities=32%  Similarity=0.536  Sum_probs=148.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ..+|++|||..++|||+|+-.+..+.|+..|.||.. +.+...+.++ +..+++.+|||+|++.|..++...+.++|+++
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            458999999999999999999999999999999987 5556778885 99999999999999999998888999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeEEEec
Q 042687           90 LVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~vS  155 (217)
                      +||++.+++|++++ .+|+.++..+++ ++|+++|++|.||...            ..+..++...++++.| ..|+++|
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~cp-~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcS  160 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHCP-NVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECS  160 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhCC-CCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeeh
Confidence            99999999999997 899999999996 8999999999999632            2466778899999999 5799999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~~  176 (217)
                      |+++.|+.++|+..+...+..
T Consensus       161 a~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  161 ALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             hhhhCCcHHHHHHHHHHHhcc
Confidence            999999999999999988654

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.96  E-value=2.4e-28  Score=177.31  Aligned_cols=153  Identities=23%  Similarity=0.333  Sum_probs=119.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      .|+++|.+|||||||+++|.+. +...+.+|.+..  ...+..+  .+.+++||+||++.++.++..+++++|++|+|||
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            4899999999999999999976 556666776644  3344444  3678899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCH----HHHHHHHHHc--CCeEEEecCCCC------C
Q 042687           94 ITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAA----EDAQILAEKE--GLSFLETSALEA------L  160 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~----~~~~~~~~~~--~~~~~~vSa~~~------~  160 (217)
                      ++++.+++.+..|+..+.... ..++|+++|+||+|+++.+....    ..+..++...  .+.++++||++|      .
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~  155 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDP  155 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcccc
Confidence            999999999998988876543 24799999999999976432111    1122333223  356888999998      8


Q ss_pred             CHHHHHHHHHH
Q 042687          161 NVEKAFQTILL  171 (217)
Q Consensus       161 gv~~~~~~l~~  171 (217)
                      |+++.|+||..
T Consensus       156 g~~~~~~wl~~  166 (167)
T cd04161         156 SIVEGLRWLLA  166 (167)
T ss_pred             CHHHHHHHHhc
Confidence            99999999964

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=1.3e-27  Score=174.54  Aligned_cols=153  Identities=23%  Similarity=0.378  Sum_probs=119.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .++|+++|++|||||||++++..+.+.. +.+|.+.+..  .+..+  .+.+.+||+||++.+...+..++..+|++|+|
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            5899999999999999999999887754 4566554443  33344  46788999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHH-HHH----HHcCCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQ-ILA----EKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~----~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ||+++++++.....++..+.... ..++|+++++||+|+...  ...++.. .+.    ...+++++++||++|.|++++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~  167 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEG  167 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHH
Confidence            99999998888777666654432 246999999999998652  2233322 221    234567999999999999999


Q ss_pred             HHHHHH
Q 042687          166 FQTILL  171 (217)
Q Consensus       166 ~~~l~~  171 (217)
                      |+||.+
T Consensus       168 ~~~l~~  173 (174)
T cd04153         168 LDWIAS  173 (174)
T ss_pred             HHHHhc
Confidence            999964

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=7.9e-28  Score=173.55  Aligned_cols=152  Identities=21%  Similarity=0.340  Sum_probs=117.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc-ccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF-CLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +|+++|++|||||||+++|.+..+ ...+.+|.+....  .+..  ..+.+.+||+||++.+..++..+++.+|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFEK--GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEEE--CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998763 4455666664332  2232  3467889999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVEK  164 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~~  164 (217)
                      |++++.++.....|+..+....   ..++|+++|+||+|+.+..  ...+......     ...++++++||++|.|+++
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            9999999888888887765532   2479999999999986532  1222222211     1234689999999999999


Q ss_pred             HHHHHHH
Q 042687          165 AFQTILL  171 (217)
Q Consensus       165 ~~~~l~~  171 (217)
                      +|+||.+
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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=1.4e-27  Score=171.94  Aligned_cols=152  Identities=23%  Similarity=0.410  Sum_probs=117.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      +|+++|++|||||||+++|.+..+.. ..+|.+.+.  ..+... ..+.+.+||+||++.+...+..++..+|++|+|+|
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            58999999999999999999988753 345555443  233333 34689999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHH------HHHHcCCeEEEecCCCCCCHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQI------LAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~------~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++++.++.....|+..+.... ..+.|+++|+||+|+....  ...++..      +....+++++++||++|.|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            999998888888777765432 2479999999999986421  1222221      122234579999999999999999


Q ss_pred             HHHHH
Q 042687          167 QTILL  171 (217)
Q Consensus       167 ~~l~~  171 (217)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            99864

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

>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=99.95  E-value=4.8e-27  Score=171.53  Aligned_cols=157  Identities=27%  Similarity=0.475  Sum_probs=125.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+++|..|||||||++++..+.... ..||.+  +....+.+++  +.+.+||.+|+..++..|+.++.++|++|
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            567999999999999999999998766533 556655  4444555665  56789999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHH------HcCCeEEEecCCCCCCH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE------KEGLSFLETSALEALNV  162 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~vSa~~~~gv  162 (217)
                      ||+|.++++.+......+..+... ...++|++|++||.|+.+  ....+++.....      ...+.++.+||.+|.|+
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            999999998888887777776553 235899999999999875  233445544332      23456999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          163 EKAFQTILLDI  173 (217)
Q Consensus       163 ~~~~~~l~~~~  173 (217)
                      .+.++||.+.+
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 ....

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=3.9e-27  Score=174.41  Aligned_cols=155  Identities=20%  Similarity=0.314  Sum_probs=122.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+++|++|||||||++++.++.+. .+.+|.+..  ...+.+++  +.+.+||+||++.+...+..+++.+|++++
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            4589999999999999999999988764 455555433  33445554  567899999999998889999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHH----------------cCCeEEE
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK----------------EGLSFLE  153 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----------------~~~~~~~  153 (217)
                      |+|+++.+++.....|+..+.... ..+.|+++++||+|+..  .+..+++......                ..+++++
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            999999988888877777765533 34799999999999864  3445555555432                2246899


Q ss_pred             ecCCCCCCHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLD  172 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~  172 (217)
                      +||++|.|++++|+||.+.
T Consensus       171 ~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         171 CSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             eEecCCCChHHHHHHHHhh
Confidence            9999999999999999874

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=99.95  E-value=4.4e-27  Score=170.54  Aligned_cols=152  Identities=22%  Similarity=0.383  Sum_probs=116.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc------ccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF------CLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +|+|+|++|||||||+++|.+...      ...+.+|.+.+.  ..+.++  ...+.+||+||++.+..++..++..+|+
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            589999999999999999976432      122334544444  334444  3578899999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHH-------cCCeEEEecCCCC
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-------EGLSFLETSALEA  159 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~vSa~~~  159 (217)
                      +++|+|+++++++.....|+..+.... ..++|+++++||+|+...  ....+...+...       .+++++++||++|
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            999999999988888888877765542 347999999999998653  233444443322       2468999999999


Q ss_pred             CCHHHHHHHHHH
Q 042687          160 LNVEKAFQTILL  171 (217)
Q Consensus       160 ~gv~~~~~~l~~  171 (217)
                      .|++++++||.+
T Consensus       155 ~gv~e~~~~l~~  166 (167)
T cd04160         155 TGVREGIEWLVE  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999965

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=2.1e-27  Score=170.81  Aligned_cols=151  Identities=24%  Similarity=0.402  Sum_probs=113.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|+++||||||+++|..+.+. .+.+|.+.+..  .+..  ..+.+++||+||++.+..++..++..+|++|+|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVE--TVTY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            6899999999999999999887764 34455554433  2333  34678999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHH-HhhcCCCCeEEEEEeCCCCccccccCHHHHHH-HH----HHcCCeEEEecCCCCCCHHHHHH
Q 042687           94 ITKRQTFDNVTRWLREL-RDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-LA----EKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~~----~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      ++++.++.....++..+ ......++|+++|+||+|+.+..  ...++.. +.    ...+.+++++||++|.|++++|+
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            99988877765555543 33333479999999999986532  1222222 21    11235799999999999999999


Q ss_pred             HHHH
Q 042687          168 TILL  171 (217)
Q Consensus       168 ~l~~  171 (217)
                      +|.+
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9975

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.

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=2.5e-26  Score=167.54  Aligned_cols=141  Identities=37%  Similarity=0.672  Sum_probs=126.7

Q ss_pred             CccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc
Q 042687           35 NEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA  114 (217)
Q Consensus        35 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~  114 (217)
                      +.|...+.+|.+.++....+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++++++.+..|+..+....
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            45667788999989988888899999999999999999999999999999999999999999999999999999887665


Q ss_pred             CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          115 DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       115 ~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ..++|++||+||+|+.+.+.+...++..++..+++.++++||++|.|++++|++|++.+.+
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~  143 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPN  143 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5579999999999997666777788888888889999999999999999999999987643

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.95  E-value=4.7e-27  Score=168.95  Aligned_cols=151  Identities=22%  Similarity=0.400  Sum_probs=118.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|.+|||||||++++.+... ..+.++.+...  ..+.+.  .+.+.+||+||++.+...+..++..+|++++|||
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            689999999999999999999874 34455555433  334444  3678899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHHH
Q 042687           94 ITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +++++++.....|+..+.... ..+.|+++++||+|+....  ..++......     ...++++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999999888877765543 3589999999999987533  2223333222     2346899999999999999999


Q ss_pred             HHHH
Q 042687          168 TILL  171 (217)
Q Consensus       168 ~l~~  171 (217)
                      +|+.
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            9875

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=1.5e-26  Score=179.89  Aligned_cols=142  Identities=25%  Similarity=0.482  Sum_probs=122.0

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-------------CeEEEEEEEecCChhhh
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-------------GKTVKAQIWDTAGQERY   74 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-------------~~~~~~~i~D~~G~~~~   74 (217)
                      ++...+||+|+|..|||||||+++|+++.+...+.+|.+.++....+.++             +..+.+.||||+|++.|
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErf   96 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERY   96 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhh
Confidence            44567999999999999999999999999988888998888776666654             25688999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcC------------CCCeEEEEEeCCCCcccc---c---cC
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD------------SNIVIMMAGNKSDLNHLR---A---VA  136 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~------------~~~p~ivv~nK~Dl~~~~---~---~~  136 (217)
                      ..++..+++++|++|+|||++++.+++.+..|+..+.....            .++|++||+||+|+...+   .   +.
T Consensus        97 rsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~  176 (334)
T PLN00023         97 KDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNL  176 (334)
T ss_pred             hhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccccc
Confidence            99999999999999999999999999999999999987631            258999999999996542   2   25


Q ss_pred             HHHHHHHHHHcCC
Q 042687          137 AEDAQILAEKEGL  149 (217)
Q Consensus       137 ~~~~~~~~~~~~~  149 (217)
                      .+++++++...++
T Consensus       177 ~e~a~~~A~~~g~  189 (334)
T PLN00023        177 VDAARQWVEKQGL  189 (334)
T ss_pred             HHHHHHHHHHcCC
Confidence            6789999998873

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.95  E-value=2.4e-26  Score=169.34  Aligned_cols=156  Identities=17%  Similarity=0.288  Sum_probs=120.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+++|.+|||||||+++|.++.+.. +.+|.+..  ...+..++  +++.+||+||+..++..+..++.++|++|
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPT--SEELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            345899999999999999999999887643 34444332  22333443  67889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHH------------cCCeEEEecC
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK------------EGLSFLETSA  156 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~vSa  156 (217)
                      +|+|+++++++.....++..+.... ..+.|+++|+||+|+..  .+..+++......            ....++++||
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            9999999999888877777765432 24789999999999864  3344454433211            1245999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 042687          157 LEALNVEKAFQTILLD  172 (217)
Q Consensus       157 ~~~~gv~~~~~~l~~~  172 (217)
                      ++|.|++++++||.+.
T Consensus       168 ~~~~g~~~~~~wl~~~  183 (184)
T smart00178      168 VRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCChHHHHHHHHhh
Confidence            9999999999999764

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=99.95  E-value=1.2e-25  Score=154.87  Aligned_cols=161  Identities=22%  Similarity=0.366  Sum_probs=128.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..++|+++|..||||||++++|.+.. .....||.+  +......+++  +++++||.+|+...++.|+.|+..+|++|
T Consensus        14 erE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdglI   88 (185)
T KOG0073|consen   14 EREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGLI   88 (185)
T ss_pred             hheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeEE
Confidence            457999999999999999999998765 344456655  4444444444  67889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHh-hcCCCCeEEEEEeCCCCcccc---ccC-HHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHLR---AVA-AEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~Dl~~~~---~~~-~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      +|+|.+|+..+++-...+..+.. ..-.+.|++|++||.|++..-   .+. ..+++++++..+++++.|||.+|+++.+
T Consensus        89 wvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~  168 (185)
T KOG0073|consen   89 WVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLE  168 (185)
T ss_pred             EEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccHHH
Confidence            99999999888876555555332 223479999999999997421   111 1235667778889999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      .++||++.+.+
T Consensus       169 gidWL~~~l~~  179 (185)
T KOG0073|consen  169 GIDWLCDDLMS  179 (185)
T ss_pred             HHHHHHHHHHH
Confidence            99999998876

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=1.3e-25  Score=160.87  Aligned_cols=151  Identities=22%  Similarity=0.413  Sum_probs=119.7

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeC
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDI   94 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~   94 (217)
                      |+++|++|||||||+++|.+..+...+.++.+.+...  +..++  +.+.+||+||++.+...+..++..+|++++|+|+
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            8999999999999999999999888888887755543  33443  6789999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHH-HH----HHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           95 TKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQ-IL----AEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        95 ~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~----~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      +++.++.....|+..+... ...++|+++|+||+|+.....  ..+.. .+    .....++++++|++++.|+++++++
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            9998888877777665442 224789999999999865322  12221 11    1123467999999999999999999


Q ss_pred             HHH
Q 042687          169 ILL  171 (217)
Q Consensus       169 l~~  171 (217)
                      |.+
T Consensus       156 l~~  158 (159)
T cd04159         156 LIK  158 (159)
T ss_pred             Hhh
Confidence            975

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.

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=1.1e-25  Score=165.10  Aligned_cols=154  Identities=23%  Similarity=0.292  Sum_probs=112.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc-------cccCCCCC------cceeeEEEEEE--E---CCeEEEEEEEecCChhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE-------FCLESKST------IGVEFATRTLQ--V---EGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~-------~~~~~~~t------~~~~~~~~~~~--~---~~~~~~~~i~D~~G~~~~~   75 (217)
                      +|+++|+++||||||+++|++..       +...+.++      .+.++......  +   ++..+.+++|||||++.+.
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            69999999999999999998742       11112121      12233332222  2   5667889999999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC---eEE
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL---SFL  152 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~  152 (217)
                      ..+..++..+|++|+|||+++..+......|.... .   .++|+++|+||+|+.+..  .......++...++   +++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            99999999999999999999876666665554332 2   378999999999986422  12233455565665   489


Q ss_pred             EecCCCCCCHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++||++|.|++++|++|.+.+
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhC
Confidence            999999999999999998754

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.94  E-value=1.1e-25  Score=163.42  Aligned_cols=156  Identities=19%  Similarity=0.210  Sum_probs=108.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc---------cchhhhhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR---------AITSAYYR   83 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~   83 (217)
                      .+|+++|++|||||||+++|.+..+.....+..+.+.....+..  ..+.+.+|||||.....         ........
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            37999999999999999999998764332222222232222222  34678899999973210         01111123


Q ss_pred             CCcEEEEEEeCCChhh--HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           84 GAVGALLVYDITKRQT--FDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      .+|++|+|+|++++.+  ++....|+..+.... .+.|+++|+||+|+.......  +...+....+++++++||++|.|
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLS--EIEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHH--HHHHhhhhccCceEEEEecccCC
Confidence            4689999999998754  355567777776544 379999999999986543322  24455555678999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDI  173 (217)
Q Consensus       162 v~~~~~~l~~~~  173 (217)
                      ++++|+++.+.+
T Consensus       156 i~~l~~~l~~~~  167 (168)
T cd01897         156 VDEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

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.

>cd01898 Obg Obg subfamily

Probab=99.94  E-value=9.9e-26  Score=163.86  Aligned_cols=157  Identities=16%  Similarity=0.119  Sum_probs=111.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----hhccchhhh---hcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----RYRAITSAY---YRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~---~~~~d   86 (217)
                      +|+++|.+|||||||+++|.+........+..+.+.....+.+++. ..+.+|||||..    ....+...+   +..+|
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            5899999999999999999876542221122222222223333332 468899999963    222223333   45699


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHH-cCCeEEEecCCCCCCH
Q 042687           87 GALLVYDITKR-QTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-EGLSFLETSALEALNV  162 (217)
Q Consensus        87 ~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~vSa~~~~gv  162 (217)
                      ++++|+|++++ ++++.+..|+..+.....  .++|+++|+||+|+.+.... ......+... .+.+++++||+++.|+
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            99999999998 788888899888876542  37899999999998654433 2334445555 3678999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          163 EKAFQTILLD  172 (217)
Q Consensus       163 ~~~~~~l~~~  172 (217)
                      +++|++|.++
T Consensus       160 ~~l~~~i~~~  169 (170)
T cd01898         160 DELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999999875

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=99.94  E-value=6.7e-25  Score=156.92  Aligned_cols=157  Identities=36%  Similarity=0.562  Sum_probs=126.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|.+|+|||||++++....+...+.++.+.+.....+..++..+.+.+||+||+..+...+..++..++.++.++
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~   81 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVF   81 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEE
Confidence            79999999999999999999999876777777777777766777877788999999999999999988999999999999


Q ss_pred             eCCCh-hhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           93 DITKR-QTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        93 d~~~~-~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |+... .++.... .|+..+......+.|+++++||+|+.... ........+......+++++||.++.|+.++|++|.
T Consensus        82 d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231        82 DIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             EEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            99876 5555554 66666666554488999999999986533 223333344444456899999999999999999873

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.94  E-value=2.1e-24  Score=163.26  Aligned_cols=170  Identities=39%  Similarity=0.593  Sum_probs=139.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|+.|||||||+++|..+.+...+.+|.+..+...........+++.+|||+|++.++.++..++.++++++++|
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~   85 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVY   85 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEE
Confidence            89999999999999999999999999989988887887777777666888999999999999999999999999999999


Q ss_pred             eCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHc---CCeEEEecC
Q 042687           93 DITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKE---GLSFLETSA  156 (217)
Q Consensus        93 d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~---~~~~~~vSa  156 (217)
                      |..+.. +.+....|...+........|+++++||+|+....            ..............   ...++++|+
T Consensus        86 d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  165 (219)
T COG1100          86 DSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSA  165 (219)
T ss_pred             ecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeec
Confidence            999944 55556899999888876579999999999996642            22222222222222   334899999


Q ss_pred             C--CCCCHHHHHHHHHHHHHHHHHHHHH
Q 042687          157 L--EALNVEKAFQTILLDIYHIISKKAL  182 (217)
Q Consensus       157 ~--~~~gv~~~~~~l~~~~~~~~~~~~~  182 (217)
                      .  ++.+++++|..+++.+.+.......
T Consensus       166 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~  193 (219)
T COG1100         166 KSLTGPNVNELFKELLRKLLEEIEKLVL  193 (219)
T ss_pred             ccCCCcCHHHHHHHHHHHHHHhhhhhhh
Confidence            9  9999999999999988766554443

>cd01878 HflX HflX subfamily

Probab=99.94  E-value=2e-25  Score=167.05  Aligned_cols=156  Identities=19%  Similarity=0.174  Sum_probs=113.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh---------hccchhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------YRAITSA   80 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~   80 (217)
                      ++.++|+|+|++|||||||++++.+..+.....+..+.+.....+.+++. ..+.+|||||...         +...+ .
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            45689999999999999999999998654332222223333334444443 2678999999621         22211 2


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      .+..+|++++|+|++++.+......|...+......++|+++|+||+|+......     .......+.+++++||+++.
T Consensus       117 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~  191 (204)
T cd01878         117 EVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGE  191 (204)
T ss_pred             HHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCC
Confidence            3678999999999999888877777777776655557899999999998653321     13344556789999999999


Q ss_pred             CHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLD  172 (217)
Q Consensus       161 gv~~~~~~l~~~  172 (217)
                      |+++++++|...
T Consensus       192 gi~~l~~~L~~~  203 (204)
T cd01878         192 GLDELLEAIEEL  203 (204)
T ss_pred             CHHHHHHHHHhh
Confidence            999999999765

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=99.93  E-value=7.4e-25  Score=173.97  Aligned_cols=162  Identities=14%  Similarity=0.079  Sum_probs=119.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhhcCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYYRGA   85 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~   85 (217)
                      -.|+|+|.+|||||||+++|.+........+.++.......+.+.+ ...+.+||+||..+       ....+...++.+
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            3689999999999999999998654433323333444444444422 23578999999532       122233456689


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +++|+|+|+++.++++.+..|...+.....  .++|+++|+||+|+.+.......+...+....+++++++||+++.|++
T Consensus       238 ~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~  317 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLD  317 (335)
T ss_pred             CEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHH
Confidence            999999999988888888999888877643  378999999999997644333334555555667899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      +++++|.+.+.+
T Consensus       318 eL~~~L~~~l~~  329 (335)
T PRK12299        318 ELLRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHHHh
Confidence            999999987754

>cd04155 Arl3 Arl3 subfamily

Probab=99.93  E-value=8.6e-25  Score=159.42  Aligned_cols=152  Identities=22%  Similarity=0.352  Sum_probs=115.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||++++.+..+. .+.++.+.+.  ..+..++  ..+.+||+||+..+...+..+++.+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            44699999999999999999999987653 3445555333  3344444  56789999999988888889999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--------CeEEEecCCCCC
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--------LSFLETSALEAL  160 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~vSa~~~~  160 (217)
                      +|+|+++..++.....|+..+... ...++|+++++||+|+.+...  ..++   ....+        ++++++||++|.
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~i---~~~l~~~~~~~~~~~~~~~Sa~~~~  161 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEEI---AEALNLHDLRDRTWHIQACSAKTGE  161 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHHH---HHHcCCcccCCCeEEEEEeECCCCC
Confidence            999999988888776666555432 234799999999999865221  2222   22222        247899999999


Q ss_pred             CHHHHHHHHHH
Q 042687          161 NVEKAFQTILL  171 (217)
Q Consensus       161 gv~~~~~~l~~  171 (217)
                      |++++|+||.+
T Consensus       162 gi~~~~~~l~~  172 (173)
T cd04155         162 GLQEGMNWVCK  172 (173)
T ss_pred             CHHHHHHHHhc
Confidence            99999999975

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=99.93  E-value=1.3e-24  Score=156.93  Aligned_cols=151  Identities=19%  Similarity=0.141  Sum_probs=104.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc---cccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE---FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~---~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .|+++|.+|||||||+++|.+..   +...+.++.+.+.....+.+.. ...+.+|||||++.+......++..+|++++
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            68999999999999999998642   3223233333334334444442 3478899999999887777778889999999


Q ss_pred             EEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cCHHHHHHHHHH---cCCeEEEecCCCCCCH
Q 042687           91 VYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VAAEDAQILAEK---EGLSFLETSALEALNV  162 (217)
Q Consensus        91 v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~vSa~~~~gv  162 (217)
                      |+|+++   +++.+.+    ..+... . ..|+++++||+|+.....  ....+.......   .+.+++++||+++.|+
T Consensus        81 V~d~~~~~~~~~~~~~----~~~~~~-~-~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  154 (164)
T cd04171          81 VVAADEGIMPQTREHL----EILELL-G-IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGI  154 (164)
T ss_pred             EEECCCCccHhHHHHH----HHHHHh-C-CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCH
Confidence            999987   3333322    222222 1 248999999999965321  112334444443   4578999999999999


Q ss_pred             HHHHHHHHH
Q 042687          163 EKAFQTILL  171 (217)
Q Consensus       163 ~~~~~~l~~  171 (217)
                      +++++++..
T Consensus       155 ~~l~~~l~~  163 (164)
T cd04171         155 EELKEYLDE  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999998754

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=99.93  E-value=3.6e-25  Score=156.41  Aligned_cols=134  Identities=24%  Similarity=0.255  Sum_probs=99.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh-----hhccchhhhhcCCcEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE-----RYRAITSAYYRGAVGA   88 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~i   88 (217)
                      ||+++|++|||||||+++|.+..+.  +.+|.+.+       +..     .+|||||..     .+..+. ..++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~~-------~~~-----~~iDt~G~~~~~~~~~~~~~-~~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAVE-------YND-----GAIDTPGEYVENRRLYSALI-VTAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeEE-------EcC-----eeecCchhhhhhHHHHHHHH-HHhhcCCEE
Confidence            8999999999999999999987652  22332221       211     589999972     333333 357899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQ  167 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~~~  167 (217)
                      |+|||++++.++.. ..|...+      ..|+++|+||+|+.+ +....++...++...+. +++++||++|.|++++|+
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            99999999888654 3443322      348999999999865 33445566777777776 899999999999999999


Q ss_pred             HHH
Q 042687          168 TIL  170 (217)
Q Consensus       168 ~l~  170 (217)
                      +|.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            874

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.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.93  E-value=1.8e-24  Score=147.42  Aligned_cols=174  Identities=24%  Similarity=0.348  Sum_probs=141.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC--CCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhh-ccchhhhhcCCc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE--SKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERY-RAITSAYYRGAV   86 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~--~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d   86 (217)
                      ...||+++|..++|||+++..+..+...+.  ..+|.+. .+...+.. .+..-.+.++||.|.... ..+-+.|+..+|
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiED-iY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aD   86 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIED-IYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFAD   86 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhh-heeEeeecCCChhheEEEeecccccCchhhhhHhHhccCc
Confidence            458999999999999999999987665433  3366543 33444433 455567899999997665 667788999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++++|||..|++||+.++.+-..|..+.+ ..+|+++++||+|+.+++.+..+-+..|++...+.++++++.+...+-+.
T Consensus        87 afVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   87 AFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhH
Confidence            99999999999999998666666655543 58999999999999888888888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIISKKALAAQ  185 (217)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~~  185 (217)
                      |.++...+.....++.+++.
T Consensus       167 f~~l~~rl~~pqskS~Fpl~  186 (198)
T KOG3883|consen  167 FTYLASRLHQPQSKSTFPLS  186 (198)
T ss_pred             HHHHHHhccCCcccccCcch
Confidence            99999988776666555444

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.93  E-value=1.6e-24  Score=153.02  Aligned_cols=160  Identities=19%  Similarity=0.346  Sum_probs=129.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .....+|+++|-.++||||++++|..++.-.. .||.+.+.....  +.  .+++++||..|++.++..|+.|+++.+++
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            34568999999999999999999988877444 788775555544  44  57899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNV  162 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv  162 (217)
                      |||+|.+|++.+..++..+..+..+.. ...|+++++||.|+++.  .+..++.....     ...+.+..++|.+|+|+
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            999999999999998777777665554 68999999999998763  33444433332     23456888999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYH  175 (217)
Q Consensus       163 ~~~~~~l~~~~~~  175 (217)
                      .+.++|+.+.+..
T Consensus       167 ~egl~wl~~~~~~  179 (181)
T KOG0070|consen  167 YEGLDWLSNNLKK  179 (181)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987743

>PRK04213 GTP-binding protein; Provisional

Probab=99.93  E-value=1.5e-25  Score=167.34  Aligned_cols=158  Identities=23%  Similarity=0.231  Sum_probs=107.4

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC-----------hhh
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG-----------QER   73 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~   73 (217)
                      ..+++...++|+++|.+|||||||+++|.+..+.....++.  ++....+...    .+.+|||||           .+.
T Consensus         2 ~~~~~~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~   75 (201)
T PRK04213          2 FETRPDRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV--TRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEK   75 (201)
T ss_pred             CcccCCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce--eeCceEEeec----ceEEEeCCccccccccCHHHHHH
Confidence            34555667999999999999999999999887654444433  3333333333    478999999           456


Q ss_pred             hccchhhhhc----CCcEEEEEEeCCChhhH-H---------HHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHH
Q 042687           74 YRAITSAYYR----GAVGALLVYDITKRQTF-D---------NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAED  139 (217)
Q Consensus        74 ~~~~~~~~~~----~~d~ii~v~d~~~~~s~-~---------~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  139 (217)
                      ++..+..++.    .++++++|+|.++...+ +         .-..++..+..   .++|+++|+||+|+.+..   .+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~~~~---~~~  149 (201)
T PRK04213         76 IKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKIKNR---DEV  149 (201)
T ss_pred             HHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECccccCcH---HHH
Confidence            6666555553    45788888888653211 0         00112222222   379999999999986533   234


Q ss_pred             HHHHHHHcCC---------eEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          140 AQILAEKEGL---------SFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       140 ~~~~~~~~~~---------~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ..++....++         +++++||++| |++++|++|.+.+.+
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        150 LDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             HHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            4555555554         5899999999 999999999987644

>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=99.92  E-value=2.3e-24  Score=152.21  Aligned_cols=148  Identities=20%  Similarity=0.258  Sum_probs=108.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh------hccchhhhh--cC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER------YRAITSAYY--RG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~~~~~~~~~--~~   84 (217)
                      ++|+++|.||||||||+|+|.+........|..+.+.....+.+++.  .+.++|+||.-.      .......++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~--~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGDQ--QVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTE--EEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecCc--eEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            58999999999999999999999876666677777777777888774  566999999321      122233343  68


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      .|++|.|.|+++.+   .-..+...+.+.   ++|+++++||+|+...+... .+...+.+.+++|++++||.++.|+++
T Consensus        79 ~D~ii~VvDa~~l~---r~l~l~~ql~e~---g~P~vvvlN~~D~a~~~g~~-id~~~Ls~~Lg~pvi~~sa~~~~g~~~  151 (156)
T PF02421_consen   79 PDLIIVVVDATNLE---RNLYLTLQLLEL---GIPVVVVLNKMDEAERKGIE-IDAEKLSERLGVPVIPVSARTGEGIDE  151 (156)
T ss_dssp             SSEEEEEEEGGGHH---HHHHHHHHHHHT---TSSEEEEEETHHHHHHTTEE-E-HHHHHHHHTS-EEEEBTTTTBTHHH
T ss_pred             CCEEEEECCCCCHH---HHHHHHHHHHHc---CCCEEEEEeCHHHHHHcCCE-ECHHHHHHHhCCCEEEEEeCCCcCHHH
Confidence            99999999998743   222344445554   89999999999986644332 246778888999999999999999999


Q ss_pred             HHHHH
Q 042687          165 AFQTI  169 (217)
Q Consensus       165 ~~~~l  169 (217)
                      +++.|
T Consensus       152 L~~~I  156 (156)
T PF02421_consen  152 LKDAI  156 (156)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            98865

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 ....

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.92  E-value=5.4e-24  Score=154.37  Aligned_cols=156  Identities=17%  Similarity=0.191  Sum_probs=109.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      .|+|+|.+|+|||||+++|....+...+.++.+.+.....+..+ +....+.+|||||++.+..++..++..+|++++|+
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            58999999999999999999888765544443333333333333 13467889999999998888888899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHH------HcCCeEEEecCCCCCCHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAE------KEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~------~~~~~~~~vSa~~~~gv~~~  165 (217)
                      |+++....+.. ..+..+..   .++|+++|+||+|+....... ..+...+..      ...++++++|+.+|.|++++
T Consensus        82 d~~~~~~~~~~-~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQTI-EAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHHH-HHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            99875322222 12222332   378999999999986422111 111222111      12368999999999999999


Q ss_pred             HHHHHHHH
Q 042687          166 FQTILLDI  173 (217)
Q Consensus       166 ~~~l~~~~  173 (217)
                      +++|.+..
T Consensus       158 ~~~l~~~~  165 (168)
T cd01887         158 LEAILLLA  165 (168)
T ss_pred             HHHHHHhh
Confidence            99998865

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=99.92  E-value=2.1e-23  Score=147.90  Aligned_cols=153  Identities=48%  Similarity=0.819  Sum_probs=121.9

Q ss_pred             EEcCCCCCHHHHHhHHhcCcc-ccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCC
Q 042687           17 LIGDSGVGKSNILSRFTRNEF-CLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        17 i~G~~~~GKstLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                      |+|++|+|||||++++.+... .....++. .+..............+.+||+||...+...+..+++.+|++++|+|++
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            589999999999999998877 44444554 6676777777777889999999999888887888899999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHhhcCCCCeEEEEEeCCCCccccccCHHH-HHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           96 KRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNHLRAVAAED-AQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        96 ~~~s~~~~~~~~-~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ++.++..+..|. .........++|+++++||+|+.......... ........+++++++|+.++.|+++++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            999888887762 23333444589999999999987644332222 3445556678999999999999999999985

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=99.92  E-value=1e-23  Score=151.40  Aligned_cols=148  Identities=19%  Similarity=0.198  Sum_probs=110.6

Q ss_pred             EEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc------chhhhh--cCCcEE
Q 042687           17 LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA------ITSAYY--RGAVGA   88 (217)
Q Consensus        17 i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~i   88 (217)
                      |+|.+|||||||++++.+..+.....++.+.+.....+.+++  ..+.+|||||+..+..      ++..++  ..+|++
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            589999999999999998865544445555555556666665  4678999999876554      245555  499999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|+|+.+++...   .|+..+...   ++|+++|+||+|+.+..... .+...+....+++++++||.++.|+++++++
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~~---~~~~iiv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLEL---GLPVVVALNMIDEAEKRGIK-IDLDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHHc---CCCEEEEEehhhhcccccch-hhHHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            9999998865432   334344332   78999999999996644333 2345677777899999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |.+.+
T Consensus       152 l~~~~  156 (158)
T cd01879         152 IAELA  156 (158)
T ss_pred             HHHHh
Confidence            98753

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.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.92  E-value=5.6e-24  Score=158.03  Aligned_cols=149  Identities=17%  Similarity=0.192  Sum_probs=104.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc--CccccCC------------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccch
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR--NEFCLES------------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAIT   78 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   78 (217)
                      -+|+++|.++||||||+++|+.  +.+...+            ..+.+.+.......+++..+.+.+|||||++.|...+
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            4899999999999999999997  4443322            1223334444444455556788999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHHHHHH-------HcCCe
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQILAE-------KEGLS  150 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~  150 (217)
                      ..+++.+|++++|||+++.. ......++..+..   .++|+++++||+|+...+.. ..+++..+..       ..+++
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            99999999999999998742 2222334443333   37899999999998643221 1233444432       23678


Q ss_pred             EEEecCCCCCCHHHH
Q 042687          151 FLETSALEALNVEKA  165 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~  165 (217)
                      ++++||++|.|+.+.
T Consensus       159 iv~~Sa~~g~~~~~~  173 (194)
T cd01891         159 VLYASAKNGWASLNL  173 (194)
T ss_pred             EEEeehhcccccccc
Confidence            999999999887554

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.92  E-value=2.2e-23  Score=165.44  Aligned_cols=159  Identities=16%  Similarity=0.107  Sum_probs=114.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hccch---hhhhcCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRAIT---SAYYRGA   85 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~---~~~~~~~   85 (217)
                      -.|+|+|.+|||||||+++|.+........+.++.......+.+++ ...+.+||+||...    ...+.   ...+..+
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            4789999999999999999998764333222223344444444543 24678999999632    11222   3335679


Q ss_pred             cEEEEEEeCCCh---hhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           86 VGALLVYDITKR---QTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        86 d~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      +++|+|+|+++.   ++++.+..|...+.....  .++|++||+||+|+..... .....+.+....+.+++++||+++.
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   677888888877765532  3789999999999975432 2334555666677899999999999


Q ss_pred             CHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDI  173 (217)
Q Consensus       161 gv~~~~~~l~~~~  173 (217)
                      |+++++++|.+.+
T Consensus       316 GI~eL~~~I~~~l  328 (329)
T TIGR02729       316 GLDELLYALAELL  328 (329)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998754

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.91  E-value=1.8e-23  Score=167.29  Aligned_cols=154  Identities=19%  Similarity=0.166  Sum_probs=111.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh---------hhhccchhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ---------ERYRAITSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~   81 (217)
                      ..++|+++|.+|+|||||+|+|.+..+.....+..+.+.....+.+.+. ..+.+|||+|.         +.|...+ ..
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~tl-e~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRATL-EE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHHH-HH
Confidence            4589999999999999999999998754333333334555566666322 36789999996         2233322 34


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +.++|++++|+|++++.+.+.+..|...+......+.|+++|+||+|+.....     ..... ....+++++||++|.|
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~~-~~~~~~i~iSAktg~G  339 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERLE-EGYPEAVFVSAKTGEG  339 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHHH-hCCCCEEEEEccCCCC
Confidence            78999999999999988877776666666655445789999999999865221     21111 1224689999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          162 VEKAFQTILLD  172 (217)
Q Consensus       162 v~~~~~~l~~~  172 (217)
                      +++++++|.+.
T Consensus       340 I~eL~~~I~~~  350 (351)
T TIGR03156       340 LDLLLEAIAER  350 (351)
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

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).

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.91  E-value=4.1e-24  Score=144.67  Aligned_cols=156  Identities=21%  Similarity=0.383  Sum_probs=123.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+.+.++|-.++|||||+|.+..+.+...-.||.+.+.+.    +....+.+.+||.+|++.|+.+|+.|++.++++++|
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            4789999999999999999999989888888887754432    444556788999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHh-hcCCCCeEEEEEeCCCCccccccCHHH-HHHH----HHHcCCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHLRAVAAED-AQIL----AEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~----~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      +|+++++.+......++.+.. ..-.++|++|++||.|+++.  ..... ++++    .....+-.|.+|+++..+++.+
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A--L~~~~li~rmgL~sitdREvcC~siScke~~Nid~~  173 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA--LSKIALIERMGLSSITDREVCCFSISCKEKVNIDIT  173 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc--ccHHHHHHHhCccccccceEEEEEEEEcCCccHHHH
Confidence            999999888877555555433 33458999999999998762  22222 2222    1123355899999999999999


Q ss_pred             HHHHHHHH
Q 042687          166 FQTILLDI  173 (217)
Q Consensus       166 ~~~l~~~~  173 (217)
                      .+||+++-
T Consensus       174 ~~Wli~hs  181 (186)
T KOG0075|consen  174 LDWLIEHS  181 (186)
T ss_pred             HHHHHHHh
Confidence            99998864

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.91  E-value=1.3e-23  Score=143.51  Aligned_cols=168  Identities=26%  Similarity=0.528  Sum_probs=146.4

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +.--.+||.++|++..|||||+-+++++.++..+..+.|.++..+.+.+.+..+.+.|||..|++++..+......++-+
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            33456899999999999999999999999998888999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc----cc-cccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN----HL-RAVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~----~~-~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                      ++|+||++.+.++..+..|+...+......+|+ +|++|.|+-    .+ ...-..+++.+++-.++++|.+|+..+.|+
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv  174 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPI-LVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINV  174 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccCCccceE-EeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccH
Confidence            999999999999999999999988877655664 679999962    11 111124577888889999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYHI  176 (217)
Q Consensus       163 ~~~~~~l~~~~~~~  176 (217)
                      +.+|..+..++...
T Consensus       175 ~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  175 QKIFKIVLAKLFNL  188 (205)
T ss_pred             HHHHHHHHHHHhCC
Confidence            99999998877653

>TIGR00436 era GTP-binding protein Era

Probab=99.91  E-value=4.7e-23  Score=160.36  Aligned_cols=152  Identities=17%  Similarity=0.137  Sum_probs=104.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhh--------ccchhhhhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERY--------RAITSAYYRG   84 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~   84 (217)
                      +|+|+|.+|||||||+|+|.+..+...+. +.++..........++  ..+.+|||||....        ......++..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999987654332 2222222222222233  46789999996432        1113456789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVE  163 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~  163 (217)
                      +|++++|+|+++..+..  ..++..+...   +.|+++|+||+|+...... ......+....+. +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~~---~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQNL---KRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHhc---CCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999876654  3444444432   7899999999998642221 2234444444444 79999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      +++++|.+.+
T Consensus       154 ~L~~~l~~~l  163 (270)
T TIGR00436       154 FLAAFIEVHL  163 (270)
T ss_pred             HHHHHHHHhC
Confidence            9999998754

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.90  E-value=4.1e-23  Score=150.81  Aligned_cols=155  Identities=22%  Similarity=0.200  Sum_probs=106.8

Q ss_pred             EEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hccc---hhhhhcCCcEEE
Q 042687           17 LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRAI---TSAYYRGAVGAL   89 (217)
Q Consensus        17 i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d~ii   89 (217)
                      |+|++|||||||+++|.+........+..+.+.....+.+++ ...+.+||+||...    ...+   +...+..+|+++
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            589999999999999998865222212222223333344441 34678999999632    1222   234577899999


Q ss_pred             EEEeCCCh------hhHHHHHHHHHHHHhhcC-------CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecC
Q 042687           90 LVYDITKR------QTFDNVTRWLRELRDHAD-------SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        90 ~v~d~~~~------~s~~~~~~~~~~i~~~~~-------~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                      +|+|++++      .++..+..|...+.....       .+.|+++|+||+|+..................+.+++++||
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  159 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISA  159 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEeh
Confidence            99999987      577777777777665432       37999999999999764433322223334445678999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 042687          157 LEALNVEKAFQTILLD  172 (217)
Q Consensus       157 ~~~~gv~~~~~~l~~~  172 (217)
                      +++.|++++++++.+.
T Consensus       160 ~~~~gl~~l~~~l~~~  175 (176)
T cd01881         160 KTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhcCHHHHHHHHHhh
Confidence            9999999999998764

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

>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=99.90  E-value=9.8e-23  Score=139.62  Aligned_cols=114  Identities=32%  Similarity=0.625  Sum_probs=88.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccc--cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFC--LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      ||+|+|+.|||||||+++|++..+.  ..+..+.+.+..............+.+||++|++.+...+...+..+|++++|
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  12223334445555566777777799999999998888888889999999999


Q ss_pred             EeCCChhhHHHHHHH---HHHHHhhcCCCCeEEEEEeCCC
Q 042687           92 YDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~---~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      ||++++.+++.+..+   +..+..... .+|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~-~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDK-NIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSS-CSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCC-CCCEEEEEeccC
Confidence            999999999997554   555554334 699999999998

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.90  E-value=2.8e-22  Score=164.82  Aligned_cols=153  Identities=19%  Similarity=0.246  Sum_probs=115.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc--------hhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI--------TSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   81 (217)
                      ..++|+++|++|||||||+|+|++.... ....++++.+.....+.+++.  .+.+|||||...+...        ...+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~--~v~l~DTaG~~~~~~~ie~~gi~~~~~~  279 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGI--LIKLLDTAGIREHADFVERLGIEKSFKA  279 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCE--EEEEeeCCCcccchhHHHHHHHHHHHHH
Confidence            5589999999999999999999987543 222344455666666777764  4579999997543322        2356


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      ++.+|++++|||++++.+++..  |+..+..   .++|+++|+||+|+...      +...++...+.+++++||++ .|
T Consensus       280 ~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~g  347 (442)
T TIGR00450       280 IKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LK  347 (442)
T ss_pred             HhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CC
Confidence            7899999999999988776654  6655543   37899999999998642      22345566778899999998 69


Q ss_pred             HHHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHII  177 (217)
Q Consensus       162 v~~~~~~l~~~~~~~~  177 (217)
                      ++++|+.|.+.+.+..
T Consensus       348 I~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       348 IKALVDLLTQKINAFY  363 (442)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999887654

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=99.90  E-value=1.4e-22  Score=150.24  Aligned_cols=158  Identities=14%  Similarity=0.083  Sum_probs=102.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC----ccccCC---C--CCcceeeEEEEEE----------ECCeEEEEEEEecCChhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN----EFCLES---K--STIGVEFATRTLQ----------VEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~----~~~~~~---~--~t~~~~~~~~~~~----------~~~~~~~~~i~D~~G~~~   73 (217)
                      ++|+++|+.++|||||+++|+..    .+...+   .  .|....+....+.          ..+..+.+.+|||||+..
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            58999999999999999999872    121111   1  2222222222222          123356889999999876


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHHH-HH-----
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQIL-AE-----  145 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~-~~-----  145 (217)
                      +..........+|++++|+|+.+.........+.  +....  +.|+++++||+|+......  ..++.... ..     
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~~--~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEIL--CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHHc--CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            5444444567789999999998754333332222  11222  6799999999998642221  11222221 11     


Q ss_pred             -HcCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          146 -KEGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       146 -~~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                       ..+++++++||++|.|+++++++|.+++.
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence             23578999999999999999999988763

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

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=4e-22  Score=159.32  Aligned_cols=154  Identities=21%  Similarity=0.296  Sum_probs=106.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhh-hccch-------hh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQER-YRAIT-------SA   80 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~-------~~   80 (217)
                      ...++|+++|.+|||||||+|+|.+..+..... +.++.+.....+..++.  .+.+|||||... +..+.       ..
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~--qi~~~DTpG~~~~~~~l~~~~~r~~~~  127 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDT--QVILYDTPGIFEPKGSLEKAMVRCAWS  127 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCe--EEEEEECCCcCCCcccHHHHHHHHHHH
Confidence            345799999999999999999999988753222 22223334444555553  578999999742 22211       23


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--CeEEEecCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--LSFLETSAL  157 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~vSa~  157 (217)
                      .+..+|++++|+|..+  ++... ..|+..+...   +.|.++|+||+|+...   ...++..++...+  ..++++||+
T Consensus       128 ~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAk  199 (339)
T PRK15494        128 SLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISAL  199 (339)
T ss_pred             HhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEecc
Confidence            4679999999999765  33344 3455555443   5677889999998642   2344555555443  579999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDI  173 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~  173 (217)
                      +|.|++++|++|.+.+
T Consensus       200 tg~gv~eL~~~L~~~l  215 (339)
T PRK15494        200 SGKNIDGLLEYITSKA  215 (339)
T ss_pred             CccCHHHHHHHHHHhC
Confidence            9999999999998864

>cd01894 EngA1 EngA1 subfamily

Probab=99.89  E-value=3e-22  Score=143.41  Aligned_cols=146  Identities=19%  Similarity=0.138  Sum_probs=100.5

Q ss_pred             EEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc--------chhhhhcCCc
Q 042687           16 VLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA--------ITSAYYRGAV   86 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d   86 (217)
                      +++|.+|+|||||+++|.+.... ....+..+.+........++  ..+.+|||||...+..        .+...+..+|
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            48999999999999999987532 12222223333344444444  5678999999876443        3345678999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~  165 (217)
                      ++++|+|..++.+.... .+...+...   +.|+++|+||+|+......     .......+. +++++|++++.|++++
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~~---~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRKS---KKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHhc---CCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            99999999875443332 222223322   6999999999998763321     222334555 7899999999999999


Q ss_pred             HHHHHHH
Q 042687          166 FQTILLD  172 (217)
Q Consensus       166 ~~~l~~~  172 (217)
                      |++|.+.
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9999875

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=3.5e-22  Score=166.55  Aligned_cols=159  Identities=21%  Similarity=0.230  Sum_probs=112.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCCh----------hhhccch-
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ----------ERYRAIT-   78 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~-   78 (217)
                      ..++|+|+|.+|||||||+|+|++.... ....++++.+.....+..++..  +.+|||||.          +.+..+. 
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            4589999999999999999999988753 3334444555555666677754  469999994          2232222 


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHH-HHHHcCCeEEEec
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQI-LAEKEGLSFLETS  155 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~-~~~~~~~~~~~vS  155 (217)
                      ..+++.+|++|+|||++++.++..+. ++..+..   .++|+++|+||+|+.+....  ...++.. +.....++++++|
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            23578999999999999987777653 4444443   38999999999999642211  1112222 2222347899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~  175 (217)
                      |++|.|++++|+.+.+.+..
T Consensus       364 Ak~g~gv~~lf~~i~~~~~~  383 (472)
T PRK03003        364 AKTGRAVDKLVPALETALES  383 (472)
T ss_pred             CCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999886643

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.89  E-value=4.3e-22  Score=169.02  Aligned_cols=156  Identities=19%  Similarity=0.261  Sum_probs=115.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc-------cccCCCC------CcceeeEEEEE--EE---CCeEEEEEEEecCChhh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE-------FCLESKS------TIGVEFATRTL--QV---EGKTVKAQIWDTAGQER   73 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~-------~~~~~~~------t~~~~~~~~~~--~~---~~~~~~~~i~D~~G~~~   73 (217)
                      .-+|+|+|+.++|||||+++|+...       +...+..      ..+.++....+  .+   ++..+.+++|||||+..
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            3589999999999999999998642       1111111      12333433322  22   46678999999999999


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC---e
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL---S  150 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~  150 (217)
                      |...+..++..+|++|+|+|+++..+.+....|...+.    .++|+++|+||+|+....  ......++....++   +
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            99999999999999999999998766666666654432    278999999999986422  12223455555565   4


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++++||++|.|++++|++|.+.+
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~l  179 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRV  179 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhC
Confidence            89999999999999999998765

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.89  E-value=3.2e-22  Score=147.61  Aligned_cols=154  Identities=21%  Similarity=0.236  Sum_probs=109.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCC----------------cceeeEEEEEEECCeEEEEEEEecCChhhhccc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKST----------------IGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t----------------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      +|+|+|.+|+|||||+++|.+.........+                .+.......+...  ...+.+||+||...+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHHH
Confidence            5899999999999999999987665433211                1122222222233  457889999999988888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHHHHHH---------
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQILAEK---------  146 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~---------  146 (217)
                      +..++..+|++++|+|+.++..... ..++..+..   .+.|+++++||+|+......  ....+......         
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEE  154 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhh
Confidence            8899999999999999987654332 233444433   38999999999998652221  12223333322         


Q ss_pred             -----cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          147 -----EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       147 -----~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                           ...+++++||++|.|+++++.+|.+.+
T Consensus       155 ~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         155 GTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             hcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                 357899999999999999999998864

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.89  E-value=8.5e-22  Score=141.00  Aligned_cols=146  Identities=19%  Similarity=0.244  Sum_probs=105.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc--------hhhhhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI--------TSAYYR   83 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~   83 (217)
                      ++|+++|++|+|||||++++.+..... ...++.+.+.....+..++  ..+.+|||||...+...        ....+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            689999999999999999999876532 2223333344444444444  46789999996543321        234567


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .+|++++|+|++++.+......+..      ..+.|+++|+||+|+......       .....+.+++++||+++.|++
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            9999999999998776666543332      237999999999998753332       334456789999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      +++++|.+.+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999987753

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.89  E-value=9.7e-22  Score=146.15  Aligned_cols=162  Identities=17%  Similarity=0.178  Sum_probs=107.1

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh----------hhh
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ----------ERY   74 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~   74 (217)
                      .....+..++|+|+|.+|+|||||+++|.+..+...+.++.+.+........   ...+.+|||||.          +.+
T Consensus        17 ~~~~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~   93 (196)
T PRK00454         17 EQLPPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKW   93 (196)
T ss_pred             hhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHH
Confidence            3345557789999999999999999999987654444444443333322222   257889999994          344


Q ss_pred             ccchhhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHHHcCC
Q 042687           75 RAITSAYYRG---AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAEKEGL  149 (217)
Q Consensus        75 ~~~~~~~~~~---~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~~  149 (217)
                      ..+...++..   ++++++++|.+++...... .+...+..   .+.|+++++||+|+.+..+..  ..++.........
T Consensus        94 ~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~  169 (196)
T PRK00454         94 QKLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE---YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDD  169 (196)
T ss_pred             HHHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH---cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCC
Confidence            4444555554   4678888998765433221 11222222   278999999999986533221  1223344444467


Q ss_pred             eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +++++||+++.|+++++++|.+.+
T Consensus       170 ~~~~~Sa~~~~gi~~l~~~i~~~~  193 (196)
T PRK00454        170 EVILFSSLKKQGIDELRAAIAKWL  193 (196)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Confidence            899999999999999999998765

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=1.5e-21  Score=158.90  Aligned_cols=158  Identities=16%  Similarity=0.162  Sum_probs=113.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hccchhhh---hcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRAITSAY---YRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d   86 (217)
                      .|+|+|.+|||||||+++|++........+.++.......+.+++ ...+.+||+||...    ...+...+   +..++
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            899999999999999999998764432222223333333334431 24678999999532    12233333   45699


Q ss_pred             EEEEEEeCCCh---hhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           87 GALLVYDITKR---QTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        87 ~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      ++|+|+|+++.   ++++....|...+.....  .++|++||+||+|+..    ..+....+....+.+++++||+++.|
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   567777777777766543  3789999999999843    13345666666678899999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHI  176 (217)
Q Consensus       162 v~~~~~~l~~~~~~~  176 (217)
                      +++++++|.+.+.+.
T Consensus       315 I~eL~~~L~~~l~~~  329 (424)
T PRK12297        315 LDELLYAVAELLEET  329 (424)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999998876543

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=7.1e-22  Score=132.83  Aligned_cols=155  Identities=21%  Similarity=0.396  Sum_probs=123.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .++|+.+|-.++||||++.+|+-+.. ....+|++.+...  +.+  ..+++++||.+|++..+..|+.|+....++|||
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnvet--Vty--kN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV   91 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVET--VTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   91 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCC-cccccccceeEEE--EEe--eeeEEeeeeccCchhhhHHHHhhccCCceEEEE
Confidence            58999999999999999999987664 4455676654444  334  346788999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      +|.++++.+++.+..+..+.... -...|++|.+||.|++...  +..|+..+.     +...+-+.++++.+|+|+.+-
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 VDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM--KPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEG  169 (180)
T ss_pred             EeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc--CHHHHHHHhccccccCCccEeeccccccchhHHHH
Confidence            99999988888876666655443 3579999999999998633  345554443     333466889999999999999


Q ss_pred             HHHHHHHH
Q 042687          166 FQTILLDI  173 (217)
Q Consensus       166 ~~~l~~~~  173 (217)
                      |.||.+.+
T Consensus       170 lswlsnn~  177 (180)
T KOG0071|consen  170 LSWLSNNL  177 (180)
T ss_pred             HHHHHhhc
Confidence            99998754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=5.9e-22  Score=165.16  Aligned_cols=156  Identities=23%  Similarity=0.249  Sum_probs=109.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhh--------hccchhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------YRAITSA   80 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~   80 (217)
                      ...++|+|+|.+|||||||+|+|++..... ...++.+.+.....+..++.  .+.+|||||.+.        +...+..
T Consensus        36 ~~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~  113 (472)
T PRK03003         36 GPLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGR--RFTVVDTGGWEPDAKGLQASVAEQAEV  113 (472)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCc--EEEEEeCCCcCCcchhHHHHHHHHHHH
Confidence            345799999999999999999999876542 33344444555555555554  577999999652        3344556


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ++..+|++|+|||+++..+... ..|...+..   .++|+++|+||+|+....   .+..+.+....+ ..+++||++|.
T Consensus       114 ~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~~~g~~-~~~~iSA~~g~  185 (472)
T PRK03003        114 AMRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALWSLGLG-EPHPVSALHGR  185 (472)
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHHhcCCC-CeEEEEcCCCC
Confidence            7889999999999998755432 344444443   379999999999986421   112222222233 35799999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYH  175 (217)
Q Consensus       161 gv~~~~~~l~~~~~~  175 (217)
                      |++++|++|++.+.+
T Consensus       186 gi~eL~~~i~~~l~~  200 (472)
T PRK03003        186 GVGDLLDAVLAALPE  200 (472)
T ss_pred             CcHHHHHHHHhhccc
Confidence            999999999987744

>PRK11058 GTPase HflX; Provisional

Probab=99.89  E-value=9.4e-22  Score=160.88  Aligned_cols=158  Identities=18%  Similarity=0.161  Sum_probs=110.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh--ccch------hhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY--RAIT------SAYYR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~~------~~~~~   83 (217)
                      .++|+|+|.+|||||||+|+|.+..+.....+..+.+.....+.+.+. ..+.+|||+|....  ...+      ...+.
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            368999999999999999999987765433333344555555555442 15679999996321  1112      23468


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe-EEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS-FLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~vSa~~~~gv  162 (217)
                      .+|++|+|+|++++.+.+.+..|...+......++|+++|+||+|+.....   ....  ....+.+ ++++||++|.|+
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~--~~~~~~~~~v~ISAktG~GI  350 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRID--RDEENKPIRVWLSAQTGAGI  350 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHH--HHhcCCCceEEEeCCCCCCH
Confidence            899999999999988777766555555554444799999999999864211   1111  1123455 588999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYH  175 (217)
Q Consensus       163 ~~~~~~l~~~~~~  175 (217)
                      ++++++|.+.+..
T Consensus       351 deL~e~I~~~l~~  363 (426)
T PRK11058        351 PLLFQALTERLSG  363 (426)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999988743

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.89  E-value=5.4e-22  Score=142.49  Aligned_cols=140  Identities=15%  Similarity=0.195  Sum_probs=98.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----hhccchhhhhcCCcEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----RYRAITSAYYRGAVGAL   89 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~~~~~d~ii   89 (217)
                      +|+++|.+|+|||||+|+|.+... . ...+.       .+.+...    .+|||||..    .+.......+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~-~-~~~~~-------~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT-L-ARKTQ-------AVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc-c-Cccce-------EEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            799999999999999999876431 1 11111       1122222    279999962    22222233478999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC--eEEEecCCCCCCHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL--SFLETSALEALNVEKAFQ  167 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|+++.+++.  ..|+..+    ..+.|+++++||+|+.+   ...+...+++...+.  |++++||++|.|++++|+
T Consensus        70 ~v~d~~~~~s~~--~~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~  140 (158)
T PRK15467         70 YVHGANDPESRL--PAGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVD  140 (158)
T ss_pred             EEEeCCCccccc--CHHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHH
Confidence            999999876542  2343332    12678999999999864   234556677777774  899999999999999999


Q ss_pred             HHHHHHHH
Q 042687          168 TILLDIYH  175 (217)
Q Consensus       168 ~l~~~~~~  175 (217)
                      ++.+.+.+
T Consensus       141 ~l~~~~~~  148 (158)
T PRK15467        141 YLASLTKQ  148 (158)
T ss_pred             HHHHhchh
Confidence            99887644

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=1.4e-21  Score=160.89  Aligned_cols=162  Identities=15%  Similarity=0.076  Sum_probs=111.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hcc---chhhhhcCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRA---ITSAYYRGA   85 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~---~~~~~~~~~   85 (217)
                      -.|+|+|.+|||||||+++|.+........+.++.......+.+.+  ..+.+||+||...    ...   .....+..+
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            5799999999999999999998765433333333444444555555  4688999999421    111   123346789


Q ss_pred             cEEEEEEeCCCh----hhHHHHHHHHHHHHhhc-----------CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe
Q 042687           86 VGALLVYDITKR----QTFDNVTRWLRELRDHA-----------DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS  150 (217)
Q Consensus        86 d~ii~v~d~~~~----~s~~~~~~~~~~i~~~~-----------~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  150 (217)
                      |++|+|+|+++.    +.+..+..|...+....           ....|++||+||+|+.+.... .+.........+++
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    34555555554544332           136899999999999753322 22233333455789


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      ++++||+++.|+++++.+|.+.+.+..
T Consensus       317 Vf~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        317 VFEVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            999999999999999999999876543

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.88  E-value=7.2e-22  Score=163.18  Aligned_cols=149  Identities=19%  Similarity=0.203  Sum_probs=110.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc--------hhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI--------TSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   81 (217)
                      ..++|+++|.+|+|||||+|+|.+.... ....+..+.+.....+.+++.  .+.+|||||...+...        ...+
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~--~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGI--PLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCe--EEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            3489999999999999999999987653 223344445555666666664  5679999997643322        2346


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..+|++++|||++++.+++....|..      ..+.|+++|+||+|+.......        ...+.+++++||++|.|
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            789999999999998877665544432      2378999999999996532211        33456899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYH  175 (217)
Q Consensus       162 v~~~~~~l~~~~~~  175 (217)
                      +++++++|.+.+..
T Consensus       358 I~~L~~~L~~~l~~  371 (449)
T PRK05291        358 IDELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999987743

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.88  E-value=1.8e-21  Score=165.11  Aligned_cols=154  Identities=18%  Similarity=0.155  Sum_probs=115.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC---ccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN---EFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +.|+++|+.++|||||+++|.+.   .+..++.++.+.+.....+..++  ..+.+||+||++.|...+...+.++|+++
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            47999999999999999999863   33344445555666555666666  67889999999999888888899999999


Q ss_pred             EEEeCCC---hhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccccc--CHHHHHHHHHHc----CCeEEEecCCCC
Q 042687           90 LVYDITK---RQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAV--AAEDAQILAEKE----GLSFLETSALEA  159 (217)
Q Consensus        90 ~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~vSa~~~  159 (217)
                      +|+|+++   +++.+.+    ..+...   ++| ++|++||+|+.+....  ..+++..+....    +++++++||++|
T Consensus        79 LVVDa~~G~~~qT~ehl----~il~~l---gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG  151 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHL----AVLDLL---GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTG  151 (581)
T ss_pred             EEEECCCCCcHHHHHHH----HHHHHc---CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCC
Confidence            9999987   3343332    223222   677 9999999999754322  123455555544    578999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIYH  175 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~~  175 (217)
                      .|+++++.+|.+.+..
T Consensus       152 ~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       152 QGIGELKKELKNLLES  167 (581)
T ss_pred             CCchhHHHHHHHHHHh
Confidence            9999999988776543

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.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.88  E-value=1.8e-22  Score=142.48  Aligned_cols=162  Identities=31%  Similarity=0.560  Sum_probs=143.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      -..++++++|..|.||||+++++..+.|...+.+|.+.+.....+..+...+++..|||.|++.+......++-.+..+|
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            46799999999999999999999999999999999999988888776666799999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      ++||++.+-.+..+.+|...+...+. ++|+++++||.|.....  .......+.+..++.+++.|++.+-|.+..|.|+
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~~-NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~L  164 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVRE-NIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWL  164 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHhc-CCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHH
Confidence            99999999999999999999888887 69999999999976522  1234455667778999999999999999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      .+++.
T Consensus       165 arKl~  169 (216)
T KOG0096|consen  165 ARKLT  169 (216)
T ss_pred             hhhhc
Confidence            98774

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.88  E-value=2.2e-21  Score=164.01  Aligned_cols=153  Identities=17%  Similarity=0.209  Sum_probs=110.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ...+|+++|+.++|||||+++|.+..+.....++.+.+.....+..++. ..+.+||||||+.|..++...+..+|++|+
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaIL  164 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVVL  164 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEEE
Confidence            4479999999999999999999988776655444444444444444332 167899999999999999888999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH-------cC--CeEEEecCCCCCC
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-------EG--LSFLETSALEALN  161 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~--~~~~~vSa~~~~g  161 (217)
                      |+|+++....+..+.+ ....   ..++|+++++||+|+.+.   ..++.......       ++  .+++++||++|.|
T Consensus       165 VVda~dgv~~qT~e~i-~~~~---~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeG  237 (587)
T TIGR00487       165 VVAADDGVMPQTIEAI-SHAK---AANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDG  237 (587)
T ss_pred             EEECCCCCCHhHHHHH-HHHH---HcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCC
Confidence            9999874322222222 2222   237999999999998642   12233222222       22  4799999999999


Q ss_pred             HHHHHHHHHH
Q 042687          162 VEKAFQTILL  171 (217)
Q Consensus       162 v~~~~~~l~~  171 (217)
                      ++++|++|..
T Consensus       238 I~eLl~~I~~  247 (587)
T TIGR00487       238 IDELLDMILL  247 (587)
T ss_pred             hHHHHHhhhh
Confidence            9999999864

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.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.88  E-value=1.1e-21  Score=146.53  Aligned_cols=159  Identities=19%  Similarity=0.169  Sum_probs=100.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc---CCCCCcceeeEEEEEEE-------------------------C--C----
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL---ESKSTIGVEFATRTLQV-------------------------E--G----   58 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~-------------------------~--~----   58 (217)
                      ++|+++|+.|+|||||+..+.+-..+.   ......+.......+..                         .  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            479999999999999999996542111   11111111111001000                         0  1    


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--  136 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--  136 (217)
                      ....+.+|||||++.+...+...+..+|++++|+|++++.........+..+... . ..|+++++||+|+.......  
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~-~-~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM-G-LKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc-C-CCcEEEEEEchhccCHHHHHHH
Confidence            1157889999999998888888889999999999998731111111122222222 1 34789999999986532211  


Q ss_pred             HHHHHHHHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          137 AEDAQILAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       137 ~~~~~~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+++..+....   +++++++||++|.|++++|++|.+.+
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            12334444332   57899999999999999999998754

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.88  E-value=4.2e-21  Score=158.92  Aligned_cols=159  Identities=25%  Similarity=0.225  Sum_probs=109.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc-----------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI-----------   77 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------   77 (217)
                      ...++|+++|.+|+|||||+++|++..... ...+..+.+.....+..++.  .+.+|||||.......           
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            345899999999999999999999876432 22233334444445555554  5779999996433221           


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH-HHHHH----cCCeEE
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ-ILAEK----EGLSFL  152 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~  152 (217)
                      ...+++.+|++|+|+|++++.+.... .++..+...   ++|+++|+||+|+..... ..++.. .+...    ..++++
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~-~~~~~~~~~---~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~vi  322 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDL-RIAGLILEA---GKALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPIV  322 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHH-HHHHHHHHc---CCcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCceE
Confidence            13467899999999999987766554 333333332   789999999999872111 111221 22222    247899


Q ss_pred             EecCCCCCCHHHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ++||++|.|++++|+++.+.+.+
T Consensus       323 ~~SA~~g~~v~~l~~~i~~~~~~  345 (429)
T TIGR03594       323 FISALTGQGVDKLLDAIDEVYEN  345 (429)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999986654

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=6.6e-21  Score=154.27  Aligned_cols=160  Identities=17%  Similarity=0.098  Sum_probs=112.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh-------ccchhhhhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY-------RAITSAYYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~d   86 (217)
                      .|+|+|.+|||||||+|+|++........+.++.......+..++ ...+.++|+||...-       .......+..+|
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            799999999999999999998765433333333444444444442 225779999995321       111223578899


Q ss_pred             EEEEEEeCC---ChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--CeEEEecCCCC
Q 042687           87 GALLVYDIT---KRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--LSFLETSALEA  159 (217)
Q Consensus        87 ~ii~v~d~~---~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~vSa~~~  159 (217)
                      ++++|+|++   +.+.++....|+..+.....  .+.|+++|+||+|+.....+ .+.+..+....+  .+++++||+++
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   45567777777777766432  36899999999998653322 233444554444  47999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIYH  175 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~~  175 (217)
                      .|+++++++|.+.+.+
T Consensus       319 ~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        319 LGVKELCWDLMTFIEE  334 (390)
T ss_pred             cCHHHHHHHHHHHhhh
Confidence            9999999999887744

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.87  E-value=3.2e-21  Score=141.47  Aligned_cols=149  Identities=20%  Similarity=0.252  Sum_probs=98.2

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh----------hhhccc
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ----------ERYRAI   77 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~   77 (217)
                      +....++|+|+|++|+|||||+++|.+..+...+.++.+.+.....+..++   .+.+|||||.          +.+..+
T Consensus        14 ~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~   90 (179)
T TIGR03598        14 PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKL   90 (179)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHH
Confidence            345668999999999999999999998764333334444333333333333   5789999994          233333


Q ss_pred             hhhhhc---CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHHHHHHcC--Ce
Q 042687           78 TSAYYR---GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQILAEKEG--LS  150 (217)
Q Consensus        78 ~~~~~~---~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~--~~  150 (217)
                      ...+++   .+|++++|+|++++.+.... .++..+..   .++|+++++||+|+......  ..++++......+  ++
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   46899999999875443433 22333333   37899999999998643221  2334445555443  47


Q ss_pred             EEEecCCCCCCHH
Q 042687          151 FLETSALEALNVE  163 (217)
Q Consensus       151 ~~~vSa~~~~gv~  163 (217)
                      ++++||++|.|++
T Consensus       167 v~~~Sa~~g~gi~  179 (179)
T TIGR03598       167 VQLFSSLKKTGID  179 (179)
T ss_pred             eEEEECCCCCCCC
Confidence            9999999999974

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.

>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=99.87  E-value=1.9e-21  Score=143.77  Aligned_cols=159  Identities=20%  Similarity=0.247  Sum_probs=108.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC------------------CCCCcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE------------------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~------------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      ..++|+++|+.++|||||+.+|........                  .....+.......+........++++|+||+.
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            357999999999999999999985432111                  11122233333333312344578899999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHH-HHHHHc---
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQ-ILAEKE---  147 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~-~~~~~~---  147 (217)
                      .|.......+..+|++|+|+|+.+...... ...+..+...   ++|+++++||+|+...+.. ..+++. .+.+..   
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~~---~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~  157 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQT-EEHLKILREL---GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGEN  157 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHHH-HHHHHHHHHT---T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTST
T ss_pred             ceeecccceecccccceeeeeccccccccc-cccccccccc---ccceEEeeeeccchhhhHHHHHHHHHHHhccccccC
Confidence            998888888999999999999987544332 3333444444   8889999999998732211 111222 333333   


Q ss_pred             ---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          148 ---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       148 ---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                         .++++++||.+|.|++++++.|.+.+
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               25799999999999999999998764

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 ....

>cd04163 Era Era subfamily

Probab=99.87  E-value=8.4e-21  Score=136.91  Aligned_cols=156  Identities=18%  Similarity=0.155  Sum_probs=102.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc--------cchhhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR--------AITSAYYR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~   83 (217)
                      ..+|+++|++|+|||||++++.+.................. .........+.+|||||.....        ......+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIR-GIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEE-EEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            47899999999999999999998765433222211111111 1222234578899999954322        22345578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv  162 (217)
                      .+|++++|+|++++.. .....+...+...   +.|+++|+||+|+........+....+....+ .+++++|++++.|+
T Consensus        82 ~~d~i~~v~d~~~~~~-~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  157 (168)
T cd04163          82 DVDLVLFVVDASEPIG-EGDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENV  157 (168)
T ss_pred             hCCEEEEEEECCCccC-chHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCCh
Confidence            9999999999988621 1112233333332   68999999999987422222233344444443 68999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          163 EKAFQTILLD  172 (217)
Q Consensus       163 ~~~~~~l~~~  172 (217)
                      ++++++|.+.
T Consensus       158 ~~l~~~l~~~  167 (168)
T cd04163         158 DELLEEIVKY  167 (168)
T ss_pred             HHHHHHHHhh
Confidence            9999999765

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.87  E-value=7.1e-21  Score=149.93  Aligned_cols=157  Identities=18%  Similarity=0.183  Sum_probs=104.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh--------ccchhhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY--------RAITSAYYR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~   83 (217)
                      .-.|+|+|.+|||||||+|+|++......+..+.++......+... ....+.++||||....        .......+.
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            3579999999999999999999987754433222222222222222 2257889999995321        222344678


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv  162 (217)
                      .+|++++|+|+++... .....++..+..   .+.|+++|+||+|+.............+....+ .+++++||+++.|+
T Consensus        84 ~~D~il~vvd~~~~~~-~~~~~i~~~l~~---~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv  159 (292)
T PRK00089         84 DVDLVLFVVDADEKIG-PGDEFILEKLKK---VKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNV  159 (292)
T ss_pred             cCCEEEEEEeCCCCCC-hhHHHHHHHHhh---cCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCH
Confidence            9999999999987322 111222333332   268999999999997422222334455555444 57999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          163 EKAFQTILLDI  173 (217)
Q Consensus       163 ~~~~~~l~~~~  173 (217)
                      ++++++|.+.+
T Consensus       160 ~~L~~~L~~~l  170 (292)
T PRK00089        160 DELLDVIAKYL  170 (292)
T ss_pred             HHHHHHHHHhC
Confidence            99999998865

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.87  E-value=8.5e-21  Score=162.86  Aligned_cols=156  Identities=20%  Similarity=0.245  Sum_probs=112.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC--CcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS--TIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ...+|+|+|+.++|||||+++|....+.....+  |.....+...+..++....+.+|||||++.|..++..++..+|++
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDia  322 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIA  322 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEE
Confidence            457999999999999999999998776544332  222233333444444557889999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHH-------HHHcC--CeEEEecCCCC
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL-------AEKEG--LSFLETSALEA  159 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-------~~~~~--~~~~~vSa~~~  159 (217)
                      |+|+|+++....+..+.| ..+.   ..++|++|++||+|+....   ..++...       ...++  ++++++||++|
T Consensus       323 ILVVDA~dGv~~QT~E~I-~~~k---~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG  395 (742)
T CHL00189        323 ILIIAADDGVKPQTIEAI-NYIQ---AANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQG  395 (742)
T ss_pred             EEEEECcCCCChhhHHHH-HHHH---hcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCC
Confidence            999999874333332222 2222   2379999999999986522   1222111       22233  68999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|++++|++|....
T Consensus       396 ~GIdeLle~I~~l~  409 (742)
T CHL00189        396 TNIDKLLETILLLA  409 (742)
T ss_pred             CCHHHHHHhhhhhh
Confidence            99999999987753

>cd01895 EngA2 EngA2 subfamily

Probab=99.87  E-value=1.5e-20  Score=136.65  Aligned_cols=155  Identities=24%  Similarity=0.228  Sum_probs=103.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh----------c-cchh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY----------R-AITS   79 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~-~~~~   79 (217)
                      .++|+++|.+|+|||||+++|.+..... ...++.+.......+..++.  .+.+||+||....          . ....
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 22233233333344455554  4679999996422          1 0112


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH-HHHHHHc----CCeEEEe
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA-QILAEKE----GLSFLET  154 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~~~----~~~~~~v  154 (217)
                      ..+..+|++++|+|++++.+.... .++..+..   .+.|+++++||+|+........... ..+....    ..+++++
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            346789999999999987665443 23333332   2789999999999875431222222 2222333    3689999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLD  172 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~  172 (217)
                      ||+++.|++++++++.+.
T Consensus       156 Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         156 SALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             eccCCCCHHHHHHHHHHh
Confidence            999999999999998763

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.86  E-value=1.3e-20  Score=162.95  Aligned_cols=156  Identities=17%  Similarity=0.233  Sum_probs=110.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      .....|+|+|+.++|||||+++|....+.....+..+.+.....+..++  ..++||||||++.|..++...+..+|++|
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaI  365 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVV  365 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEE
Confidence            3557999999999999999999988776544433333333333444554  46789999999999999998999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHH---HHHHHcC--CeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQ---ILAEKEG--LSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~---~~~~~~~--~~~~~vSa~~~~gv~  163 (217)
                      +|||+++....+..+.| ....   ..++|++|++||+|+...... ...++.   .++..++  ++++++||++|.|++
T Consensus       366 LVVdAddGv~~qT~e~i-~~a~---~~~vPiIVviNKiDl~~a~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~  441 (787)
T PRK05306        366 LVVAADDGVMPQTIEAI-NHAK---AAGVPIIVAINKIDKPGANPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGID  441 (787)
T ss_pred             EEEECCCCCCHhHHHHH-HHHH---hcCCcEEEEEECccccccCHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCch
Confidence            99999874322222222 2222   237999999999999642110 011111   1223333  689999999999999


Q ss_pred             HHHHHHHH
Q 042687          164 KAFQTILL  171 (217)
Q Consensus       164 ~~~~~l~~  171 (217)
                      ++|++|..
T Consensus       442 eLle~I~~  449 (787)
T PRK05306        442 ELLEAILL  449 (787)
T ss_pred             HHHHhhhh
Confidence            99999875

>COG1159 Era GTPase [General function prediction only]

Probab=99.86  E-value=1.5e-20  Score=142.87  Aligned_cols=158  Identities=18%  Similarity=0.147  Sum_probs=109.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh--------hhccchhhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE--------RYRAITSAYYR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~   83 (217)
                      ..-|+|+|.||||||||+|++++.+.+..+....++......+...+ ..++.++||||..        .+.......+.
T Consensus         6 sGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~-~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~   84 (298)
T COG1159           6 SGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD-NAQIIFVDTPGIHKPKHALGELMNKAARSALK   84 (298)
T ss_pred             EEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC-CceEEEEeCCCCCCcchHHHHHHHHHHHHHhc
Confidence            35799999999999999999999999877665544444444443333 4578899999932        22233345578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv  162 (217)
                      .+|+++||+|+.+.... ..+..++.+..   ...|+++++||+|..............+..... ..++++||++|.|+
T Consensus        85 dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~  160 (298)
T COG1159          85 DVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNV  160 (298)
T ss_pred             cCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCH
Confidence            99999999999874332 22233444444   268999999999986644321222333333333 37999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIY  174 (217)
Q Consensus       163 ~~~~~~l~~~~~  174 (217)
                      +.+.+.+...+-
T Consensus       161 ~~L~~~i~~~Lp  172 (298)
T COG1159         161 DTLLEIIKEYLP  172 (298)
T ss_pred             HHHHHHHHHhCC
Confidence            999998887653

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.86  E-value=2.5e-20  Score=139.13  Aligned_cols=117  Identities=24%  Similarity=0.388  Sum_probs=86.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC-cEEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA-VGALLVY   92 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~ii~v~   92 (217)
                      +|+++|++|||||||+++|..+.+...+.++ ............+....+.+||+||+..++..+..+++.+ +++|+|+
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            6899999999999999999998775544332 2222222222123456788999999999998888899998 9999999


Q ss_pred             eCCCh-hhHHHHHHHHHHHHhh---cCCCCeEEEEEeCCCCcc
Q 042687           93 DITKR-QTFDNVTRWLRELRDH---ADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        93 d~~~~-~s~~~~~~~~~~i~~~---~~~~~p~ivv~nK~Dl~~  131 (217)
                      |+++. .++..+..|+..+...   ...++|++|++||+|+..
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            99987 5667765555443222   224899999999999843

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.86  E-value=2.6e-20  Score=158.41  Aligned_cols=158  Identities=20%  Similarity=0.253  Sum_probs=112.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcc--cc-----CC------CCCcceeeEEEE--EEE---CCeEEEEEEEecCChh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEF--CL-----ES------KSTIGVEFATRT--LQV---EGKTVKAQIWDTAGQE   72 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~--~~-----~~------~~t~~~~~~~~~--~~~---~~~~~~~~i~D~~G~~   72 (217)
                      ..-+|+|+|+.++|||||+.+|+....  ..     ..      ..+.+.+.....  +.+   ++..+.+++|||||+.
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            446999999999999999999976321  10     00      011222232222  222   4557889999999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC---
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL---  149 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---  149 (217)
                      .|...+..++..+|++|+|+|+++....+....|.... .   .++|+++|+||+|+.....  .....++....++   
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~-~---~~lpiIvViNKiDl~~a~~--~~v~~ei~~~lg~~~~  159 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL-E---NDLEIIPVLNKIDLPAADP--ERVKQEIEDVIGIDAS  159 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH-H---CCCCEEEEEECCCCCcccH--HHHHHHHHHHhCCCcc
Confidence            99999999999999999999999876555555554332 2   2789999999999864221  2223344444555   


Q ss_pred             eEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          150 SFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       150 ~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      +++++||++|.|+++++++|.+.+-
T Consensus       160 ~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        160 DAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             eEEEEecCCCCCHHHHHHHHHHhCc
Confidence            3899999999999999999988663

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=2.9e-20  Score=154.11  Aligned_cols=146  Identities=22%  Similarity=0.195  Sum_probs=104.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh--------hccchhhhhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------YRAITSAYYR   83 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~   83 (217)
                      ++|+|+|.+|||||||+|+|.+.... ....+..+.+.....+..++  ..+.+|||||...        +......++.
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            58999999999999999999987653 22233344455555566666  5788999999865        3333456678


Q ss_pred             CCcEEEEEEeCCChhhHH--HHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCC
Q 042687           84 GAVGALLVYDITKRQTFD--NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEAL  160 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~  160 (217)
                      .+|++|+|+|+.++.+..  .+..|+.   ..   +.|+++|+||+|+.+.    .....++ ...++ .++++||++|.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~---~~---~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~  148 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILR---KS---NKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGR  148 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHH---Hc---CCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCC
Confidence            999999999998754332  2333433   22   7899999999996541    1222222 34565 48999999999


Q ss_pred             CHHHHHHHHHH
Q 042687          161 NVEKAFQTILL  171 (217)
Q Consensus       161 gv~~~~~~l~~  171 (217)
                      |++++|+++..
T Consensus       149 gv~~l~~~I~~  159 (435)
T PRK00093        149 GIGDLLDAILE  159 (435)
T ss_pred             CHHHHHHHHHh
Confidence            99999999987

>cd00880 Era_like Era (E

Probab=99.85  E-value=2.1e-20  Score=133.66  Aligned_cols=151  Identities=19%  Similarity=0.196  Sum_probs=102.8

Q ss_pred             EEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-------chhhhhcCCcEE
Q 042687           17 LIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-------ITSAYYRGAVGA   88 (217)
Q Consensus        17 i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~i   88 (217)
                      |+|+.|+|||||++++.+.... .....+.+............ ...+.+||+||......       ....++..+|++
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 22333322233333333221 35778999999765432       334577899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHH---HHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAE---DAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~---~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++|+|+++........ +......   .+.|+++|+||+|+.........   .........+++++++|++++.|++++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999877655543 3333332   38999999999998653322211   112233344678999999999999999


Q ss_pred             HHHHHHH
Q 042687          166 FQTILLD  172 (217)
Q Consensus       166 ~~~l~~~  172 (217)
                      ++++.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9999874

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.85  E-value=2.1e-20  Score=158.84  Aligned_cols=146  Identities=22%  Similarity=0.249  Sum_probs=109.4

Q ss_pred             cCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc------hhhhh--cCCcEEEE
Q 042687           19 GDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI------TSAYY--RGAVGALL   90 (217)
Q Consensus        19 G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~ii~   90 (217)
                      |.+|||||||+|++.+........++.+.+.....+.+++.  ++++|||||+..+...      ...++  ..+|++++
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            89999999999999988765555566566666666666664  4689999998766543      23333  47899999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |+|+++.+..   ..+...+.+   .++|+++++||+|+.+.+... .+.+.+.+..+++++++||++|.|++++++++.
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 VVDASNLERN---LYLTLQLLE---LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchhh---HHHHHHHHh---cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            9999874322   222333333   389999999999986544443 356778888899999999999999999999998


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +..
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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.85  E-value=4.1e-20  Score=153.05  Aligned_cols=150  Identities=20%  Similarity=0.202  Sum_probs=106.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCCh--------hhhccchhhhhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ--------ERYRAITSAYYRG   84 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~   84 (217)
                      +|+|+|.+|||||||+|+|.+..... ...+..+.+........++.  .+.+|||||.        +.+......+++.
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            58999999999999999999876532 22233444455555555654  5789999995        3445556677899


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVE  163 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~  163 (217)
                      +|++++|+|+.+..+... ..+...++..   ++|+++|+||+|+......    ..+ ...++. +++++||.+|.|++
T Consensus        79 ad~vl~vvD~~~~~~~~d-~~i~~~l~~~---~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        79 ADVILFVVDGREGLTPED-EEIAKWLRKS---GKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             CCEEEEEEeCCCCCCHHH-HHHHHHHHHh---CCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChH
Confidence            999999999987543332 1223333332   7899999999998653321    112 234566 79999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          164 KAFQTILLDIY  174 (217)
Q Consensus       164 ~~~~~l~~~~~  174 (217)
                      ++++++.+.+.
T Consensus       150 ~ll~~i~~~l~  160 (429)
T TIGR03594       150 DLLDAILELLP  160 (429)
T ss_pred             HHHHHHHHhcC
Confidence            99999987663

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.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.85  E-value=5.9e-21  Score=133.02  Aligned_cols=159  Identities=21%  Similarity=0.354  Sum_probs=119.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcc------c-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEF------C-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~------~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      .+.|+|+|..++|||||+.++.....      + ....+|.+.....  +.++  ...+.+||..|++..+++|..|+..
T Consensus        17 ~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~--i~v~--~~~l~fwdlgGQe~lrSlw~~yY~~   92 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGT--IEVC--NAPLSFWDLGGQESLRSLWKKYYWL   92 (197)
T ss_pred             hhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecc--eeec--cceeEEEEcCChHHHHHHHHHHHHH
Confidence            37899999999999999998754321      1 1223454444433  3344  3467899999999999999999999


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHH------HcCCeEEEecCC
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE------KEGLSFLETSAL  157 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~vSa~  157 (217)
                      ++++|+++|+++++.++.....+..+... .-.++|+++.+||.|+.+.  ...++++....      +...++.++||.
T Consensus        93 ~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~~~~pvSal  170 (197)
T KOG0076|consen   93 AHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDNPFQPVSAL  170 (197)
T ss_pred             hceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccCccccchhh
Confidence            99999999999999888876655554333 3358999999999998752  23344443332      234679999999


Q ss_pred             CCCCHHHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~~~  176 (217)
                      +|.|+++-.+|++..+.+.
T Consensus       171 ~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  171 TGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hcccHHHHHHHHHHHHhhc
Confidence            9999999999999877553

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.84  E-value=2.1e-19  Score=156.20  Aligned_cols=153  Identities=17%  Similarity=0.157  Sum_probs=110.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc----------hhhh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI----------TSAY   81 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~~~   81 (217)
                      .++|+++|++|||||||+|+|.+........+..+.+.....  +.....++.++|+||...+...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~--~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQ--FSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEE--EEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            378999999999999999999987654333333333333333  3444457789999997655321          1223


Q ss_pred             h--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           82 Y--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        82 ~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      +  ..+|++++|+|+++.+..   ..|...+.+.   ++|+++++||+|+.+.+.. ..+.+.+.+.++++++++|+.++
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---LYLTLQLLEL---GIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRG  153 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh---HHHHHHHHHc---CCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecC
Confidence            2  479999999999885542   2344444443   8999999999998754444 34667788889999999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|++++.+.+.+..
T Consensus       154 ~GIdeL~~~I~~~~  167 (772)
T PRK09554        154 RGIEALKLAIDRHQ  167 (772)
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999999887653

>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=99.83  E-value=6.5e-19  Score=134.03  Aligned_cols=151  Identities=26%  Similarity=0.269  Sum_probs=102.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-------cchhhhhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-------AITSAYYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d   86 (217)
                      +|+++|++|||||||+++|.+........+..+.+.....+.+++  ..+++||+||.....       .....+++++|
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            689999999999999999998764322222223344455555665  467899999964322       12345789999


Q ss_pred             EEEEEEeCCChh-hHHHHHHHHHHH-----------------------------------------Hhh-----------
Q 042687           87 GALLVYDITKRQ-TFDNVTRWLREL-----------------------------------------RDH-----------  113 (217)
Q Consensus        87 ~ii~v~d~~~~~-s~~~~~~~~~~i-----------------------------------------~~~-----------  113 (217)
                      ++++|+|+++++ ..+.+...+..+                                         .+.           
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 333333333211                                         000           


Q ss_pred             -----------c--CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          114 -----------A--DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       114 -----------~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                                 .  ..-+|+++|+||+|+..     .++...++..  .+++++||+++.|++++|+.|.+.+
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                       0  01268999999999864     3344445443  4689999999999999999998754

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.83  E-value=3.1e-19  Score=155.35  Aligned_cols=157  Identities=18%  Similarity=0.210  Sum_probs=109.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----------hhccc-h
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----------RYRAI-T   78 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-~   78 (217)
                      ..++|+|+|.+|||||||+|+|.+.... ....++++.+.....+.+++..  +.+|||||..          .+..+ .
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            4589999999999999999999998753 2223333445555556666654  5599999953          12221 1


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH-HHHH----cCCeEEE
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-LAEK----EGLSFLE  153 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~~~~----~~~~~~~  153 (217)
                      ..+++.+|++|+|+|+++..+..... ++..+..   .++|+++|+||+|+.+...  .+.... +...    ...++++
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            23468999999999999887766654 3344433   3799999999999965221  112221 1111    1357899


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +||++|.|++++|+.+.+.+.+
T Consensus       601 iSAktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        601 LSAKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             EECCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999987755

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.83  E-value=2.6e-19  Score=129.45  Aligned_cols=150  Identities=19%  Similarity=0.239  Sum_probs=99.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----------hhccchhhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----------RYRAITSAYYR   83 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~~   83 (217)
                      .|+++|.+|+|||||++.+.++.+.....++.+.+.....+..++   .+.+||+||..          .+......++.
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            389999999999999999996665555555544444444444444   77899999942          23444444443


Q ss_pred             ---CCcEEEEEEeCCChhh--HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHH--HcCCeEEEe
Q 042687           84 ---GAVGALLVYDITKRQT--FDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAE--KEGLSFLET  154 (217)
Q Consensus        84 ---~~d~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~--~~~~~~~~v  154 (217)
                         +++++++++|..+...  ...+..|+.   ..   +.|+++++||+|+.......  .........  ....+++++
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~---~~---~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  151 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLE---EL---GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILF  151 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHH---Hc---CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEE
Confidence               4678899999876532  222333433   22   68999999999985422211  112222222  334689999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLD  172 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~  172 (217)
                      |++++.|+.+++++|.+.
T Consensus       152 Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         152 SSLKGQGIDELRALIEKW  169 (170)
T ss_pred             ecCCCCCHHHHHHHHHHh
Confidence            999999999999999875

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=2.5e-19  Score=148.59  Aligned_cols=158  Identities=24%  Similarity=0.223  Sum_probs=106.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh----------ccc-h
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY----------RAI-T   78 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~~~-~   78 (217)
                      ..++|+|+|.+|+|||||+++|++.... ....++.+.+.....+..++.  .+.+|||||....          ... .
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQ--KYTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCe--eEEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            4699999999999999999999976533 222333333443444445553  4679999995321          111 1


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHH----HcCCeEEEe
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE----KEGLSFLET  154 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~v  154 (217)
                      ..++..+|++|+|+|++++.+.... .++..+...   ++|+++++||+|+.+.... .+....+..    ...++++++
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~-~i~~~~~~~---~~~~ivv~NK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDL-RIAGLALEA---GRALVIVVNKWDLVDEKTM-EEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHH-HHHHHHHHc---CCcEEEEEECccCCCHHHH-HHHHHHHHHhcccccCCCEEEE
Confidence            2467899999999999987665554 333333332   7899999999998742211 111111211    224789999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ||++|.|++++++.+.+...+
T Consensus       325 SA~~~~gv~~l~~~i~~~~~~  345 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYEN  345 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999876543

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.83  E-value=7e-19  Score=124.33  Aligned_cols=156  Identities=24%  Similarity=0.385  Sum_probs=116.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc--------cCCCC--CcceeeEEEEEEECCeEEEEEEEecCChhhhccchhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC--------LESKS--TIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSA   80 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~--------~~~~~--t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   80 (217)
                      ...||+|.|+.++||||+++++......        ..+..  +.++........+++ ...+.+++||||++|.-+|..
T Consensus         9 ~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~-~~~v~LfgtPGq~RF~fm~~~   87 (187)
T COG2229           9 IETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDE-DTGVHLFGTPGQERFKFMWEI   87 (187)
T ss_pred             cceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcC-cceEEEecCCCcHHHHHHHHH
Confidence            4579999999999999999999876531        11111  111222222233333 135779999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc--CCeEEEecCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE--GLSFLETSALE  158 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~vSa~~  158 (217)
                      +++++.++|+++|.+++..+ ..++.+..+....  .+|++|+.||.|+...+  ..+.+.++....  .+++++.+|.+
T Consensus        88 l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a~--ppe~i~e~l~~~~~~~~vi~~~a~e  162 (187)
T COG2229          88 LSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDAL--PPEKIREALKLELLSVPVIEIDATE  162 (187)
T ss_pred             HhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCCC--CHHHHHHHHHhccCCCceeeeeccc
Confidence            99999999999999998887 5566666665553  29999999999998633  355666555444  78999999999


Q ss_pred             CCCHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLD  172 (217)
Q Consensus       159 ~~gv~~~~~~l~~~  172 (217)
                      +++..+.++.+..+
T Consensus       163 ~~~~~~~L~~ll~~  176 (187)
T COG2229         163 GEGARDQLDVLLLK  176 (187)
T ss_pred             chhHHHHHHHHHhh
Confidence            99999988887665

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.83  E-value=9.8e-20  Score=122.77  Aligned_cols=157  Identities=24%  Similarity=0.369  Sum_probs=118.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+++|-.++|||||+..|..... ....+|.+  +..+.+.+++ .+++++||.+|+...+..|..|+.+.|++
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~l   89 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGL   89 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceE
Confidence            35679999999999999999999976543 33345544  5566666654 36899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHH-hhcCCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~-~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv  162 (217)
                      |+|+|.+|..-++++...+-++. +.....+|++|.+||.|+.-...+  +++..     ..+..-+.+-++|+.++.|+
T Consensus        90 IyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~--eeia~klnl~~lrdRswhIq~csals~eg~  167 (185)
T KOG0074|consen   90 IYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKV--EEIALKLNLAGLRDRSWHIQECSALSLEGS  167 (185)
T ss_pred             EEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcch--HHHHHhcchhhhhhceEEeeeCccccccCc
Confidence            99999999988888855554443 334468999999999998542222  12111     11122356788999999999


Q ss_pred             HHHHHHHHH
Q 042687          163 EKAFQTILL  171 (217)
Q Consensus       163 ~~~~~~l~~  171 (217)
                      .+..+|+..
T Consensus       168 ~dg~~wv~s  176 (185)
T KOG0074|consen  168 TDGSDWVQS  176 (185)
T ss_pred             cCcchhhhc
Confidence            999998865

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.83  E-value=3.2e-19  Score=150.76  Aligned_cols=154  Identities=18%  Similarity=0.137  Sum_probs=102.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCC----CcceeeEEEEEEE------------CCeEEEEEEEecCChhhhcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKS----TIGVEFATRTLQV------------EGKTVKAQIWDTAGQERYRA   76 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~----t~~~~~~~~~~~~------------~~~~~~~~i~D~~G~~~~~~   76 (217)
                      .-|+++|++++|||||+++|.+..+......    +.+..+.......            ......+.+|||||++.|..
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~   84 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN   84 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH
Confidence            4699999999999999999998766433222    1122221111100            00011378999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc------------CHHH--
Q 042687           77 ITSAYYRGAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV------------AAED--  139 (217)
Q Consensus        77 ~~~~~~~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~------------~~~~--  139 (217)
                      ++..++..+|++++|||+++   +++++.+.    .+..   .++|+++++||+|+...+..            ....  
T Consensus        85 l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~  157 (590)
T TIGR00491        85 LRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQ  157 (590)
T ss_pred             HHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHH
Confidence            99999999999999999987   44444332    2222   27899999999998642110            0000  


Q ss_pred             ----------HHHHHH------------Hc--CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          140 ----------AQILAE------------KE--GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       140 ----------~~~~~~------------~~--~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                                ..++..            .+  .++++++||++|.|+++++.+|....
T Consensus       158 ~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       158 QNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence                      011111            11  36899999999999999999887654

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.83  E-value=2.3e-19  Score=156.22  Aligned_cols=154  Identities=19%  Similarity=0.183  Sum_probs=104.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhh--------hccchhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------YRAITSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   81 (217)
                      ...+|+|+|.+|||||||+|+|++..... ...++.+.+........++  ..+.+|||||.+.        +......+
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~  351 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQIA  351 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHHH
Confidence            45789999999999999999999876532 2223333333333334444  4677999999652        33444567


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..+|++|+|+|+++...... ..|...+..   .++|+++|+||+|+....   ......+....+ ..+++||++|.|
T Consensus       352 ~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~---~~~pvIlV~NK~D~~~~~---~~~~~~~~lg~~-~~~~iSA~~g~G  423 (712)
T PRK09518        352 VSLADAVVFVVDGQVGLTSTD-ERIVRMLRR---AGKPVVLAVNKIDDQASE---YDAAEFWKLGLG-EPYPISAMHGRG  423 (712)
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHh---cCCCEEEEEECcccccch---hhHHHHHHcCCC-CeEEEECCCCCC
Confidence            889999999999976422111 244444543   389999999999985421   111222222222 467999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIY  174 (217)
Q Consensus       162 v~~~~~~l~~~~~  174 (217)
                      ++++|++|++.+.
T Consensus       424 I~eLl~~i~~~l~  436 (712)
T PRK09518        424 VGDLLDEALDSLK  436 (712)
T ss_pred             chHHHHHHHHhcc
Confidence            9999999998764

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.83  E-value=1.1e-19  Score=125.70  Aligned_cols=135  Identities=24%  Similarity=0.284  Sum_probs=97.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC----hhhhccchhhhhcCCcEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG----QERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~~d~ii   89 (217)
                      ||+++|+.|||||||+++|.+...  .+..|....+.       +     .++||||    +..+.........+||+++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~-------~-----~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY-------D-----NTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec-------c-----cEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999988654  33344332221       1     2799999    3444444455567999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQT  168 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~~~~  168 (217)
                      ++.|++++.+.-.     ..+....  ..|++-|+||+|+.. .....+.++++.+..|+ ++|++|+.+|.|++++.++
T Consensus        69 ll~dat~~~~~~p-----P~fa~~f--~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~  140 (143)
T PF10662_consen   69 LLQDATEPRSVFP-----PGFASMF--NKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDY  140 (143)
T ss_pred             EEecCCCCCccCC-----chhhccc--CCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHH
Confidence            9999998654221     1111111  689999999999984 22345667788888887 5899999999999999998


Q ss_pred             HH
Q 042687          169 IL  170 (217)
Q Consensus       169 l~  170 (217)
                      |-
T Consensus       141 L~  142 (143)
T PF10662_consen  141 LE  142 (143)
T ss_pred             Hh
Confidence            74

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.83  E-value=2.9e-19  Score=142.97  Aligned_cols=150  Identities=20%  Similarity=0.183  Sum_probs=107.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhh---------hccchhhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------YRAITSAYY   82 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   82 (217)
                      ..|+|+|.||||||||.|||++...+... .+.++.+..+......+..  +.++||+|.+.         ........+
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            57999999999999999999998887443 3556666666666666654  78999999542         223345567


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCC
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALN  161 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~g  161 (217)
                      ..||++|||+|....-+.++ +.....++.   .++|+++|+||+|-..     .++...-.-.+|. +.+.+||.+|.|
T Consensus        82 ~eADvilfvVD~~~Git~~D-~~ia~~Lr~---~~kpviLvvNK~D~~~-----~e~~~~efyslG~g~~~~ISA~Hg~G  152 (444)
T COG1160          82 EEADVILFVVDGREGITPAD-EEIAKILRR---SKKPVILVVNKIDNLK-----AEELAYEFYSLGFGEPVPISAEHGRG  152 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHH-HHHHHHHHh---cCCCEEEEEEcccCch-----hhhhHHHHHhcCCCCceEeehhhccC
Confidence            89999999999976433222 122222332   2799999999999642     2222222223454 789999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDI  173 (217)
Q Consensus       162 v~~~~~~l~~~~  173 (217)
                      +.++.+.+++.+
T Consensus       153 i~dLld~v~~~l  164 (444)
T COG1160         153 IGDLLDAVLELL  164 (444)
T ss_pred             HHHHHHHHHhhc
Confidence            999999999876

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.82  E-value=2.6e-22  Score=141.26  Aligned_cols=167  Identities=33%  Similarity=0.618  Sum_probs=143.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC-eEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .++.++++|+|..|+|||+++.+++...++..|..|++.++.-.....+. ..+++++||+.|++++..+..-|++.+.+
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            46789999999999999999999999999999999999888776665544 34578899999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCccccccC-HHHHHHHHHHcCC-eEEEecCCCCCC
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLRAVA-AEDAQILAEKEGL-SFLETSALEALN  161 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~-~~~~vSa~~~~g  161 (217)
                      .++|||+++.-.|+.+..|.+.+....    +..+|+++.+||||........ ......+.++.|+ ..+++|++.+.+
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            999999999999999999999876543    2467889999999987643322 3567788888886 699999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYH  175 (217)
Q Consensus       162 v~~~~~~l~~~~~~  175 (217)
                      ++++.+.++++++-
T Consensus       182 i~Ea~r~lVe~~lv  195 (229)
T KOG4423|consen  182 IPEAQRELVEKILV  195 (229)
T ss_pred             hhHHHHHHHHHHHh
Confidence            99999999998754

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.82  E-value=2.4e-20  Score=126.04  Aligned_cols=158  Identities=22%  Similarity=0.348  Sum_probs=118.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +...+|+++|-.|+||||++.++.-++. ....||.+.+...  +.+  ...++++||..|+...+..|+-|+.+.|++|
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgev-vttkPtigfnve~--v~y--KNLk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEV-VTTKPTIGFNVET--VPY--KNLKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcc-cccCCCCCcCccc--ccc--ccccceeeEccCcccccHHHHHHhcccceEE
Confidence            3668999999999999999999876665 3444665544433  223  5578899999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|+|.+|++...... +++..+.+..-.+..+++++||.|....-  ...|+..     -.+..-+.+|++||.+|.|++
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 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGAL--TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLD  168 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhh--hHHHHHHHhChHHHhhheeEEEeeccccccCCc
Confidence            999999987666553 34444544444578889999999986522  1222211     122233789999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          164 KAFQTILLDIY  174 (217)
Q Consensus       164 ~~~~~l~~~~~  174 (217)
                      ..++||.+-+.
T Consensus       169 ~~~DWL~~~l~  179 (182)
T KOG0072|consen  169 PAMDWLQRPLK  179 (182)
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.82  E-value=2.9e-19  Score=147.53  Aligned_cols=154  Identities=19%  Similarity=0.173  Sum_probs=102.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC--cccc-----------------------------CCCCCcceeeEEEEEEECC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN--EFCL-----------------------------ESKSTIGVEFATRTLQVEG   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~--~~~~-----------------------------~~~~t~~~~~~~~~~~~~~   58 (217)
                      .+.++|+++|+.++|||||+.+|+..  ....                             +.....+.+.....+  ..
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~--~~   82 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKF--ET   82 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEE--cc
Confidence            35599999999999999999999752  1110                             011233333333333  33


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHhhcCCCCeEEEEEeCCCCccccc--
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN--VTRWLRELRDHADSNIVIMMAGNKSDLNHLRA--  134 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--  134 (217)
                      ..+.+.+||+||++.|.......+..+|++|+|+|+++.++...  ...++. +..... ..|++|++||+|+.+...  
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~~~-~~~iIVviNK~Dl~~~~~~~  160 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAF-LARTLG-INQLIVAINKMDSVNYDEEE  160 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHHcC-CCeEEEEEEChhccCccHHH
Confidence            44678899999999887777777889999999999998743211  111222 222222 357999999999964211  


Q ss_pred             --cCHHHHHHHHHHcC-----CeEEEecCCCCCCHHHHHH
Q 042687          135 --VAAEDAQILAEKEG-----LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       135 --~~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~~~  167 (217)
                        ....++..++...+     ++++++||++|.|+++.+.
T Consensus       161 ~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~  200 (426)
T TIGR00483       161 FEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSE  200 (426)
T ss_pred             HHHHHHHHHHHHHHcCCCcccceEEEeecccccccccccc
Confidence              11345566666655     5799999999999987553

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=3e-19  Score=151.48  Aligned_cols=156  Identities=16%  Similarity=0.230  Sum_probs=109.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC--ccccCC------------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN--EFCLES------------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITS   79 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~--~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   79 (217)
                      +|+|+|+.++|||||+++|+..  .+....            ....+.+.......+.+..+++++|||||+..|...+.
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            7999999999999999999863  221111            11123334333333444457888999999999998899


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHHHHHH-------HcCCeE
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQILAE-------KEGLSF  151 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~  151 (217)
                      .++..+|++++|+|+.+.. ......|+..+...   ++|+++++||+|+...+.. ...++..+..       ...+++
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-MPQTRFVLKKALEL---GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPI  158 (594)
T ss_pred             HHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHC---CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcE
Confidence            9999999999999998643 23334555555543   7899999999998653321 1223333332       235789


Q ss_pred             EEecCCCCC----------CHHHHHHHHHHHH
Q 042687          152 LETSALEAL----------NVEKAFQTILLDI  173 (217)
Q Consensus       152 ~~vSa~~~~----------gv~~~~~~l~~~~  173 (217)
                      +.+||++|.          |+..+|+.|++.+
T Consensus       159 l~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~l  190 (594)
T TIGR01394       159 VYASGRAGWASLDLDDPSDNMAPLFDAIVRHV  190 (594)
T ss_pred             EechhhcCcccccCcccccCHHHHHHHHHHhC
Confidence            999999996          7888988888765

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.82  E-value=2.2e-19  Score=148.20  Aligned_cols=154  Identities=20%  Similarity=0.206  Sum_probs=99.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc-------------------------------CCCCCcceeeEEEEEEECC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL-------------------------------ESKSTIGVEFATRTLQVEG   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-------------------------------~~~~t~~~~~~~~~~~~~~   58 (217)
                      .+.++|+++|++++|||||+++|+......                               +..+..+.+....  .+..
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~--~~~~   81 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHK--KFET   81 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeE--EEec
Confidence            355999999999999999999998432110                               0112222233333  3334


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHH-HHHHHHHHHhhcCCCCeEEEEEeCCCCccccc---
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDLNHLRA---  134 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~---  134 (217)
                      ..+.+.+|||||++.|.......+..+|++|+|+|+++...+.. ...++..+... . ..|+++++||+|+.....   
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~-~~~iivviNK~Dl~~~~~~~~  159 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-G-INQLIVAINKMDAVNYDEKRY  159 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-C-CCeEEEEEEccccccccHHHH
Confidence            45678899999998876666566789999999999987211111 12222223222 1 246899999999864211   


Q ss_pred             -cCHHHHHHHHHHcC-----CeEEEecCCCCCCHHHHHH
Q 042687          135 -VAAEDAQILAEKEG-----LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       135 -~~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~~~  167 (217)
                       ...+++..+....+     ++++++||++|.|+++.+.
T Consensus       160 ~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        160 EEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             HHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence             11234555555554     5799999999999987553

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.81  E-value=4.1e-19  Score=145.44  Aligned_cols=162  Identities=21%  Similarity=0.184  Sum_probs=102.5

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc---cCCC--CCcceeeEEEEE----------------EEC--C----eEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC---LESK--STIGVEFATRTL----------------QVE--G----KTV   61 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~---~~~~--~t~~~~~~~~~~----------------~~~--~----~~~   61 (217)
                      ..+.++|+++|+.++|||||+.+|.+...+   .+..  .|....+....+                .++  +    ...
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            445699999999999999999999653111   1111  111111100000                001  0    125


Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HH
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AE  138 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~  138 (217)
                      .+++|||||++.|..........+|++++|+|++++. ..+.... +..+... . ..|+++|+||+|+.+.....  .+
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~-l~~l~~~-~-i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEH-LMALDII-G-IKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHH-HHHHHHc-C-CCcEEEEEEeeccccchhHHHHHH
Confidence            7889999999988776666677889999999998643 2222222 2222222 1 24689999999986532211  23


Q ss_pred             HHHHHHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          139 DAQILAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       139 ~~~~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++..+....   +++++++||++|.|+++++++|.+.+
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            344444332   47899999999999999999987754

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.81  E-value=1.8e-18  Score=128.03  Aligned_cols=148  Identities=20%  Similarity=0.187  Sum_probs=97.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccc---------c--C---CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFC---------L--E---SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~---------~--~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      .++|+++|+.++|||||+++|+.....         .  +   .....+.+.......+......+.++||||+..|...
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            489999999999999999999753110         0  0   0011223333333344444457789999999888777


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccccc---CHHHHHHHHHHcC-----
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAV---AAEDAQILAEKEG-----  148 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~-----  148 (217)
                      ....+..+|++++|+|+........ ..++..+...   ++| +++++||+|+......   ...++..+....+     
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~---~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~  157 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQT-REHLLLARQV---GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDN  157 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccC
Confidence            7788899999999999976433222 2333344433   666 7789999998532221   1234555555443     


Q ss_pred             CeEEEecCCCCCCHH
Q 042687          149 LSFLETSALEALNVE  163 (217)
Q Consensus       149 ~~~~~vSa~~~~gv~  163 (217)
                      ++++++||.+|.+..
T Consensus       158 v~iipiSa~~g~n~~  172 (195)
T cd01884         158 TPIVRGSALKALEGD  172 (195)
T ss_pred             CeEEEeeCccccCCC
Confidence            689999999998853

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.81  E-value=1.1e-18  Score=148.04  Aligned_cols=158  Identities=16%  Similarity=0.186  Sum_probs=110.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc--CccccCC------------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR--NEFCLES------------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      ..+|+|+|+.++|||||+++|+.  +.+....            ..+.+.+.......+....+++++|||||+..|...
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            46999999999999999999986  3332211            123445555555555556678999999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHH-------HcCC
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAE-------KEGL  149 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~-------~~~~  149 (217)
                      +..+++.+|++|+|+|+.+....+. ..++..+...   ++|.++++||+|+...+... .+++..+..       ...+
T Consensus        85 v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~~---gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~  160 (607)
T PRK10218         85 VERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFAY---GLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDF  160 (607)
T ss_pred             HHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHHc---CCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCC
Confidence            9999999999999999987533332 2333333332   78999999999986532211 123333322       2347


Q ss_pred             eEEEecCCCCC----------CHHHHHHHHHHHH
Q 042687          150 SFLETSALEAL----------NVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~~----------gv~~~~~~l~~~~  173 (217)
                      |++.+||.+|.          |+..+++.|++.+
T Consensus       161 PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~i  194 (607)
T PRK10218        161 PIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHV  194 (607)
T ss_pred             CEEEeEhhcCcccCCccccccchHHHHHHHHHhC
Confidence            89999999998          5777777776655

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.81  E-value=1.7e-18  Score=125.01  Aligned_cols=164  Identities=18%  Similarity=0.210  Sum_probs=114.6

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC----------hhh
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG----------QER   73 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~   73 (217)
                      +.+-+.+...-|+++|.+|||||||||+|++.+-......|+|.+....-+.+++.   +.++|.||          .+.
T Consensus        16 ~~~~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~   92 (200)
T COG0218          16 IKQYPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEK   92 (200)
T ss_pred             HhhCCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHH
Confidence            34445667789999999999999999999997755555666677777777777774   66999999          345


Q ss_pred             hccchhhhhc---CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH----
Q 042687           74 YRAITSAYYR---GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK----  146 (217)
Q Consensus        74 ~~~~~~~~~~---~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----  146 (217)
                      +..+...|+.   +-.++++++|+..+....+. ++++.+...   ++|++|++||+|.....+.. ......+..    
T Consensus        93 w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~~---~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~  167 (200)
T COG0218          93 WKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLEL---GIPVIVVLTKADKLKKSERN-KQLNKVAEELKKP  167 (200)
T ss_pred             HHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHHc---CCCeEEEEEccccCChhHHH-HHHHHHHHHhcCC
Confidence            5566666664   45788899999765433221 333334443   89999999999987633322 122222322    


Q ss_pred             cCCe--EEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          147 EGLS--FLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       147 ~~~~--~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ....  ++..|+.++.|++++...|.+.+.+
T Consensus       168 ~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         168 PPDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             CCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence            2233  7788999999999999988876643

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.81  E-value=2.6e-19  Score=134.30  Aligned_cols=147  Identities=25%  Similarity=0.228  Sum_probs=93.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccC-------------------------------CCCCcceeeEEEEEEECCeEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLE-------------------------------SKSTIGVEFATRTLQVEGKTVK   62 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~-------------------------------~~~t~~~~~~~~~~~~~~~~~~   62 (217)
                      ||+|+|++|+|||||+++|+...-...                               ..+..+.+.....+..+  ...
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~--~~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTP--KRK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecC--Cce
Confidence            689999999999999999975332111                               00111222222223233  346


Q ss_pred             EEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc----CHH
Q 042687           63 AQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV----AAE  138 (217)
Q Consensus        63 ~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~----~~~  138 (217)
                      +.+|||||++.|.......+..+|++|+|+|+++...... ......+... . ..++++|+||+|+......    ...
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~-~-~~~iIvviNK~D~~~~~~~~~~~i~~  155 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLL-G-IRHVVVAVNKMDLVDYSEEVFEEIVA  155 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHc-C-CCcEEEEEEchhcccCCHHHHHHHHH
Confidence            7799999998887666777899999999999987532222 1222222222 1 2457789999998642211    123


Q ss_pred             HHHHHHHHcC---CeEEEecCCCCCCHHHH
Q 042687          139 DAQILAEKEG---LSFLETSALEALNVEKA  165 (217)
Q Consensus       139 ~~~~~~~~~~---~~~~~vSa~~~~gv~~~  165 (217)
                      ++..+....+   .+++++||++|.|+++.
T Consensus       156 ~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         156 DYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            4455555666   45999999999998753

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.81  E-value=4.4e-19  Score=145.30  Aligned_cols=161  Identities=20%  Similarity=0.140  Sum_probs=104.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc---CCC--CCcceeeEE----------------EEEEECC------eEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL---ESK--STIGVEFAT----------------RTLQVEG------KTVKA   63 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~---~~~--~t~~~~~~~----------------~~~~~~~------~~~~~   63 (217)
                      +.++|+++|+.++|||||+++|.+.....   +..  .|....+..                ....+++      ....+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            46899999999999999999996532211   110  111111100                0000011      13578


Q ss_pred             EEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHH
Q 042687           64 QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQ  141 (217)
Q Consensus        64 ~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~  141 (217)
                      .+||+||++.|...+...+..+|++++|+|+++........+.+..+... . ..|+++++||+|+.+....  ...++.
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~-g-i~~iIVvvNK~Dl~~~~~~~~~~~~i~  160 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII-G-IKNIVIVQNKIDLVSKEKALENYEEIK  160 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc-C-CCeEEEEEEccccCCHHHHHHHHHHHH
Confidence            89999999999888888888999999999998643111222223333222 1 3468999999998653221  123344


Q ss_pred             HHHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          142 ILAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       142 ~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+....   +++++++||++|.|+++++++|...+
T Consensus       161 ~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       161 EFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             hhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            444433   57899999999999999999997754

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.81  E-value=1.5e-18  Score=147.99  Aligned_cols=155  Identities=18%  Similarity=0.142  Sum_probs=105.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC---ccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN---EFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      -|+++|+.++|||||+++|.+.   .+..+.....+.+.....+...+ ...+.+||+||++.|.......+..+|++++
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            5899999999999999999863   33333333333343333333322 2347899999999998777778899999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccC--HHHHHHHHHHcC---CeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVA--AEDAQILAEKEG---LSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~---~~~~~vSa~~~~gv~~  164 (217)
                      |+|+.+....+. .+.+..+...   ++| ++||+||+|+.+.....  .+++..+....+   ++++++||++|.|+++
T Consensus        81 VVda~eg~~~qT-~ehl~il~~l---gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~  156 (614)
T PRK10512         81 VVACDDGVMAQT-REHLAILQLT---GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDA  156 (614)
T ss_pred             EEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHH
Confidence            999987322222 2222333322   455 57999999996532221  234455554444   6899999999999999


Q ss_pred             HHHHHHHHH
Q 042687          165 AFQTILLDI  173 (217)
Q Consensus       165 ~~~~l~~~~  173 (217)
                      ++++|.+..
T Consensus       157 L~~~L~~~~  165 (614)
T PRK10512        157 LREHLLQLP  165 (614)
T ss_pred             HHHHHHHhh
Confidence            999987654

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.81  E-value=1.6e-18  Score=139.18  Aligned_cols=154  Identities=18%  Similarity=0.182  Sum_probs=112.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhhccc--------hhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI--------TSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   81 (217)
                      ..++|+|+|.||||||||+|.|.+...+..++ +.++.+.-...+.++|.+  +.++||+|..+....        ....
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~p--v~l~DTAGiRet~d~VE~iGIeRs~~~  293 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIP--VRLVDTAGIRETDDVVERIGIERAKKA  293 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEE--EEEEecCCcccCccHHHHHHHHHHHHH
Confidence            45899999999999999999999988775543 666677777778888854  569999995432222        2345


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..||.+++|+|.+.+.+-... ..+.    ....+.|+++|.||.|+.......     ......+.+++.+|++++.|
T Consensus       294 i~~ADlvL~v~D~~~~~~~~d~-~~~~----~~~~~~~~i~v~NK~DL~~~~~~~-----~~~~~~~~~~i~iSa~t~~G  363 (454)
T COG0486         294 IEEADLVLFVLDASQPLDKEDL-ALIE----LLPKKKPIIVVLNKADLVSKIELE-----SEKLANGDAIISISAKTGEG  363 (454)
T ss_pred             HHhCCEEEEEEeCCCCCchhhH-HHHH----hcccCCCEEEEEechhcccccccc-----hhhccCCCceEEEEecCccC
Confidence            7899999999999985322221 1111    334479999999999997644321     11122344799999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHI  176 (217)
Q Consensus       162 v~~~~~~l~~~~~~~  176 (217)
                      ++.+.+.|.+.+...
T Consensus       364 l~~L~~~i~~~~~~~  378 (454)
T COG0486         364 LDALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999998877554

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.80  E-value=1.8e-18  Score=131.82  Aligned_cols=113  Identities=19%  Similarity=0.202  Sum_probs=79.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCC----------------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLES----------------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~----------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      +|+++|+.|+|||||+++|+........                ....+.+.......+.....++.+|||||+..|...
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            5899999999999999999763211100                011122222223333344567889999999998888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      +..+++.+|++++|+|+++.... ....++..+...   ++|+++++||+|+.
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~---~~P~iivvNK~D~~  129 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL---NIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc---CCCEEEEEECcccc
Confidence            88999999999999999876443 334455555443   78999999999984

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.80  E-value=4.2e-18  Score=144.50  Aligned_cols=154  Identities=18%  Similarity=0.184  Sum_probs=100.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCC----CcceeeEEEEEE--ECCeE-----E-----EEEEEecCChhhhcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKS----TIGVEFATRTLQ--VEGKT-----V-----KAQIWDTAGQERYRA   76 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~----t~~~~~~~~~~~--~~~~~-----~-----~~~i~D~~G~~~~~~   76 (217)
                      ..|+++|+.++|||||+++|.+.........    +.+..+......  ..+..     .     .+.+|||||++.|..
T Consensus         7 p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~   86 (586)
T PRK04004          7 PIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTN   86 (586)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHH
Confidence            5799999999999999999987654322221    222111111100  00111     1     167999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--C--------------H
Q 042687           77 ITSAYYRGAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--A--------------A  137 (217)
Q Consensus        77 ~~~~~~~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~--------------~  137 (217)
                      ++...+..+|++|+|+|+++   +++++.+.    .+..   .++|+++++||+|+...+..  .              .
T Consensus        87 ~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~----~~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~  159 (586)
T PRK04004         87 LRKRGGALADIAILVVDINEGFQPQTIEAIN----ILKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQ  159 (586)
T ss_pred             HHHHhHhhCCEEEEEEECCCCCCHhHHHHHH----HHHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHH
Confidence            88888899999999999987   45554432    2222   27899999999998531110  0              0


Q ss_pred             H-------HHHHHHHH---------------cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          138 E-------DAQILAEK---------------EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       138 ~-------~~~~~~~~---------------~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +       +.......               ..++++++||++|.|++++++.+...+
T Consensus       160 ~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        160 QELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence            0       01111111               126799999999999999998876543

>PRK12736 elongation factor Tu; Reviewed

Probab=99.80  E-value=3.3e-18  Score=139.62  Aligned_cols=155  Identities=19%  Similarity=0.141  Sum_probs=100.4

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCcccc--------------CCCCCcceeeEEEEEEECCeEEEEEEE
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL--------------ESKSTIGVEFATRTLQVEGKTVKAQIW   66 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~~~~i~   66 (217)
                      |+........+.++|+++|+.++|||||+++|++.....              ......+.+.......+......+.++
T Consensus         1 ~~~~~~~~~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~i   80 (394)
T PRK12736          1 MAKEKFDRSKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHV   80 (394)
T ss_pred             CchhhhccCCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEE
Confidence            344444555677999999999999999999997631100              000112223333333443344567899


Q ss_pred             ecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccC---HHHHHH
Q 042687           67 DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVA---AEDAQI  142 (217)
Q Consensus        67 D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~  142 (217)
                      ||||++.|.......+..+|++++|+|+.+...... .+++..+...   ++| +++++||+|+.+.....   ..++..
T Consensus        81 DtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t-~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~  156 (394)
T PRK12736         81 DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQT-REHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRE  156 (394)
T ss_pred             ECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHH
Confidence            999999887777777789999999999986432222 2233333333   677 67889999986422221   234555


Q ss_pred             HHHHcC-----CeEEEecCCCC
Q 042687          143 LAEKEG-----LSFLETSALEA  159 (217)
Q Consensus       143 ~~~~~~-----~~~~~vSa~~~  159 (217)
                      +....+     ++++++||++|
T Consensus       157 ~l~~~~~~~~~~~ii~vSa~~g  178 (394)
T PRK12736        157 LLSEYDFPGDDIPVIRGSALKA  178 (394)
T ss_pred             HHHHhCCCcCCccEEEeecccc
Confidence            555554     58999999998

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=1.7e-18  Score=130.37  Aligned_cols=113  Identities=23%  Similarity=0.311  Sum_probs=79.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCC-----------------CCCcceeeEE--EEEEE---CCeEEEEEEEecCCh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLES-----------------KSTIGVEFAT--RTLQV---EGKTVKAQIWDTAGQ   71 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~-----------------~~t~~~~~~~--~~~~~---~~~~~~~~i~D~~G~   71 (217)
                      +|+|+|+.++|||||+++|+........                 ....+.+...  ..+..   ++..+.+.+|||||+
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            6899999999999999999875443210                 0011111111  11211   345678999999999


Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ..+......++..+|++|+|+|+++..+... ..++.....   .++|+++++||+|+.
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            9988888888999999999999987655433 344444332   268999999999974

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.

>CHL00071 tufA elongation factor Tu

Probab=99.79  E-value=5e-18  Score=139.22  Aligned_cols=158  Identities=18%  Similarity=0.138  Sum_probs=105.7

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccC--------------CCCCcceeeEEEEEEECCeEEEEEEE
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE--------------SKSTIGVEFATRTLQVEGKTVKAQIW   66 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~--------------~~~t~~~~~~~~~~~~~~~~~~~~i~   66 (217)
                      |++...++..+.++|+++|++++|||||+++|++......              .....+.+.......+.....++.++
T Consensus         1 ~~~~~~~~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~i   80 (409)
T CHL00071          1 MAREKFERKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHV   80 (409)
T ss_pred             CchhhccCCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEE
Confidence            6777788888889999999999999999999986421100              00112222322223333334567799


Q ss_pred             ecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccccc---CHHHHHH
Q 042687           67 DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAV---AAEDAQI  142 (217)
Q Consensus        67 D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~  142 (217)
                      ||||+..|.......+..+|++++|+|+.....-+. ..++..+...   ++| +++++||+|+.+....   ...++..
T Consensus        81 DtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt-~~~~~~~~~~---g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~  156 (409)
T CHL00071         81 DCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQT-KEHILLAKQV---GVPNIVVFLNKEDQVDDEELLELVELEVRE  156 (409)
T ss_pred             ECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCEEEEEEEccCCCCHHHHHHHHHHHHHH
Confidence            999998887777777889999999999986432222 2333333333   678 7789999998653221   1234555


Q ss_pred             HHHHcC-----CeEEEecCCCCCCH
Q 042687          143 LAEKEG-----LSFLETSALEALNV  162 (217)
Q Consensus       143 ~~~~~~-----~~~~~vSa~~~~gv  162 (217)
                      +....+     ++++++||.+|.++
T Consensus       157 ~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        157 LLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             HHHHhCCCCCcceEEEcchhhcccc
Confidence            555543     68999999998754

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.79  E-value=9.8e-18  Score=134.29  Aligned_cols=158  Identities=23%  Similarity=0.194  Sum_probs=112.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhh---------hccc--h
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------YRAI--T   78 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~--~   78 (217)
                      ..+||+|+|.||+|||||+|+|++..-...+ .+.++.+-....+..+++.  +.++||+|-..         +.+.  .
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            4599999999999999999999998766443 3445556666677777765  45999999322         1111  1


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH----HHHHHHcC-CeEEE
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA----QILAEKEG-LSFLE  153 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~----~~~~~~~~-~~~~~  153 (217)
                      ...+..+|++++|+|++.+-+.++. .....+.+.   +.+++|++||.|+.+......++.    .......+ ++++.
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~-~ia~~i~~~---g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~  330 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDL-RIAGLIEEA---GRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVF  330 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHH-HHHHHHHHc---CCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEE
Confidence            3346789999999999987665543 334444444   889999999999876433333333    22222333 68999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      +||+++.|++++|+.+.....
T Consensus       331 iSA~~~~~i~~l~~~i~~~~~  351 (444)
T COG1160         331 ISALTGQGLDKLFEAIKEIYE  351 (444)
T ss_pred             EEecCCCChHHHHHHHHHHHH
Confidence            999999999999999887443

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.78  E-value=2.5e-18  Score=129.87  Aligned_cols=148  Identities=20%  Similarity=0.144  Sum_probs=91.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccc---------------------------cCCC--CCcceeeEEEEEEECCeEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFC---------------------------LESK--STIGVEFATRTLQVEGKTVKAQ   64 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~---------------------------~~~~--~t~~~~~~~~~~~~~~~~~~~~   64 (217)
                      +|+++|+.++|||||+.+|+.....                           +...  ...+.+.......+......+.
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            5899999999999999998642110                           0000  1112222222223333346788


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChh-------hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc--ccc
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-------TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL--RAV  135 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-------s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~--~~~  135 (217)
                      +|||||+..+...+...+..+|++|+|+|+++..       ..+....+ ...... . ..|+++++||+|+...  ...
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~-~-~~~iiivvNK~Dl~~~~~~~~  157 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTL-G-VKQLIVAVNKMDDVTVNWSEE  157 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHHc-C-CCeEEEEEEccccccccccHH
Confidence            9999999888777777788999999999998742       11222222 222222 1 3689999999998731  111


Q ss_pred             C----HHHHHHHHHHcC-----CeEEEecCCCCCCHHH
Q 042687          136 A----AEDAQILAEKEG-----LSFLETSALEALNVEK  164 (217)
Q Consensus       136 ~----~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~  164 (217)
                      .    ..++..+....+     ++++++||++|.|+++
T Consensus       158 ~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         158 RYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             HHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            1    122333344433     6799999999999873

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.78  E-value=6.4e-18  Score=138.09  Aligned_cols=156  Identities=19%  Similarity=0.129  Sum_probs=101.5

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccc------------cC--CCCCcceeeEEEEEEECCeEEEEEEE
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFC------------LE--SKSTIGVEFATRTLQVEGKTVKAQIW   66 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~------------~~--~~~t~~~~~~~~~~~~~~~~~~~~i~   66 (217)
                      |+.....+..+.++|+++|+.++|||||+++|.+....            +.  .....+.+.....+.+......+.+|
T Consensus         1 ~~~~~~~~~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~li   80 (394)
T TIGR00485         1 MAKEKFERTKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHV   80 (394)
T ss_pred             CchhhhcCCCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEE
Confidence            44444455667899999999999999999999742100            00  00112223333334444445678899


Q ss_pred             ecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEE-EEEeCCCCccccccC---HHHHHH
Q 042687           67 DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVA---AEDAQI  142 (217)
Q Consensus        67 D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~  142 (217)
                      ||||++.|.......+..+|++++|+|+.+....... +++..+...   ++|.+ +++||+|+.+.....   ..++..
T Consensus        81 DtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~-e~l~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~  156 (394)
T TIGR00485        81 DCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTR-EHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRE  156 (394)
T ss_pred             ECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH-HHHHHHHHc---CCCEEEEEEEecccCCHHHHHHHHHHHHHH
Confidence            9999998877776677889999999999874322222 233333333   66755 689999986532211   234666


Q ss_pred             HHHHcC-----CeEEEecCCCCC
Q 042687          143 LAEKEG-----LSFLETSALEAL  160 (217)
Q Consensus       143 ~~~~~~-----~~~~~vSa~~~~  160 (217)
                      +....+     ++++++||.++.
T Consensus       157 ~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       157 LLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             HHHhcCCCccCccEEECcccccc
Confidence            666654     789999999874

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.78  E-value=7.3e-18  Score=137.72  Aligned_cols=154  Identities=18%  Similarity=0.145  Sum_probs=98.8

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcC-------ccc-----cC--CCCCcceeeEEEEEEECCeEEEEEEEecC
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRN-------EFC-----LE--SKSTIGVEFATRTLQVEGKTVKAQIWDTA   69 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~-------~~~-----~~--~~~t~~~~~~~~~~~~~~~~~~~~i~D~~   69 (217)
                      .......+.++|+++|+.++|||||+++|++.       .+.     +.  .....+.+.......+......+.++|||
T Consensus         4 ~~~~~~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtP   83 (396)
T PRK12735          4 EKFERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCP   83 (396)
T ss_pred             hhcCCCCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECC
Confidence            33445567799999999999999999999862       100     00  00112222222333343334567899999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEE-EEEeCCCCcccccc---CHHHHHHHHH
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAV---AAEDAQILAE  145 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~Dl~~~~~~---~~~~~~~~~~  145 (217)
                      |++.|.......+..+|++++|+|+.+...... .+++..+...   ++|.+ +++||+|+......   ...++..+..
T Consensus        84 Gh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt-~e~l~~~~~~---gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~  159 (396)
T PRK12735         84 GHADYVKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLS  159 (396)
T ss_pred             CHHHHHHHHHhhhccCCEEEEEEECCCCCchhH-HHHHHHHHHc---CCCeEEEEEEecCCcchHHHHHHHHHHHHHHHH
Confidence            999887777777889999999999987432222 2333334333   67855 57999998642211   1224555555


Q ss_pred             HcC-----CeEEEecCCCCCC
Q 042687          146 KEG-----LSFLETSALEALN  161 (217)
Q Consensus       146 ~~~-----~~~~~vSa~~~~g  161 (217)
                      .++     ++++++||.++.+
T Consensus       160 ~~~~~~~~~~ii~~Sa~~g~n  180 (396)
T PRK12735        160 KYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             HcCCCcCceeEEecchhcccc
Confidence            543     6799999999854

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.78  E-value=8.1e-18  Score=140.48  Aligned_cols=151  Identities=19%  Similarity=0.221  Sum_probs=115.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh------ccchhhh-h-cC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY------RAITSAY-Y-RG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~-~-~~   84 (217)
                      .+|+++|+||||||||.|++++........+..+.+.....+...+..  ++++|.||--..      ....+.+ + ..
T Consensus         4 ~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~~S~DE~Var~~ll~~~   81 (653)
T COG0370           4 LTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTAYSEDEKVARDFLLEGK   81 (653)
T ss_pred             ceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCce--EEEEeCCCcCCCCCCCchHHHHHHHHhcCC
Confidence            569999999999999999999988877777777777777777777755  669999993211      1112233 3 46


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      .|++|-|.|+++.+..-.+   --++.+.   +.|++++.|++|....+-+ ..+.+.+.+.+|+|+++++|++|.|+++
T Consensus        82 ~D~ivnVvDAtnLeRnLyl---tlQLlE~---g~p~ilaLNm~D~A~~~Gi-~ID~~~L~~~LGvPVv~tvA~~g~G~~~  154 (653)
T COG0370          82 PDLIVNVVDATNLERNLYL---TLQLLEL---GIPMILALNMIDEAKKRGI-RIDIEKLSKLLGVPVVPTVAKRGEGLEE  154 (653)
T ss_pred             CCEEEEEcccchHHHHHHH---HHHHHHc---CCCeEEEeccHhhHHhcCC-cccHHHHHHHhCCCEEEEEeecCCCHHH
Confidence            7999999999985543322   2233333   8999999999998764433 4577888999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          165 AFQTILLD  172 (217)
Q Consensus       165 ~~~~l~~~  172 (217)
                      +.+.+++.
T Consensus       155 l~~~i~~~  162 (653)
T COG0370         155 LKRAIIEL  162 (653)
T ss_pred             HHHHHHHh
Confidence            99988763

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.77  E-value=1.3e-17  Score=126.67  Aligned_cols=162  Identities=19%  Similarity=0.190  Sum_probs=106.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh------hh------c
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE------RY------R   75 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~------~~------~   75 (217)
                      +....++|+|+|.||+|||||.|.+++.+..+.+..+.++.....-+...+. ..+.++||||--      .+      -
T Consensus        68 e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~e-TQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   68 EAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGE-TQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCc-eEEEEecCCcccccchhhhHHHHHHhh
Confidence            3457799999999999999999999999998877766555555544444433 588999999921      11      1


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc-------------cC--HHH-
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA-------------VA--AED-  139 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~-------------~~--~~~-  139 (217)
                      ......+.+||.+++++|+++.-..-. ...+..+....  .+|-+++.||.|......             +.  ..+ 
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys--~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v  223 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS--KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEV  223 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh--cCCceeeccchhcchhhhHHhhhHHhccccccchhhhhH
Confidence            122345688999999999986321111 12233333332  788899999999743211             11  011 


Q ss_pred             HHHHHH---------HcCC----eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          140 AQILAE---------KEGL----SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       140 ~~~~~~---------~~~~----~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+.+..         ..|+    .+|.+||++|+|++++-+||...+
T Consensus       224 ~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa  270 (379)
T KOG1423|consen  224 QEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQA  270 (379)
T ss_pred             HHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcC
Confidence            111111         1123    389999999999999999998644

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.77  E-value=9.5e-18  Score=128.01  Aligned_cols=156  Identities=16%  Similarity=0.162  Sum_probs=110.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----hhccc---hhhhhcCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----RYRAI---TSAYYRGA   85 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~---~~~~~~~~   85 (217)
                      -.|.+||.||+|||||++++.+.+......+.++.......+.+++.. .+++-|+||.-    ....+   ....++.+
T Consensus       197 advGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER~  275 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIERC  275 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHhh
Confidence            468899999999999999999877664333333344444445555433 38899999932    12222   23345689


Q ss_pred             cEEEEEEeCCCh---hhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe-EEEecCCCC
Q 042687           86 VGALLVYDITKR---QTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS-FLETSALEA  159 (217)
Q Consensus        86 d~ii~v~d~~~~---~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~vSa~~~  159 (217)
                      +.++||+|++..   ..++.+..+..++..+.  -...|.+||+||+|+++.   ....+.++++...-+ ++++||+++
T Consensus       276 ~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea---e~~~l~~L~~~lq~~~V~pvsA~~~  352 (366)
T KOG1489|consen  276 KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA---EKNLLSSLAKRLQNPHVVPVSAKSG  352 (366)
T ss_pred             ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH---HHHHHHHHHHHcCCCcEEEeeeccc
Confidence            999999999988   77777766666654443  247899999999998631   122346777777644 999999999


Q ss_pred             CCHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLD  172 (217)
Q Consensus       160 ~gv~~~~~~l~~~  172 (217)
                      +|++++++.|.+.
T Consensus       353 egl~~ll~~lr~~  365 (366)
T KOG1489|consen  353 EGLEELLNGLREL  365 (366)
T ss_pred             cchHHHHHHHhhc
Confidence            9999999887653

>COG2262 HflX GTPases [General function prediction only]

Probab=99.77  E-value=2.2e-17  Score=130.52  Aligned_cols=161  Identities=17%  Similarity=0.155  Sum_probs=115.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh---------hhhccchh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ---------ERYRAITS   79 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~   79 (217)
                      ....+.|.++|..|+|||||+|+|++........-..+.+.....+.+.+ ...+.+.||.|.         +.|.+.. 
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            34568999999999999999999998766544333334455556666654 235679999993         2233322 


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      .....+|+++.|+|++++...+.++.....+.+....++|+|+|.||+|+.....    ....+..... ..+.+||++|
T Consensus       267 EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~  341 (411)
T COG2262         267 EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTG  341 (411)
T ss_pred             HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccC
Confidence            2346899999999999998777777777777777656799999999999754222    1111111112 5899999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIYHI  176 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~~~  176 (217)
                      .|++.+.+.|.+.+...
T Consensus       342 ~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         342 EGLDLLRERIIELLSGL  358 (411)
T ss_pred             cCHHHHHHHHHHHhhhc
Confidence            99999999998877543

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.77  E-value=1.2e-17  Score=126.09  Aligned_cols=154  Identities=19%  Similarity=0.187  Sum_probs=96.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCC----------------C-------cceeeEEEE-------------EEEC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKS----------------T-------IGVEFATRT-------------LQVE   57 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~----------------t-------~~~~~~~~~-------------~~~~   57 (217)
                      ||+++|+.++|||||+++|..+.+......                |       .+.+.....             ..+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            689999999999999999997655432110                0       000100000             0011


Q ss_pred             CeEEEEEEEecCChhhhccchhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           58 GKTVKAQIWDTAGQERYRAITSAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        58 ~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .....+.++|+||++.|.......+.  .+|++++|+|+.....-. ...++..+...   ++|+++|+||+|+.+....
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~-d~~~l~~l~~~---~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGM-TKEHLGLALAL---NIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHH-HHHHHHHHHHc---CCCEEEEEECccccCHHHH
Confidence            11246789999999888665554453  689999999987654322 23444444443   7899999999998543221


Q ss_pred             C--HHHHHHHHH--------------------------HcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          136 A--AEDAQILAE--------------------------KEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       136 ~--~~~~~~~~~--------------------------~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .  ..++..+..                          ...+|+|.+|+.+|.|++++...|..
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            1  112222222                          11248999999999999999887743

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

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.76  E-value=3.7e-17  Score=125.62  Aligned_cols=159  Identities=20%  Similarity=0.213  Sum_probs=111.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh------hhhc---cchhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ------ERYR---AITSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~------~~~~---~~~~~~   81 (217)
                      ...-|+|.|+||||||||++++.+.+......|.++.......+..++  .+++++||||.      +...   ......
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL  244 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY--LRIQVIDTPGLLDRPLEERNEIERQAILAL  244 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC--ceEEEecCCcccCCChHHhcHHHHHHHHHH
Confidence            347899999999999999999999887765555555566665555554  46789999992      1111   111122


Q ss_pred             hcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCC
Q 042687           82 YRGAVGALLVYDITKR--QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALE  158 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~  158 (217)
                      -.-.++++|++|++..  .+.+.-..++..+.....  .|+++|.||+|..+....  +++.......+ .....+++..
T Consensus       245 ~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~--~~~~~~~~~~~~~~~~~~~~~~  320 (346)
T COG1084         245 RHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKL--EEIEASVLEEGGEEPLKISATK  320 (346)
T ss_pred             HHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHH--HHHHHHHHhhccccccceeeee
Confidence            2457889999999753  466666778888887764  899999999998754433  33333344444 3477888888


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIYH  175 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~~  175 (217)
                      +.+++..-..+.....+
T Consensus       321 ~~~~d~~~~~v~~~a~~  337 (346)
T COG1084         321 GCGLDKLREEVRKTALE  337 (346)
T ss_pred             hhhHHHHHHHHHHHhhc
Confidence            88888888777766444

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.75  E-value=2.9e-17  Score=123.62  Aligned_cols=113  Identities=20%  Similarity=0.240  Sum_probs=78.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccC----------------CCCCcceeeEEEEEEEC--------CeEEEEEEEecC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLE----------------SKSTIGVEFATRTLQVE--------GKTVKAQIWDTA   69 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~----------------~~~t~~~~~~~~~~~~~--------~~~~~~~i~D~~   69 (217)
                      +|+|+|+.++|||||+.+|+.......                .....+.......+.+.        +..+.+++||||
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            799999999999999999975432100                00111111111122222        346789999999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      |+..|......++..+|++++|+|+.+....+.... +.....   .++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~-l~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETV-LRQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHH-HHHHHH---cCCCEEEEEECCCcc
Confidence            999999999999999999999999988665544322 222222   268999999999975

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

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.75  E-value=6.5e-18  Score=137.90  Aligned_cols=166  Identities=27%  Similarity=0.318  Sum_probs=121.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .....+||+++|..|+||||||-.+....|.+.-.+-...-..+.  .+.-..+..+|+|++..+.-+......++.||+
T Consensus         5 ~t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPa--dvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~v   82 (625)
T KOG1707|consen    5 ETLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPA--DVTPENVPTSIVDTSSDSDDRLCLRKEIRKADV   82 (625)
T ss_pred             cCccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCC--ccCcCcCceEEEecccccchhHHHHHHHhhcCE
Confidence            334569999999999999999999999988665443321111112  222223446799998776666666778999999


Q ss_pred             EEEEEeCCChhhHHHH-HHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHH-HHHHHHHc-CC-eEEEecCCCCCC
Q 042687           88 ALLVYDITKRQTFDNV-TRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAED-AQILAEKE-GL-SFLETSALEALN  161 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~-~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~-~~-~~~~vSa~~~~g  161 (217)
                      +.++|+.+++++++.+ .+|+..++...+  .++|+|+|+||+|.......+.+. ..-+...+ .+ ..++|||++-.+
T Consensus        83 i~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n  162 (625)
T KOG1707|consen   83 ICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLAN  162 (625)
T ss_pred             EEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhh
Confidence            9999999999999998 789999988773  479999999999986544332222 23333333 23 479999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYH  175 (217)
Q Consensus       162 v~~~~~~l~~~~~~  175 (217)
                      +.++|.+....++.
T Consensus       163 ~~e~fYyaqKaVih  176 (625)
T KOG1707|consen  163 VSELFYYAQKAVIH  176 (625)
T ss_pred             hHhhhhhhhheeec
Confidence            99999987776543

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.75  E-value=1.5e-16  Score=118.33  Aligned_cols=161  Identities=14%  Similarity=0.172  Sum_probs=97.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcce---eeEEEEEEECCeEEEEEEEecCChhhhccchhh-----hhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGV---EFATRTLQVEGKTVKAQIWDTAGQERYRAITSA-----YYRG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----~~~~   84 (217)
                      ++|+|+|.+|+|||||+|.|.+.........+.+.   ......+.... ...+.+||+||..........     .+..
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPK-FPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCC-CCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            79999999999999999999986554322222221   11111111111 236789999996432222222     2567


Q ss_pred             CcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccccc-----------cCHHHHH----HHHHHcC
Q 042687           85 AVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLRA-----------VAAEDAQ----ILAEKEG  148 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~-----------~~~~~~~----~~~~~~~  148 (217)
                      +|+++++.+. +   +... ..|+..+...   +.|+++|+||+|+.....           ...+++.    ......+
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            8988888542 2   2222 3455555554   689999999999843111           0011122    2222222


Q ss_pred             ---CeEEEecCC--CCCCHHHHHHHHHHHHHHHHHHHH
Q 042687          149 ---LSFLETSAL--EALNVEKAFQTILLDIYHIISKKA  181 (217)
Q Consensus       149 ---~~~~~vSa~--~~~gv~~~~~~l~~~~~~~~~~~~  181 (217)
                         .++|.+|+.  .+.++..+.+.|+..+-+..+.-.
T Consensus       154 ~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~~~~  191 (197)
T cd04104         154 VSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKRHVF  191 (197)
T ss_pred             CCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHHHHH
Confidence               368999998  578999999999998877655443

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

>cd04169 RF3 RF3 subfamily

Probab=99.74  E-value=9.1e-17  Score=124.44  Aligned_cols=115  Identities=18%  Similarity=0.205  Sum_probs=79.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCC----------C----------CcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESK----------S----------TIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~----------~----------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      -+|+|+|+.|+|||||+++|+...-.....          .          ..+.+.......+....+++++|||||+.
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            479999999999999999997532111100          0          01222333334445556788899999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      .|.......++.+|++|+|+|+++.... ....++.....   .++|+++++||+|+..
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~  137 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence            8887777788999999999999875332 22334443333   3789999999999865

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.73  E-value=1.9e-16  Score=129.32  Aligned_cols=156  Identities=17%  Similarity=0.128  Sum_probs=100.1

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccc------------c--CCCCCcceeeEEEEEEECCeEEEEEEEe
Q 042687            2 AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFC------------L--ESKSTIGVEFATRTLQVEGKTVKAQIWD   67 (217)
Q Consensus         2 ~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~------------~--~~~~t~~~~~~~~~~~~~~~~~~~~i~D   67 (217)
                      +........+.++|+++|+.++|||||+++|++....            +  ......+.+.......+......+.++|
T Consensus         2 ~~~~~~~~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iD   81 (396)
T PRK00049          2 AKEKFERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVD   81 (396)
T ss_pred             chhhccCCCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEE
Confidence            3334445567799999999999999999999863110            0  0001222333333334433345678999


Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEE-EEEeCCCCcccccc---CHHHHHHH
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAV---AAEDAQIL  143 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~Dl~~~~~~---~~~~~~~~  143 (217)
                      |||+..|.......+..+|++++|+|+.+..... ..+++..+...   ++|.+ +++||+|+......   ...++..+
T Consensus        82 tPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~q-t~~~~~~~~~~---g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~  157 (396)
T PRK00049         82 CPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVREL  157 (396)
T ss_pred             CCCHHHHHHHHHhhhccCCEEEEEEECCCCCchH-HHHHHHHHHHc---CCCEEEEEEeecCCcchHHHHHHHHHHHHHH
Confidence            9999888777777789999999999998643322 23333444433   68876 58999998642221   11234444


Q ss_pred             HHHc-----CCeEEEecCCCCCC
Q 042687          144 AEKE-----GLSFLETSALEALN  161 (217)
Q Consensus       144 ~~~~-----~~~~~~vSa~~~~g  161 (217)
                      ....     .++++++||.++.+
T Consensus       158 l~~~~~~~~~~~iv~iSa~~g~~  180 (396)
T PRK00049        158 LSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             HHhcCCCccCCcEEEeecccccC
Confidence            4443     36899999998753

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.73  E-value=2.7e-17  Score=114.02  Aligned_cols=154  Identities=16%  Similarity=0.300  Sum_probs=115.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .-|++++|-.|+|||||++.|.++... ...||..  .....+.+.+  ++++-+|.+||..-+..|..|+..+|++++.
T Consensus        20 ~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlH--PTSE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~l   94 (193)
T KOG0077|consen   20 FGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLH--PTSEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVYL   94 (193)
T ss_pred             CceEEEEeecCCchhhHHHHHcccccc-ccCCCcC--CChHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEee
Confidence            358999999999999999999887763 3334422  2233344555  5778999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHH------HHHHcC-----------CeEEE
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQI------LAEKEG-----------LSFLE  153 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~------~~~~~~-----------~~~~~  153 (217)
                      +|+.|.+.+.+.+..++.+.... -..+|+++.+||+|.+...  ++++.+.      +....+           +.+|.
T Consensus        95 vda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfm  172 (193)
T KOG0077|consen   95 VDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFM  172 (193)
T ss_pred             eehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEE
Confidence            99999999998877777654443 2489999999999987643  3333322      111111           34788


Q ss_pred             ecCCCCCCHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLD  172 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~  172 (217)
                      ||...+.|..+.|.|+...
T Consensus       173 csi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  173 CSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEEccCccceeeeehhhh
Confidence            8999888888888887653

>cd01850 CDC_Septin CDC/Septin

Probab=99.72  E-value=2.7e-16  Score=122.33  Aligned_cols=143  Identities=15%  Similarity=0.230  Sum_probs=92.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC----------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-----
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE----------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-----   75 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----   75 (217)
                      ..++|+|+|.+|+|||||+|+|++..+...          ..+|.........+..++..+++.+|||||.....     
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            358999999999999999999999876543          23344444445556667888899999999932111     


Q ss_pred             ---------------------cchhhhhc--CCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           76 ---------------------AITSAYYR--GAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        76 ---------------------~~~~~~~~--~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                                           ......+.  .+|+++++++.+... +... ...+..+.   . .+|+++|+||+|+..
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-LKPLDIEFMKRLS---K-RVNIIPVIAKADTLT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHh---c-cCCEEEEEECCCcCC
Confidence                                 00112222  467778887766421 1111 22333333   2 689999999999854


Q ss_pred             cc--ccCHHHHHHHHHHcCCeEEEecCCC
Q 042687          132 LR--AVAAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus       132 ~~--~~~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      ..  ......+.+.+..+++++|......
T Consensus       158 ~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         158 PEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            22  2234456677788899988776543

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.71  E-value=2.1e-16  Score=130.55  Aligned_cols=151  Identities=17%  Similarity=0.191  Sum_probs=100.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc--------------------------CC---CCCcceeeEEEEEEECCeE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL--------------------------ES---KSTIGVEFATRTLQVEGKT   60 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~--------------------------~~---~~t~~~~~~~~~~~~~~~~   60 (217)
                      .+.++|+++|+.++|||||+.+|+...-..                          +.   ....+.+.......+....
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~   84 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTK   84 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCC
Confidence            345999999999999999999886421100                          00   0111222222233344455


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHH-------HHHHHHHHHHhhcCCCCe-EEEEEeCCCCccc
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFD-------NVTRWLRELRDHADSNIV-IMMAGNKSDLNHL  132 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~  132 (217)
                      ..++++|+|||+.|.......+..+|++|+|+|+.+. .++       ...+.+......   ++| ++|++||+|+...
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~~---gi~~iIV~vNKmD~~~~  160 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFTL---GVKQMICCCNKMDATTP  160 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHHc---CCCcEEEEEEcccCCch
Confidence            6788999999999999999999999999999999863 121       222222323222   674 6889999997621


Q ss_pred             cc------cCHHHHHHHHHHcC-----CeEEEecCCCCCCHHH
Q 042687          133 RA------VAAEDAQILAEKEG-----LSFLETSALEALNVEK  164 (217)
Q Consensus       133 ~~------~~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~  164 (217)
                      ..      ...+++..++...+     ++++++||.+|+|+.+
T Consensus       161 ~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        161 KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            10      11345666666665     6799999999999864

>PLN03127 Elongation factor Tu; Provisional

Probab=99.71  E-value=4.4e-16  Score=128.51  Aligned_cols=147  Identities=16%  Similarity=0.107  Sum_probs=92.0

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcC------ccc----------cCCCCCcceeeEEEEEEECCeEEEEEEEec
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRN------EFC----------LESKSTIGVEFATRTLQVEGKTVKAQIWDT   68 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~------~~~----------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~   68 (217)
                      ......+.++|+++|+.++|||||+++|.+-      ...          .+..+..+.+  .....+.....++.++||
T Consensus        54 ~~~~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~--~~~~~~~~~~~~i~~iDt  131 (447)
T PLN03127         54 TFTRTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIA--TAHVEYETAKRHYAHVDC  131 (447)
T ss_pred             hhhcCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceee--eeEEEEcCCCeEEEEEEC
Confidence            3344456799999999999999999999621      100          1111222233  333344444457789999


Q ss_pred             CChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccC---HHHHHHHH
Q 042687           69 AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVA---AEDAQILA  144 (217)
Q Consensus        69 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~  144 (217)
                      ||+..|.......+..+|++++|+|+.+....+. .+.+..+...   ++| +++++||+|+.+.....   ..++..+.
T Consensus       132 PGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt-~e~l~~~~~~---gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l  207 (447)
T PLN03127        132 PGHADYVKNMITGAAQMDGGILVVSAPDGPMPQT-KEHILLARQV---GVPSLVVFLNKVDVVDDEELLELVEMELRELL  207 (447)
T ss_pred             CCccchHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHHc---CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHH
Confidence            9998876666666778999999999976533222 3333344433   788 56889999986422211   12333444


Q ss_pred             HHc-----CCeEEEecCC
Q 042687          145 EKE-----GLSFLETSAL  157 (217)
Q Consensus       145 ~~~-----~~~~~~vSa~  157 (217)
                      ...     .++++++|+.
T Consensus       208 ~~~~~~~~~vpiip~Sa~  225 (447)
T PLN03127        208 SFYKFPGDEIPIIRGSAL  225 (447)
T ss_pred             HHhCCCCCcceEEEeccc
Confidence            332     3678888876

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.71  E-value=2.9e-16  Score=131.79  Aligned_cols=117  Identities=18%  Similarity=0.189  Sum_probs=79.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccC---------------C--C---CCcceeeEEEEEEECCeEEEEEEEecC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLE---------------S--K---STIGVEFATRTLQVEGKTVKAQIWDTA   69 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~---------------~--~---~t~~~~~~~~~~~~~~~~~~~~i~D~~   69 (217)
                      +...+|+|+|+.++|||||+++|+...-...               .  .   ...+.+.......+....+.+++||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            4567999999999999999999963111000               0  0   111222333333344445678899999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      |+..|......++..+|++|+|+|+++.... ....++.....   .++|+++++||+|+.
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~D~~  144 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKLDRD  144 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECCccc
Confidence            9998888777889999999999999875322 22344443333   389999999999974

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.71  E-value=1.3e-16  Score=132.79  Aligned_cols=153  Identities=24%  Similarity=0.180  Sum_probs=95.5

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCC---------------------------------CCCcceeeEEEEEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES---------------------------------KSTIGVEFATRTLQ   55 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~---------------------------------~~t~~~~~~~~~~~   55 (217)
                      ....++|+++|+.++|||||+.+|+...-....                                 ....+.+.....  
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~--  101 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRY--  101 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEE--
Confidence            345699999999999999999999754211100                                 011122222222  


Q ss_pred             ECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           56 VEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        56 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      +......+.++||||++.|.......+..+|++++|+|+.........+.+ ..+... . ..|+++++||+|+.+....
T Consensus       102 ~~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~l-g-~~~iIvvvNKiD~~~~~~~  178 (474)
T PRK05124        102 FSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLL-G-IKHLVVAVNKMDLVDYSEE  178 (474)
T ss_pred             eccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHh-C-CCceEEEEEeeccccchhH
Confidence            333345678999999998866666667999999999999764322221222 122222 1 2478899999998642211


Q ss_pred             CHH----HHHHHHHHc----CCeEEEecCCCCCCHHHHH
Q 042687          136 AAE----DAQILAEKE----GLSFLETSALEALNVEKAF  166 (217)
Q Consensus       136 ~~~----~~~~~~~~~----~~~~~~vSa~~~~gv~~~~  166 (217)
                      ...    ++..+....    .++++++||++|.|+++.-
T Consensus       179 ~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        179 VFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            111    222333333    3689999999999998653

>PLN03126 Elongation factor Tu; Provisional

Probab=99.70  E-value=3.7e-16  Score=129.68  Aligned_cols=150  Identities=17%  Similarity=0.137  Sum_probs=97.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc------cC--------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC------LE--------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~------~~--------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      ..+.++|+++|+.++|||||+++|+.....      ..        .....+.+.......+......+.++|+||++.|
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f  157 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADY  157 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHH
Confidence            356699999999999999999999852110      00        0111222222222223333346789999999998


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccccc---CHHHHHHHHHHc---
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAV---AAEDAQILAEKE---  147 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~---  147 (217)
                      .......+..+|++++|+|+.+...... .+++..+...   ++| +++++||+|+.+....   ...++..+....   
T Consensus       158 ~~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~  233 (478)
T PLN03126        158 VKNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFP  233 (478)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCC
Confidence            8777778889999999999987543333 3333444433   777 7789999998652221   112445555543   


Q ss_pred             --CCeEEEecCCCCCCH
Q 042687          148 --GLSFLETSALEALNV  162 (217)
Q Consensus       148 --~~~~~~vSa~~~~gv  162 (217)
                        .++++++|+.++.++
T Consensus       234 ~~~~~~vp~Sa~~g~n~  250 (478)
T PLN03126        234 GDDIPIISGSALLALEA  250 (478)
T ss_pred             cCcceEEEEEccccccc
Confidence              468999999988543

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.70  E-value=8.2e-16  Score=117.98  Aligned_cols=155  Identities=21%  Similarity=0.203  Sum_probs=108.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYY   82 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~   82 (217)
                      +..-+|+++|.|+||||||+++|.+-.......+.++....+..+.+++  ..++++|+||.-.       -.....+..
T Consensus        61 sGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vlsv~  138 (365)
T COG1163          61 SGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLSVA  138 (365)
T ss_pred             cCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeeeee
Confidence            3456899999999999999999998766544334435566677777777  4677999998321       122344567


Q ss_pred             cCCcEEEEEEeCCChhh-HHHHHHHHHHHHhhcCC---------------------------------------------
Q 042687           83 RGAVGALLVYDITKRQT-FDNVTRWLRELRDHADS---------------------------------------------  116 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~---------------------------------------------  116 (217)
                      ++||++++|+|+....+ .+.+.+.+....-..+.                                             
T Consensus       139 R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V  218 (365)
T COG1163         139 RNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADV  218 (365)
T ss_pred             ccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceE
Confidence            89999999999986554 44444433332000000                                             


Q ss_pred             --------------------CCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          117 --------------------NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       117 --------------------~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                                          =+|.+.|+||.|+..     .++...+.+..  ..+.+||..+.|++++.+.|-+.+
T Consensus       219 ~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         219 LIREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             EEecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence                                178899999999876     34455555444  789999999999999999887754

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.70  E-value=2.7e-16  Score=128.85  Aligned_cols=148  Identities=23%  Similarity=0.211  Sum_probs=93.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccC---------------------------------CCCCcceeeEEEEEEECCe
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLE---------------------------------SKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~---------------------------------~~~t~~~~~~~~~~~~~~~   59 (217)
                      +||+++|+.++|||||+.+|+...-...                                 .....+.+.....+  ...
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~--~~~   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYF--STD   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEE--ccC
Confidence            5899999999999999999964321100                                 00111222222223  233


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC---
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA---  136 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~---  136 (217)
                      ..++.++||||++.|.......+..+|++++|+|+......+..+.| ..+....  ..++++++||+|+.......   
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~~~~--~~~iivviNK~D~~~~~~~~~~~  155 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIASLLG--IRHVVLAVNKMDLVDYDEEVFEN  155 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHHHcC--CCcEEEEEEecccccchHHHHHH
Confidence            45788999999998877666778999999999999765332222222 2222221  24588899999986422111   


Q ss_pred             -HHHHHHHHHHcC---CeEEEecCCCCCCHHHH
Q 042687          137 -AEDAQILAEKEG---LSFLETSALEALNVEKA  165 (217)
Q Consensus       137 -~~~~~~~~~~~~---~~~~~vSa~~~~gv~~~  165 (217)
                       .++...+....+   ++++++||.+|.|+++.
T Consensus       156 i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       156 IKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             HHHHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence             122333344443   57999999999998863

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).

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.70  E-value=1.2e-15  Score=124.26  Aligned_cols=152  Identities=19%  Similarity=0.245  Sum_probs=106.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC-eEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .+-|.++|+...|||||+..+........-....+-...-..+..+. ..-.+.++|||||+.|..+...-..-+|++|+
T Consensus         5 ~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaIL   84 (509)
T COG0532           5 PPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAIL   84 (509)
T ss_pred             CCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEE
Confidence            35689999999999999999988776544333322222223333331 12357899999999999999888899999999


Q ss_pred             EEeCCCh---hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHH-------HHHcC--CeEEEecCCC
Q 042687           91 VYDITKR---QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL-------AEKEG--LSFLETSALE  158 (217)
Q Consensus        91 v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-------~~~~~--~~~~~vSa~~  158 (217)
                      |++++|.   ++.+.+       ......++|++|++||+|+++.+   ......-       ...++  ..++++||++
T Consensus        85 VVa~dDGv~pQTiEAI-------~hak~a~vP~iVAiNKiDk~~~n---p~~v~~el~~~gl~~E~~gg~v~~VpvSA~t  154 (509)
T COG0532          85 VVAADDGVMPQTIEAI-------NHAKAAGVPIVVAINKIDKPEAN---PDKVKQELQEYGLVPEEWGGDVIFVPVSAKT  154 (509)
T ss_pred             EEEccCCcchhHHHHH-------HHHHHCCCCEEEEEecccCCCCC---HHHHHHHHHHcCCCHhhcCCceEEEEeeccC
Confidence            9999884   443332       22233399999999999987422   1111111       22232  4689999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|+++++..++-..
T Consensus       155 g~Gi~eLL~~ill~a  169 (509)
T COG0532         155 GEGIDELLELILLLA  169 (509)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999999887644

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.70  E-value=2.4e-16  Score=122.23  Aligned_cols=112  Identities=21%  Similarity=0.169  Sum_probs=76.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcccc------------------CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCL------------------ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      +|+|+|++|+|||||+++|.......                  +.....+.+.....+...  ..++.++||||+..+.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~--~~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWK--DHRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEEC--CEEEEEEECCCcHHHH
Confidence            58999999999999999996421110                  011112222222333333  4577899999998888


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      ..+...++.+|++|+|+|+.+...-.. ..++..+...   ++|+++++||+|+.+
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~~---~~p~ivviNK~D~~~  130 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADRY---NVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHHc---CCCEEEEEECCCCCC
Confidence            888899999999999999987533222 2333333333   789999999999864

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

>PRK13351 elongation factor G; Reviewed

Probab=99.70  E-value=6.2e-16  Score=134.69  Aligned_cols=117  Identities=19%  Similarity=0.198  Sum_probs=82.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCcccc-------------CC-----CCCcceeeEEEEEEECCeEEEEEEEecC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL-------------ES-----KSTIGVEFATRTLQVEGKTVKAQIWDTA   69 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-------------~~-----~~t~~~~~~~~~~~~~~~~~~~~i~D~~   69 (217)
                      +.+...+|+|+|+.++|||||+++|+......             ++     ....+.......+..  ..+.+++||||
T Consensus         4 ~~~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~--~~~~i~liDtP   81 (687)
T PRK13351          4 PLMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDW--DNHRINLIDTP   81 (687)
T ss_pred             ccccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEE--CCEEEEEEECC
Confidence            34566899999999999999999997532100             00     011111111222333  34678899999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      |+..|...+..+++.+|++|+|+|+++.........| ..+..   .++|+++++||+|+.
T Consensus        82 G~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~  138 (687)
T PRK13351         82 GHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRV  138 (687)
T ss_pred             CcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCC
Confidence            9999988889999999999999999887665554444 33333   278999999999985

>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=99.69  E-value=6.8e-16  Score=116.25  Aligned_cols=157  Identities=20%  Similarity=0.285  Sum_probs=98.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCC---CCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-----chhhhhcCC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESK---STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-----ITSAYYRGA   85 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~---~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~   85 (217)
                      ||+++|+.+|||||+.+.+..+..+.+..   +|.  +.....+... ..+.+++||+||+..+..     .....++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~--~ve~~~v~~~-~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v   77 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTI--DVEKSHVRFL-SFLPLNIWDCPGQDDFMENYFNSQREEIFSNV   77 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-------SEEEEEEECT-TSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcC--CceEEEEecC-CCcEEEEEEcCCccccccccccccHHHHHhcc
Confidence            79999999999999999998876543332   333  3333333222 235788999999864433     356778999


Q ss_pred             cEEEEEEeCCChhhHHHH---HHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cC----HHHHHHHHHHcC---CeEEE
Q 042687           86 VGALLVYDITKRQTFDNV---TRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VA----AEDAQILAEKEG---LSFLE  153 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~---~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~----~~~~~~~~~~~~---~~~~~  153 (217)
                      +++|+|+|+.+.+-.+.+   ...+..+....+ ++.+.|+++|+|+..+..  ..    .+.+...+...+   +.++.
T Consensus        78 ~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp-~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~  156 (232)
T PF04670_consen   78 GVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSP-NIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFL  156 (232)
T ss_dssp             SEEEEEEETT-STCHHHHHHHHHHHHHHHHHST-T-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEE
T ss_pred             CEEEEEEEcccccHHHHHHHHHHHHHHHHHhCC-CCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEe
Confidence            999999999854433444   344444444444 889999999999854221  11    123344444555   78999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +|..+. .+-++|..+++.+..
T Consensus       157 TSI~D~-Sly~A~S~Ivq~LiP  177 (232)
T PF04670_consen  157 TSIWDE-SLYEAWSKIVQKLIP  177 (232)
T ss_dssp             E-TTST-HHHHHHHHHHHTTST
T ss_pred             ccCcCc-HHHHHHHHHHHHHcc
Confidence            999984 789999998887753

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.69  E-value=2.2e-16  Score=118.73  Aligned_cols=160  Identities=18%  Similarity=0.233  Sum_probs=106.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEE-EEEEECCeEEEEEEEecCChh-------hhccchhhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFAT-RTLQVEGKTVKAQIWDTAGQE-------RYRAITSAY   81 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~~i~D~~G~~-------~~~~~~~~~   81 (217)
                      ...++|+++|..|+|||||||+|+.+...+...-..+.+... ....+++  -.+.+||+||-+       +|+.....+
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            355899999999999999999999766654443222222211 1122344  367899999943       478888999


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc-------ccC--------HHHHHHHHHH
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR-------AVA--------AEDAQILAEK  146 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~-------~~~--------~~~~~~~~~~  146 (217)
                      +...|.++++.++.|+.---.... ++.+....- +.++++++|.+|...+-       ...        ...++...+.
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 LPKLDLVLWLIKADDRALGTDEDF-LRDVIILGL-DKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRL  192 (296)
T ss_pred             hhhccEEEEeccCCCccccCCHHH-HHHHHHhcc-CceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999988763333333 333333322 58999999999974320       011        1112222222


Q ss_pred             c--CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          147 E--GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       147 ~--~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .  --|++.++...+.|++.+...+++.+
T Consensus       193 ~q~V~pV~~~~~r~~wgl~~l~~ali~~l  221 (296)
T COG3596         193 FQEVKPVVAVSGRLPWGLKELVRALITAL  221 (296)
T ss_pred             HhhcCCeEEeccccCccHHHHHHHHHHhC
Confidence            2  14788899999999999999998855

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.68  E-value=9.1e-16  Score=118.58  Aligned_cols=163  Identities=17%  Similarity=0.095  Sum_probs=106.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   86 (217)
                      -|.+||.|++|||||++++.+.+......+.++....--.+.++ ..-.+.+-|+||.-+       .-.-....+..+.
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            46799999999999999999877664333333333333333442 223577999999321       1111233456789


Q ss_pred             EEEEEEeCCChh---hHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE-ecCCCCC
Q 042687           87 GALLVYDITKRQ---TFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE-TSALEAL  160 (217)
Q Consensus        87 ~ii~v~d~~~~~---s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-vSa~~~~  160 (217)
                      ++++|+|++..+   ..+....+..++..+..  .++|.+||+||+|+....+........+....++..+. +|+.++.
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            999999998543   34555555555544432  48999999999996543333233344455555554222 9999999


Q ss_pred             CHHHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYHII  177 (217)
Q Consensus       161 gv~~~~~~l~~~~~~~~  177 (217)
                      |++++...+.+.+.+..
T Consensus       320 g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         320 GLDELLRALAELLEETK  336 (369)
T ss_pred             CHHHHHHHHHHHHHHhh
Confidence            99999999988776654

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.68  E-value=9.2e-16  Score=119.42  Aligned_cols=132  Identities=20%  Similarity=0.246  Sum_probs=85.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCC------------------CCcceeeEEEEEEECCeEEEEEEEecCChhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESK------------------STIGVEFATRTLQVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~------------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      +|+|+|++|+|||||+++|..........                  ...+.......+..+  .+.+.+|||||+..+.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~--~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWK--GHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEEC--CEEEEEEECcCHHHHH
Confidence            58999999999999999997532211100                  011111122223333  3577899999998888


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      ..+..++..+|++++|+|+++.........| ..+..   .++|.++++||+|+....  .......+....+.+++.
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~  150 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVP  150 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEE
Confidence            8888899999999999999876544333222 23333   378999999999987532  122334444455554443

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

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.68  E-value=5.7e-16  Score=125.87  Aligned_cols=160  Identities=19%  Similarity=0.264  Sum_probs=117.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCC-------------CCCcceeeEEE--EE-EECCeEEEEEEEecCChhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-------------KSTIGVEFATR--TL-QVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-------------~~t~~~~~~~~--~~-~~~~~~~~~~i~D~~G~~~   73 (217)
                      +..-++.|+-+..-|||||..+|+........             ....|++....  .+ ..++..+.++++|||||..
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvD  137 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVD  137 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCccc
Confidence            55679999999999999999999753321110             01222222222  22 2246778999999999999


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHHHcCCeEE
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAEKEGLSFL  152 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~  152 (217)
                      |.......+..+|++|+|+|++..-.-+.+..++..+..    +.-+|.|+||+|++..+... ..++.++......+++
T Consensus       138 Fs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i  213 (650)
T KOG0462|consen  138 FSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVI  213 (650)
T ss_pred             ccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceE
Confidence            999999999999999999999987666666555555443    67799999999997644221 2344555555556899


Q ss_pred             EecCCCCCCHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+||++|.|++++++.+++.+
T Consensus       214 ~vSAK~G~~v~~lL~AII~rV  234 (650)
T KOG0462|consen  214 YVSAKTGLNVEELLEAIIRRV  234 (650)
T ss_pred             EEEeccCccHHHHHHHHHhhC
Confidence            999999999999999999877

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.68  E-value=8e-16  Score=126.89  Aligned_cols=161  Identities=17%  Similarity=0.139  Sum_probs=102.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcc---ccCCC--CCcceeeEEEE------------E-EECC-------------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEF---CLESK--STIGVEFATRT------------L-QVEG-------------   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~---~~~~~--~t~~~~~~~~~------------~-~~~~-------------   58 (217)
                      .+.++|+++|+...|||||+.+|.+-..   .++..  .|....+....            + ....             
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            4668999999999999999999986422   11111  11111111100            0 0000             


Q ss_pred             ---eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           59 ---KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR-QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        59 ---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                         -...+.++|+|||+.|.......+..+|++++|+|+.+. ...+..+. +..+... . -.++++++||+|+.+...
T Consensus       112 ~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~eh-l~i~~~l-g-i~~iIVvlNKiDlv~~~~  188 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEH-LAAVEIM-K-LKHIIILQNKIDLVKEAQ  188 (460)
T ss_pred             cccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHH-HHHHHHc-C-CCcEEEEEecccccCHHH
Confidence               013678999999999988777788899999999999864 12222222 2222222 1 246889999999865322


Q ss_pred             c--CHHHHHHHHHH---cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          135 V--AAEDAQILAEK---EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       135 ~--~~~~~~~~~~~---~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .  ..+++..+...   .+++++++||++|.|++.+++.|.+.+
T Consensus       189 ~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        189 AQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            1  12233443332   357899999999999999988887644

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.68  E-value=6.5e-16  Score=133.27  Aligned_cols=152  Identities=23%  Similarity=0.204  Sum_probs=95.1

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccC-------------CC--------------------CCcceeeEEEEE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE-------------SK--------------------STIGVEFATRTL   54 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~-------------~~--------------------~t~~~~~~~~~~   54 (217)
                      +....++|+++|++++|||||+++|+...-...             ..                    ...+.+.....+
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            445668999999999999999999986432111             00                    011111222222


Q ss_pred             EECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           55 QVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        55 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      ..  ...++.++||||++.|.......+..+|++++|+|+......+..+ .+..+....  ..+++|++||+|+.+...
T Consensus       100 ~~--~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e-~~~~~~~~~--~~~iivvvNK~D~~~~~~  174 (632)
T PRK05506        100 AT--PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRR-HSFIASLLG--IRHVVLAVNKMDLVDYDQ  174 (632)
T ss_pred             cc--CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHH-HHHHHHHhC--CCeEEEEEEecccccchh
Confidence            22  3346779999999988766666788999999999997643222211 222222221  357889999999864111


Q ss_pred             c--C--HHHHHHHHHHcC---CeEEEecCCCCCCHHH
Q 042687          135 V--A--AEDAQILAEKEG---LSFLETSALEALNVEK  164 (217)
Q Consensus       135 ~--~--~~~~~~~~~~~~---~~~~~vSa~~~~gv~~  164 (217)
                      .  .  ..++..+....+   ++++++||++|.|+++
T Consensus       175 ~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        175 EVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            1  1  122333444444   4699999999999875

>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=99.68  E-value=2.7e-15  Score=102.19  Aligned_cols=106  Identities=20%  Similarity=0.247  Sum_probs=70.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh---------hccchhhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------YRAITSAYYR   83 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~   83 (217)
                      +|+|+|.+|+|||||+|+|.+.... ....+..+.......+.+++..+  .++||||...         ........+.
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 22222323333445556666554  5999999421         1112333448


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeC
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK  126 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  126 (217)
                      .+|++++|+|..++.. +....++..+.    .+.|+++|+||
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            9999999999877322 33344445553    38999999998

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 ....

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.67  E-value=1.8e-15  Score=119.55  Aligned_cols=81  Identities=20%  Similarity=0.266  Sum_probs=54.1

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEE---------------------ECC-eEEEEEEEecCCh-
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ---------------------VEG-KTVKAQIWDTAGQ-   71 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~---------------------~~~-~~~~~~i~D~~G~-   71 (217)
                      |+++|.++||||||+|+|++........+..+.+.......                     .++ ..+.+++||+||. 
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            58999999999999999998875432222222222211111                     122 3467999999996 


Q ss_pred             ---hhhccchhh---hhcCCcEEEEEEeCC
Q 042687           72 ---ERYRAITSA---YYRGAVGALLVYDIT   95 (217)
Q Consensus        72 ---~~~~~~~~~---~~~~~d~ii~v~d~~   95 (217)
                         +....+...   .+++||++++|+|++
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               334443333   489999999999997

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.67  E-value=1.7e-15  Score=125.24  Aligned_cols=152  Identities=16%  Similarity=0.118  Sum_probs=97.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcc--cc------------------------CC-C--CCcceeeEEEEEEECCeE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEF--CL------------------------ES-K--STIGVEFATRTLQVEGKT   60 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~--~~------------------------~~-~--~t~~~~~~~~~~~~~~~~   60 (217)
                      .+.++|+++|+.++|||||+.+|+...-  ..                        +. .  ...+.+.......+....
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~   84 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC
Confidence            3558999999999999999999875211  00                        00 0  111222222223344445


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhh---H---HHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccc-
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQT---F---DNVTRWLRELRDHADSNIV-IMMAGNKSDLNHL-  132 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~-  132 (217)
                      ..++|+|+|||..|.......+..+|++|+|+|+....-   +   ....+.+..+...   ++| ++|++||+|.... 
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~~iiv~vNKmD~~~~~  161 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVKQMIVCINKMDDKTVN  161 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCCeEEEEEEccccccch
Confidence            678899999999998888888999999999999986420   0   1222223333333   666 6789999995321 


Q ss_pred             ---ccc--CHHHHHHHHHHc-----CCeEEEecCCCCCCHHH
Q 042687          133 ---RAV--AAEDAQILAEKE-----GLSFLETSALEALNVEK  164 (217)
Q Consensus       133 ---~~~--~~~~~~~~~~~~-----~~~~~~vSa~~~~gv~~  164 (217)
                         ...  ...++..+....     .++++++|+.+|.|+.+
T Consensus       162 ~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        162 YSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence               111  123344444433     36799999999999864

>TIGR00503 prfC peptide chain release factor 3

Probab=99.67  E-value=2.7e-15  Score=126.09  Aligned_cols=117  Identities=19%  Similarity=0.205  Sum_probs=80.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC-ccccC-------------------CCCCcceeeEEEEEEECCeEEEEEEEecC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN-EFCLE-------------------SKSTIGVEFATRTLQVEGKTVKAQIWDTA   69 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~-~~~~~-------------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~   69 (217)
                      ....+|+|+|+.++|||||+++|+.. .....                   .....+.+.......++...+.+.+||||
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            45679999999999999999998531 11000                   00112333333344455556788899999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      |+..|.......+..+|++|+|+|+++... .....++.....   .++|+++++||+|+.
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~  145 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRD  145 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECcccc
Confidence            998888777778899999999999987422 122344443333   378999999999973

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.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.65  E-value=5.8e-15  Score=118.37  Aligned_cols=160  Identities=21%  Similarity=0.246  Sum_probs=118.1

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCcc---------------ccCCCCCcceeeEEEEEEE---CCeEEEEEEEecC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEF---------------CLESKSTIGVEFATRTLQV---EGKTVKAQIWDTA   69 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~---------------~~~~~~t~~~~~~~~~~~~---~~~~~~~~i~D~~   69 (217)
                      +.+..-+..|+-+-..|||||..||.....               +.+.....+..-....+.+   ++..+.++++|||
T Consensus         5 ~~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTP   84 (603)
T COG0481           5 PQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTP   84 (603)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCC
Confidence            344556889999999999999999865321               1222233333333344433   5688999999999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL  149 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  149 (217)
                      ||-.|.......+..|.++++|+|++..-.-+.+.+.+..+..    +..++-|+||+||+....  +.-..++..-.|+
T Consensus        85 GHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Adp--ervk~eIe~~iGi  158 (603)
T COG0481          85 GHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAADP--ERVKQEIEDIIGI  158 (603)
T ss_pred             CccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCCH--HHHHHHHHHHhCC
Confidence            9999988888889999999999999987666777676666654    677899999999976332  1223334444554


Q ss_pred             ---eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 ---SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 ---~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                         ..+.+||++|.|++++++.|++.+
T Consensus       159 d~~dav~~SAKtG~gI~~iLe~Iv~~i  185 (603)
T COG0481         159 DASDAVLVSAKTGIGIEDVLEAIVEKI  185 (603)
T ss_pred             CcchheeEecccCCCHHHHHHHHHhhC
Confidence               478999999999999999999876

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.65  E-value=9.7e-15  Score=108.56  Aligned_cols=158  Identities=18%  Similarity=0.171  Sum_probs=93.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCC--CCcceeeEEEEEEECCeEEEEEEEecCChhhhc--------cc---hh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESK--STIGVEFATRTLQVEGKTVKAQIWDTAGQERYR--------AI---TS   79 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~---~~   79 (217)
                      ++|+++|.+|||||||+|.+++........  +..+..........++  ..+.++||||.....        .+   ..
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            479999999999999999999876543321  1222233333333444  367799999943221        11   11


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCC--CCeEEEEEeCCCCcccccc------CHHHHHHHHHHcCCeE
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS--NIVIMMAGNKSDLNHLRAV------AAEDAQILAEKEGLSF  151 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~Dl~~~~~~------~~~~~~~~~~~~~~~~  151 (217)
                      .....+|++++|+++.+ .+... ...+..+......  -.++++++|+.|......+      .......+....+..+
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            22467899999999876 22111 2333444433221  2568888999986432211      1134556666666666


Q ss_pred             EEecC-----CCCCCHHHHHHHHHHHHH
Q 042687          152 LETSA-----LEALNVEKAFQTILLDIY  174 (217)
Q Consensus       152 ~~vSa-----~~~~gv~~~~~~l~~~~~  174 (217)
                      +..+.     ..+.++.++++.|.+.+.
T Consensus       157 ~~f~~~~~~~~~~~q~~~Ll~~i~~~~~  184 (196)
T cd01852         157 VAFNNKAKGEEQEQQVKELLAKVESMVK  184 (196)
T ss_pred             EEEeCCCCcchhHHHHHHHHHHHHHHHH
Confidence            55543     345667777766666553

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).

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.63  E-value=1.9e-15  Score=100.12  Aligned_cols=136  Identities=20%  Similarity=0.206  Sum_probs=96.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh----hhhccchhhhhcCCcEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ----ERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~ii   89 (217)
                      ||+++|..|+|||||.+++.+...  .+..|..+       .+++..    .+||||.    ..+..........+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAv-------e~~d~~----~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAV-------EFNDKG----DIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhccccee-------eccCcc----ccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            799999999999999999987653  22233222       222222    7899994    333333445568999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQT  168 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~~~~~  168 (217)
                      +|-.++++++.-.     ..+....  ..|+|-|++|.|+.+...  .+..+++..+-|. ++|++|+.++.|+++++++
T Consensus        70 ~v~~and~~s~f~-----p~f~~~~--~k~vIgvVTK~DLaed~d--I~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          70 YVHAANDPESRFP-----PGFLDIG--VKKVIGVVTKADLAEDAD--ISLVKRWLREAGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeecccCccccCC-----ccccccc--ccceEEEEecccccchHh--HHHHHHHHHHcCCcceEEEeccCcccHHHHHHH
Confidence            9999998765211     1111111  456888999999986332  4467788888886 6999999999999999998


Q ss_pred             HHH
Q 042687          169 ILL  171 (217)
Q Consensus       169 l~~  171 (217)
                      |..
T Consensus       141 L~~  143 (148)
T COG4917         141 LAS  143 (148)
T ss_pred             HHh
Confidence            865

>PRK12739 elongation factor G; Reviewed

Probab=99.63  E-value=1.2e-14  Score=126.47  Aligned_cols=116  Identities=19%  Similarity=0.138  Sum_probs=81.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCcccc------------------CCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCL------------------ESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      .+...+|+|+|+.++|||||+++|+...-..                  +.....+.+.....+..++  ..+.++||||
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG   82 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPG   82 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCC
Confidence            4566799999999999999999997421100                  0112233333344444444  5678999999


Q ss_pred             hhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           71 QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        71 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      +..+...+...+..+|++|+|+|+.+....+.. ..+..+...   ++|+++++||+|+.
T Consensus        83 ~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~~---~~p~iv~iNK~D~~  138 (691)
T PRK12739         83 HVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADKY---GVPRIVFVNKMDRI  138 (691)
T ss_pred             HHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHHc---CCCEEEEEECCCCC
Confidence            988888888889999999999999876433332 333333333   78999999999985

>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=99.63  E-value=4.9e-16  Score=112.24  Aligned_cols=116  Identities=24%  Similarity=0.321  Sum_probs=71.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccchhhh---hcCCcE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAY---YRGAVG   87 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~---~~~~d~   87 (217)
                      .-.|+|+|+.|+|||+|..+|..+........- .   ....+.+ ......+.++|+|||++.+......   ...+.+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e---~n~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~   78 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-E---NNIAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKG   78 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-S---EEEECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-c---CCceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCE
Confidence            357999999999999999999998543222211 1   1111222 1223357799999999887755444   789999


Q ss_pred             EEEEEeCCC-hhhHHHH-HHHHHHHHhhc--CCCCeEEEEEeCCCCcc
Q 042687           88 ALLVYDITK-RQTFDNV-TRWLRELRDHA--DSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        88 ii~v~d~~~-~~s~~~~-~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~  131 (217)
                      +|||+|.+. ...+..+ +.++..+....  ...+|++|+.||.|+..
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence            999999974 3344554 44444443332  46899999999999854

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.63  E-value=7.4e-15  Score=127.85  Aligned_cols=122  Identities=17%  Similarity=0.118  Sum_probs=85.1

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCcccc-----C-------------CCCCcceeeEEEEEEECCeEEEEEE
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL-----E-------------SKSTIGVEFATRTLQVEGKTVKAQI   65 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-----~-------------~~~t~~~~~~~~~~~~~~~~~~~~i   65 (217)
                      |...+.+...+|+|+|+.++|||||+++|....-..     .             .....+.+.....+..++  ..+.+
T Consensus         2 ~~~~~~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~l   79 (689)
T TIGR00484         2 ARTTDLNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINI   79 (689)
T ss_pred             CCcCccccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEE
Confidence            344556677899999999999999999996422111     0             011222233334444444  57889


Q ss_pred             EecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           66 WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        66 ~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |||||+..+...+...+..+|++|+|+|+.+....+.. .++..+...   ++|+++++||+|+..
T Consensus        80 iDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~---~~p~ivviNK~D~~~  141 (689)
T TIGR00484        80 IDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANRY---EVPRIAFVNKMDKTG  141 (689)
T ss_pred             EECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHHc---CCCEEEEEECCCCCC
Confidence            99999988877788889999999999999876544433 233333333   789999999999875

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.63  E-value=1.9e-14  Score=117.13  Aligned_cols=152  Identities=22%  Similarity=0.233  Sum_probs=108.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC--CCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK--STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ...-|-|+|+..-|||||+..|.+........  .|..+.-..+.+. .|  -.++|.|||||..|..|...-..-+|++
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G--~~iTFLDTPGHaAF~aMRaRGA~vtDIv  228 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SG--KSITFLDTPGHAAFSAMRARGANVTDIV  228 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CC--CEEEEecCCcHHHHHHHHhccCccccEE
Confidence            34578899999999999999998877654332  3444334444444 44  4678999999999999999989999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH-H------HHHcC--CeEEEecCCCC
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-L------AEKEG--LSFLETSALEA  159 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~------~~~~~--~~~~~vSa~~~  159 (217)
                      ++|+.+.|.--.+.    ...+......++|++|.+||+|.++..   .+...+ +      ...+|  +.++++||++|
T Consensus       229 VLVVAadDGVmpQT----~EaIkhAk~A~VpiVvAinKiDkp~a~---pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g  301 (683)
T KOG1145|consen  229 VLVVAADDGVMPQT----LEAIKHAKSANVPIVVAINKIDKPGAN---PEKVKRELLSQGIVVEDLGGDVQVIPISALTG  301 (683)
T ss_pred             EEEEEccCCccHhH----HHHHHHHHhcCCCEEEEEeccCCCCCC---HHHHHHHHHHcCccHHHcCCceeEEEeecccC
Confidence            99999987432222    222333334499999999999987532   222221 1      12333  56999999999


Q ss_pred             CCHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLD  172 (217)
Q Consensus       160 ~gv~~~~~~l~~~  172 (217)
                      .|++.+.+.+.-.
T Consensus       302 ~nl~~L~eaill~  314 (683)
T KOG1145|consen  302 ENLDLLEEAILLL  314 (683)
T ss_pred             CChHHHHHHHHHH
Confidence            9999988877653

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=1e-14  Score=115.48  Aligned_cols=155  Identities=22%  Similarity=0.208  Sum_probs=98.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc------------------------cccCCC-----CCcceeeEEEEEEECCeE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE------------------------FCLESK-----STIGVEFATRTLQVEGKT   60 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~------------------------~~~~~~-----~t~~~~~~~~~~~~~~~~   60 (217)
                      .+.++++++|+..+|||||+-+|+...                        ++..-+     ...+.+.......+....
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k   84 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK   84 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC
Confidence            345999999999999999999886431                        100001     112222333333333344


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhH-----HHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF-----DNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~-----~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      +.++|+|+|||..|......-+..||++|+|+|+.+.+.-     ....+....+..... -..++|++||+|..+-++.
T Consensus        85 ~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~wde~  163 (428)
T COG5256          85 YNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVSWDEE  163 (428)
T ss_pred             ceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccccCHH
Confidence            5788999999998888888888999999999999876311     111122222333332 3457889999999762222


Q ss_pred             CHHH----HHHHHHHcC-----CeEEEecCCCCCCHHHH
Q 042687          136 AAED----AQILAEKEG-----LSFLETSALEALNVEKA  165 (217)
Q Consensus       136 ~~~~----~~~~~~~~~-----~~~~~vSa~~~~gv~~~  165 (217)
                      ..++    +..+.+..|     ++|+++|+..|+|+.+.
T Consensus       164 rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         164 RFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            2222    333444444     56999999999998654

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.60  E-value=1.1e-14  Score=117.34  Aligned_cols=163  Identities=21%  Similarity=0.214  Sum_probs=105.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhhh-cc--------chhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY-RA--------ITSA   80 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~--------~~~~   80 (217)
                      ..++|+|+|+||||||||+|.|.+....... .+.++.+.....++++|.  .+.+.||+|..+. ..        -...
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~--~v~L~DTAGiRe~~~~~iE~~gI~rA~k  344 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGV--PVRLSDTAGIREESNDGIEALGIERARK  344 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCe--EEEEEeccccccccCChhHHHhHHHHHH
Confidence            4589999999999999999999998876443 355555666666777775  5569999995431 00        0133


Q ss_pred             hhcCCcEEEEEEeC--CChhhHHHHHHHHHHHHhhcC------CCCeEEEEEeCCCCccc-cccCHHHHHHHHHHcC---
Q 042687           81 YYRGAVGALLVYDI--TKRQTFDNVTRWLRELRDHAD------SNIVIMMAGNKSDLNHL-RAVAAEDAQILAEKEG---  148 (217)
Q Consensus        81 ~~~~~d~ii~v~d~--~~~~s~~~~~~~~~~i~~~~~------~~~p~ivv~nK~Dl~~~-~~~~~~~~~~~~~~~~---  148 (217)
                      .+..+|++++|+|+  ++-++...+.+.+.....-..      ...|++++.||.|+... .+..-.-.. +....+   
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            46789999999999  333333333333333322221      24789999999998653 111111111 111121   


Q ss_pred             C-eEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          149 L-SFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       149 ~-~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      . .+.++|++++.|++.+...+.+.+...
T Consensus       424 ~~i~~~vs~~tkeg~~~L~~all~~~~~~  452 (531)
T KOG1191|consen  424 FPIVVEVSCTTKEGCERLSTALLNIVERL  452 (531)
T ss_pred             cceEEEeeechhhhHHHHHHHHHHHHHHh
Confidence            2 355699999999999999998866543

>PRK09866 hypothetical protein; Provisional

Probab=99.59  E-value=1.2e-13  Score=115.55  Aligned_cols=108  Identities=15%  Similarity=0.165  Sum_probs=71.5

Q ss_pred             EEEEEecCChhh-----hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC
Q 042687           62 KAQIWDTAGQER-----YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA  136 (217)
Q Consensus        62 ~~~i~D~~G~~~-----~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~  136 (217)
                      .+.++||||...     ........+..+|+++||+|+.+..+..+ ...+..+.... ...|+++|+||+|+.+.....
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            367899999532     22234457899999999999987433332 22334444332 136999999999985433222


Q ss_pred             HHHHHHHHH----HcC---CeEEEecCCCCCCHHHHHHHHHH
Q 042687          137 AEDAQILAE----KEG---LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       137 ~~~~~~~~~----~~~---~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .+.+..+..    ..+   ..+|++||+.|.|++++++.|..
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            344444432    222   35999999999999999999877

>PRK00007 elongation factor G; Reviewed

Probab=99.58  E-value=4e-14  Score=123.24  Aligned_cols=146  Identities=17%  Similarity=0.114  Sum_probs=92.9

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCcccc------------------CCCCCcceeeEEEEEEECCeEEEEEEEe
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL------------------ESKSTIGVEFATRTLQVEGKTVKAQIWD   67 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~~~i~D   67 (217)
                      ..+.+...+|+|+|+.++|||||+++|+...-..                  +.....+.+.....+...+  ..++++|
T Consensus         4 ~~~~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liD   81 (693)
T PRK00007          4 ETPLERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIID   81 (693)
T ss_pred             cCcccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEe
Confidence            3455667899999999999999999997411100                  0112223333333344444  5778999


Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE  147 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~  147 (217)
                      |||+..|.......+..+|++|+|+|+......+... .+..+...   ++|+++++||+|+....  ......++...+
T Consensus        82 TPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~~---~~p~iv~vNK~D~~~~~--~~~~~~~i~~~l  155 (693)
T PRK00007         82 TPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADKY---KVPRIAFVNKMDRTGAD--FYRVVEQIKDRL  155 (693)
T ss_pred             CCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHHc---CCCEEEEEECCCCCCCC--HHHHHHHHHHHh
Confidence            9999887766777889999999999987654434332 23333333   78999999999987533  122233333333


Q ss_pred             CC----eEEEecCCCC
Q 042687          148 GL----SFLETSALEA  159 (217)
Q Consensus       148 ~~----~~~~vSa~~~  159 (217)
                      +.    ..+++|+..+
T Consensus       156 ~~~~~~~~ipisa~~~  171 (693)
T PRK00007        156 GANPVPIQLPIGAEDD  171 (693)
T ss_pred             CCCeeeEEecCccCCc
Confidence            32    3455666554

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.58  E-value=1e-13  Score=112.76  Aligned_cols=83  Identities=19%  Similarity=0.293  Sum_probs=55.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEE---------------------EC-CeEEEEEEEecCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ---------------------VE-GKTVKAQIWDTAG   70 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~---------------------~~-~~~~~~~i~D~~G   70 (217)
                      ++|+|+|.+|||||||+|+|.+........+..+.+.......                     .+ .....+++||+||
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            6899999999999999999998876532222222222221111                     11 2346789999999


Q ss_pred             h----hhhccchhhh---hcCCcEEEEEEeCC
Q 042687           71 Q----ERYRAITSAY---YRGAVGALLVYDIT   95 (217)
Q Consensus        71 ~----~~~~~~~~~~---~~~~d~ii~v~d~~   95 (217)
                      .    .....+...+   ++++|++++|+|+.
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    2223333344   78999999999996

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.57  E-value=9.5e-14  Score=106.71  Aligned_cols=163  Identities=17%  Similarity=0.329  Sum_probs=120.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE--CCeEEEEEEEecCChhhhccchhhhhcCC---
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV--EGKTVKAQIWDTAGQERYRAITSAYYRGA---   85 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~---   85 (217)
                      ..-+|+|+|..++|||||+.+|.+..   .+.+..+..+.+..+.-  .+...++.+|-..|...+..+.+..+...   
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~a  127 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLA  127 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCcc
Confidence            44689999999999999999997754   34444455555544432  33445788999999887777777665433   


Q ss_pred             -cEEEEEEeCCChh-hHHHHHHHHHHHHhhcCC-----------------------------------------------
Q 042687           86 -VGALLVYDITKRQ-TFDNVTRWLRELRDHADS-----------------------------------------------  116 (217)
Q Consensus        86 -d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~-----------------------------------------------  116 (217)
                       -++|++.|.+++. -++.+.+|...+.++.+.                                               
T Consensus       128 etlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~  207 (473)
T KOG3905|consen  128 ETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEH  207 (473)
T ss_pred             ceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccc
Confidence             3678889999984 566678888776444321                                               


Q ss_pred             --------------CCeEEEEEeCCCCc----cccc-------cCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          117 --------------NIVIMMAGNKSDLN----HLRA-------VAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       117 --------------~~p~ivv~nK~Dl~----~~~~-------~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                                    ++|++||.+|+|..    .+.+       .....++.||..+|..+|.+|+++..|++-+..+|.+
T Consensus       208 ~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivh  287 (473)
T KOG3905|consen  208 VLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVH  287 (473)
T ss_pred             cccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHH
Confidence                          48899999999972    1111       1124578899999999999999999999999999998


Q ss_pred             HHHHH
Q 042687          172 DIYHI  176 (217)
Q Consensus       172 ~~~~~  176 (217)
                      .++-.
T Consensus       288 r~yG~  292 (473)
T KOG3905|consen  288 RSYGF  292 (473)
T ss_pred             HhcCc
Confidence            77643

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.56  E-value=4.4e-14  Score=113.99  Aligned_cols=171  Identities=17%  Similarity=0.162  Sum_probs=119.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----hhccchh-----hh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----RYRAITS-----AY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~-----~~   81 (217)
                      ..-.++|+|.++||||||++.+........+.+.++.......+.  ......+++||||.-    +-+...+     ..
T Consensus       167 ~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~d--ykYlrwQViDTPGILD~plEdrN~IEmqsITAL  244 (620)
T KOG1490|consen  167 NTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLD--YKYLRWQVIDTPGILDRPEEDRNIIEMQIITAL  244 (620)
T ss_pred             CcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhh--hheeeeeecCCccccCcchhhhhHHHHHHHHHH
Confidence            446899999999999999999998887766555544444443333  334567899999921    1111111     11


Q ss_pred             hcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHH---HHHHHHHcCCeEEEecC
Q 042687           82 YRGAVGALLVYDITKR--QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAED---AQILAEKEGLSFLETSA  156 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~vSa  156 (217)
                      .+--.+++++.|++..  .|...-..+++.+..... +.|+|+|+||+|+.....+..+.   +..+...-+++++++|+
T Consensus       245 AHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-NK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~  323 (620)
T KOG1490|consen  245 AHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-NKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSC  323 (620)
T ss_pred             HHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhc-CCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecc
Confidence            2233568889999864  466666777888877776 89999999999997766665433   33444455589999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 042687          157 LEALNVEKAFQTILLDIYHIISKKALAA  184 (217)
Q Consensus       157 ~~~~gv~~~~~~l~~~~~~~~~~~~~~~  184 (217)
                      .+..|+-++-....+.++...-....+.
T Consensus       324 ~~eegVm~Vrt~ACe~LLa~RVE~Klks  351 (620)
T KOG1490|consen  324 VQEEGVMDVRTTACEALLAARVEQKLKS  351 (620)
T ss_pred             cchhceeeHHHHHHHHHHHHHHHHHhhh
Confidence            9999999998888887776655544443

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.55  E-value=7.6e-14  Score=101.14  Aligned_cols=154  Identities=18%  Similarity=0.235  Sum_probs=100.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc---CCcEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR---GAVGAL   89 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~ii   89 (217)
                      -.|+++|+.+||||+|.-+|..+.+....   +........+.++..  .++++|.|||++.+.-...++.   .+-++|
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv---tSiepn~a~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTV---TSIEPNEATYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCee---eeeccceeeEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            57999999999999999999888542222   122222333334333  3679999999998888877877   799999


Q ss_pred             EEEeCCC-hhhHHHH-HHHHHHHHhh--cCCCCeEEEEEeCCCCccc--c----ccCHHHHH------------------
Q 042687           90 LVYDITK-RQTFDNV-TRWLRELRDH--ADSNIVIMMAGNKSDLNHL--R----AVAAEDAQ------------------  141 (217)
Q Consensus        90 ~v~d~~~-~~s~~~~-~~~~~~i~~~--~~~~~p~ivv~nK~Dl~~~--~----~~~~~~~~------------------  141 (217)
                      ||+|..- .....++ +.++..+...  ....+|++|+-||.|+.-.  .    ..-+.|+.                  
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~  193 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIA  193 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccccc
Confidence            9999753 2223333 4455544444  3568999999999998311  0    00011111                  


Q ss_pred             ----------H--HHH--HcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          142 ----------I--LAE--KEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       142 ----------~--~~~--~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                                .  |..  ...+.+.+.|++++ +++++-+||.+.
T Consensus       194 ~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  194 KDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             ccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                      0  111  12355788899988 899999999774

>PRK12740 elongation factor G; Reviewed

Probab=99.54  E-value=1.7e-13  Score=119.28  Aligned_cols=107  Identities=21%  Similarity=0.255  Sum_probs=73.8

Q ss_pred             EcCCCCCHHHHHhHHhcCccccC------------------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchh
Q 042687           18 IGDSGVGKSNILSRFTRNEFCLE------------------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITS   79 (217)
Q Consensus        18 ~G~~~~GKstLi~~l~~~~~~~~------------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   79 (217)
                      +|+.++|||||+++|....-...                  .....+.......+...+  +.+.+|||||+..+...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            69999999999999954321100                  011222223333344444  6788999999988877788


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ..+..+|++++|+|+++.........| ..+..   .++|+++++||+|+.
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            889999999999999886554443333 33333   378999999999974

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.50  E-value=1.1e-13  Score=120.86  Aligned_cols=117  Identities=18%  Similarity=0.184  Sum_probs=80.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc---------------cccC---CCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE---------------FCLE---SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~---------------~~~~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      +...+|+|+|+.++|||||+++|+...               +...   +..|.........+.+++..+.+.+|||||+
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            456899999999999999999997531               1000   1122222222233345667788999999999


Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ..|.......+..+|++|+|+|+.+....+....| .....   .+.|.++++||+|..
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~~---~~~p~ivviNKiD~~  151 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQALK---ENVKPVLFINKVDRL  151 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHHH---cCCCEEEEEEChhcc
Confidence            98887788889999999999999774332322222 22222   267888999999985

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.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.50  E-value=4.9e-13  Score=103.86  Aligned_cols=150  Identities=27%  Similarity=0.251  Sum_probs=101.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc---------------------------------cCCCCCcceeeEEEEEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC---------------------------------LESKSTIGVEFATRTLQ   55 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~---------------------------------~~~~~t~~~~~~~~~~~   55 (217)
                      ....+|++.+|...=||||||-||+.+...                                 .+....++++..+..+.
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            345699999999999999999998764211                                 00111223333333333


Q ss_pred             ECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           56 VEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        56 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.  .+|.+-|||||+.|...+-.-...||++|+++|+...  ...-.+-...+..... -..+++.+||+||.+-.+.
T Consensus        83 T~K--RkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G--vl~QTrRHs~I~sLLG-IrhvvvAVNKmDLvdy~e~  157 (431)
T COG2895          83 TEK--RKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG--VLEQTRRHSFIASLLG-IRHVVVAVNKMDLVDYSEE  157 (431)
T ss_pred             ccc--ceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh--hHHHhHHHHHHHHHhC-CcEEEEEEeeecccccCHH
Confidence            333  4678999999999999888888999999999999432  2222222233444433 4568889999999764433


Q ss_pred             CHH----HHHHHHHHcCC---eEEEecCCCCCCHH
Q 042687          136 AAE----DAQILAEKEGL---SFLETSALEALNVE  163 (217)
Q Consensus       136 ~~~----~~~~~~~~~~~---~~~~vSa~~~~gv~  163 (217)
                      ..+    +-..|+..+++   .++++||..|+|+-
T Consensus       158 ~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         158 VFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            232    34567777775   58999999999974

>PTZ00258 GTP-binding protein; Provisional

Probab=99.48  E-value=8.9e-13  Score=106.30  Aligned_cols=86  Identities=19%  Similarity=0.188  Sum_probs=58.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhh-
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQER-   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-   73 (217)
                      ...++|+|+|.||||||||+|+|.+........+..+.+.....+.+.+.               ...+.++|+||... 
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            45589999999999999999999887655444444444444444444322               23478999999421 


Q ss_pred             ------hccchhhhhcCCcEEEEEEeCC
Q 042687           74 ------YRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        74 ------~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                            ........++.+|++++|+|+.
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                  1112334567899999999973

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.48  E-value=1.4e-12  Score=116.05  Aligned_cols=143  Identities=17%  Similarity=0.182  Sum_probs=91.1

Q ss_pred             CHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe-----------EE-----EEEEEecCChhhhccchhhhhcCCcE
Q 042687           24 GKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-----------TV-----KAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus        24 GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-----------~~-----~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +||||+.++.+......-....+-......+..+..           ..     .+.+|||||++.|..+....+..+|+
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            499999999887665433222222222222222210           01     27899999999998888888889999


Q ss_pred             EEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC----------------HHHHH----HH-
Q 042687           88 ALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA----------------AEDAQ----IL-  143 (217)
Q Consensus        88 ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~----------------~~~~~----~~-  143 (217)
                      +++|+|+++   +++++.+.    .+...   ++|+++++||+|+...+...                ..+..    .+ 
T Consensus       553 vlLVVDa~~Gi~~qT~e~I~----~lk~~---~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v~  625 (1049)
T PRK14845        553 AVLVVDINEGFKPQTIEAIN----ILRQY---KTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYELI  625 (1049)
T ss_pred             EEEEEECcccCCHhHHHHHH----HHHHc---CCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHHh
Confidence            999999987   34444332    22222   78999999999985422210                01110    01 


Q ss_pred             --HHH---------------cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          144 --AEK---------------EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       144 --~~~---------------~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                        ...               ..++++++||++|.|+++++.+|....
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              011               136899999999999999998876543

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.48  E-value=6.8e-13  Score=91.06  Aligned_cols=114  Identities=34%  Similarity=0.428  Sum_probs=82.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      +||+++|..|+|||+|+.++....+...+. ++.+                           +......+.+.++.+++|
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            589999999999999999998777754443 3332                           222334567788999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      |+..+.++++.+  |...+......+.|.++++||.|+.........+.        ..++++|++++.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~--------~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEG--------LEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHH--------HHHHHHhCCCcchhh
Confidence            999999988765  77766655555788999999999854333333222        245567888888874

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.48  E-value=2.4e-13  Score=104.36  Aligned_cols=162  Identities=18%  Similarity=0.121  Sum_probs=108.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcc---ccCCCCCcceeeEE------------------EEEEEC------CeEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEF---CLESKSTIGVEFAT------------------RTLQVE------GKTVK   62 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~---~~~~~~t~~~~~~~------------------~~~~~~------~~~~~   62 (217)
                      .+.++|.++|+..-|||||..+|.+-.-   +++.....+....+                  ..-.+.      .-..+
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            5679999999999999999999976321   11111111110000                  000011      12346


Q ss_pred             EEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc--ccCHHHH
Q 042687           63 AQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR--AVAAEDA  140 (217)
Q Consensus        63 ~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~~~  140 (217)
                      +.|+|.|||+-.-+.+.+-..-.|++++|+.++.+..--...+.+..+.-..  -..++++-||+|+....  ..+.+++
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIig--ik~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIG--IKNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhc--cceEEEEecccceecHHHHHHHHHHH
Confidence            8899999999777666666677899999999987643333333333333332  35588999999996532  2345667


Q ss_pred             HHHHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          141 QILAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       141 ~~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+|.+..   +.|++++||..+.|++-++++|.+.+
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~I  201 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYI  201 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhC
Confidence            7777643   57999999999999999999998766

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.47  E-value=1.7e-12  Score=106.67  Aligned_cols=166  Identities=18%  Similarity=0.249  Sum_probs=121.4

Q ss_pred             CCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhh
Q 042687            3 YKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYY   82 (217)
Q Consensus         3 ~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   82 (217)
                      +.+.......+++.++|+.++|||.|++.+.+..+...+..+....+....+...+....+.+.|.+-.+ ...+.... 
T Consensus       416 ~~~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~~-~~~l~~ke-  493 (625)
T KOG1707|consen  416 RKKKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGEDD-QDFLTSKE-  493 (625)
T ss_pred             hccccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCccc-cccccCcc-
Confidence            4455666788999999999999999999999999888666666666666666666766677788877542 22222222 


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe-EEEecCCCCCC
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS-FLETSALEALN  161 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~vSa~~~~g  161 (217)
                      ..+|++.++||.+++.++......++.-...  ...|+++|++|+|+++..+.....-.+++.+++++ .+..|.+..-.
T Consensus       494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s  571 (625)
T KOG1707|consen  494 AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS  571 (625)
T ss_pred             ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC
Confidence            7899999999999999999886665544333  48999999999999765433333348899999974 55566664223


Q ss_pred             HHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDI  173 (217)
Q Consensus       162 v~~~~~~l~~~~  173 (217)
                       .++|..|..+.
T Consensus       572 -~~lf~kL~~~A  582 (625)
T KOG1707|consen  572 -NELFIKLATMA  582 (625)
T ss_pred             -chHHHHHHHhh
Confidence             78888887765

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.47  E-value=2.8e-13  Score=103.79  Aligned_cols=96  Identities=19%  Similarity=0.200  Sum_probs=78.3

Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS  150 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  150 (217)
                      +++..+.+.++.++|++++|||+.++. ++..+.+|+..+..   .++|+++|+||+||.+.+....+....+. ..+++
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---QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCe
Confidence            567777888999999999999999887 89999999876654   38999999999999654443333444443 57889


Q ss_pred             EEEecCCCCCCHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ++++||++|.|++++|+.+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999998863

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.46  E-value=1.6e-12  Score=99.63  Aligned_cols=120  Identities=18%  Similarity=0.207  Sum_probs=71.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC-CcceeeEEEEEEECCeEEEEEEEecCChhhhc----------cc
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS-TIGVEFATRTLQVEGKTVKAQIWDTAGQERYR----------AI   77 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----------~~   77 (217)
                      ....++|+|+|.+|||||||+|+|.+......... ..+..........++  ..+.+|||||.....          ..
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~~  105 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKILSS  105 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHHHH
Confidence            44669999999999999999999999765433221 222222222223344  567899999954321          00


Q ss_pred             hhhhhc--CCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCC--CCeEEEEEeCCCCcc
Q 042687           78 TSAYYR--GAVGALLVYDITKRQ-TFDNVTRWLRELRDHADS--NIVIMMAGNKSDLNH  131 (217)
Q Consensus        78 ~~~~~~--~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~Dl~~  131 (217)
                      ...++.  ..|++++|..++... ... -..++..+....+.  -.++++|.||+|...
T Consensus       106 I~~~l~~~~idvIL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         106 IKRYLKKKTPDVVLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             HHHHHhccCCCEEEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence            122332  578888887665321 111 12334444443321  256999999999743

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.

>PRK13768 GTPase; Provisional

Probab=99.44  E-value=1.6e-12  Score=100.15  Aligned_cols=111  Identities=16%  Similarity=0.104  Sum_probs=69.0

Q ss_pred             EEEEEecCChhhh---ccchhhhhc---C--CcEEEEEEeCCChhhHHHH--HHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           62 KAQIWDTAGQERY---RAITSAYYR---G--AVGALLVYDITKRQTFDNV--TRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        62 ~~~i~D~~G~~~~---~~~~~~~~~---~--~d~ii~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      .+.+||+||+.+.   +..+..+++   .  ++++++++|+.........  ..|+...... ..++|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            4789999997542   333333322   2  8999999999654332222  2222222211 23899999999999865


Q ss_pred             ccccCH--HHHH------------------------HHHHHcC--CeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          132 LRAVAA--EDAQ------------------------ILAEKEG--LSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       132 ~~~~~~--~~~~------------------------~~~~~~~--~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ..+...  ....                        +.....+  .+++++|+.++.|+++++++|.+.+
T Consensus       177 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        177 EEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             chhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            322110  0000                        1122333  5789999999999999999998765

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.44  E-value=4.5e-12  Score=104.68  Aligned_cols=163  Identities=21%  Similarity=0.377  Sum_probs=113.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC--CeEEEEEEEecCChhhhccchhhhhcC----
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE--GKTVKAQIWDTAGQERYRAITSAYYRG----   84 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~----   84 (217)
                      ..-.|+|+|..++|||||+.+|.+..   .+.++.+.+|.+..+.-+  +...++.+|-..|...+..+.+..+..    
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~  100 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLP  100 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCccccc
Confidence            44689999999999999999987543   344566666666554322  234568999998876666666554432    


Q ss_pred             CcEEEEEEeCCChhh-HHHHHHHHHHHHhhcC------------------------------------------------
Q 042687           85 AVGALLVYDITKRQT-FDNVTRWLRELRDHAD------------------------------------------------  115 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~------------------------------------------------  115 (217)
                      --++|+|.|.+.|.. ++.+.+|+..+..+..                                                
T Consensus       101 ~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~  180 (472)
T PF05783_consen  101 NTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDE  180 (472)
T ss_pred             ceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccc
Confidence            137888999999864 3345555554411100                                                


Q ss_pred             --------------CCCeEEEEEeCCCCcc----cccc-------CHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687          116 --------------SNIVIMMAGNKSDLNH----LRAV-------AAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus       116 --------------~~~p~ivv~nK~Dl~~----~~~~-------~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                                    .++|++||.+|+|...    ....       ...-++.+|..+|+.+|.+|++...+++-+..+|.
T Consensus       181 ~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~  260 (472)
T PF05783_consen  181 SVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYIL  260 (472)
T ss_pred             cccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHH
Confidence                          1489999999999632    1111       12236788889999999999999999999999988


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.++..
T Consensus       261 h~l~~~  266 (472)
T PF05783_consen  261 HRLYGF  266 (472)
T ss_pred             HHhccC
Confidence            877654

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 [].

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.44  E-value=1.6e-12  Score=97.93  Aligned_cols=116  Identities=13%  Similarity=0.107  Sum_probs=69.5

Q ss_pred             EEEEEEecCChh-hhccchhh-----hhc--CCcEEEEEEeCCChhhH-HHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           61 VKAQIWDTAGQE-RYRAITSA-----YYR--GAVGALLVYDITKRQTF-DNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        61 ~~~~i~D~~G~~-~~~~~~~~-----~~~--~~d~ii~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      ....++||||+- .|.+....     .+.  ..-++++++|.....+. ..+..++..-.-.+....|+|++.||+|+.+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv~d  195 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDVSD  195 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEecccccc
Confidence            346799999963 33332211     122  23466777776543332 2334555444445556999999999999854


Q ss_pred             cc-----ccCHH---H-------------HHHHHH-----HcCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          132 LR-----AVAAE---D-------------AQILAE-----KEGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       132 ~~-----~~~~~---~-------------~~~~~~-----~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      ..     ....+   +             ...++.     ..++..+.||+.+|.|.+++|..+-+.+.+-
T Consensus       196 ~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  196 SEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            21     10000   0             111111     1246789999999999999999988866554

>TIGR00101 ureG urease accessory protein UreG

Probab=99.43  E-value=4.4e-12  Score=94.21  Aligned_cols=101  Identities=13%  Similarity=0.057  Sum_probs=62.7

Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ  141 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  141 (217)
                      ...++++.|..-..... .  .-+|.+|.|+|+.+.++...  .+...+      ...-++++||+|+.+......+...
T Consensus        93 D~iiIEt~G~~l~~~~~-~--~l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~~  161 (199)
T TIGR00101        93 EMVFIESGGDNLSATFS-P--ELADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVME  161 (199)
T ss_pred             CEEEEECCCCCcccccc-h--hhhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHHH
Confidence            45577887742222221 1  12688999999987555321  111222      1112789999999753222233334


Q ss_pred             HHHHH--cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          142 ILAEK--EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       142 ~~~~~--~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +..+.  .+.+++++||++|.|++++|+||.+.+
T Consensus       162 ~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       162 RDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            44443  357899999999999999999998754

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=99.42  E-value=4.3e-12  Score=98.85  Aligned_cols=121  Identities=16%  Similarity=0.130  Sum_probs=69.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-------chhh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-------ITSA   80 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~   80 (217)
                      ....++|+|+|.+|+||||++|+|++........ .+.+..........++  .++.++||||......       ....
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik~  112 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNIIKR  112 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHHHH
Confidence            3467999999999999999999999876532221 1112222122223344  5788999999542211       1122


Q ss_pred             hh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCcc
Q 042687           81 YY--RGAVGALLVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNH  131 (217)
Q Consensus        81 ~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~  131 (217)
                      ++  ...|++++|..++.....+.-..++..+....+  --.+++|++|+.|...
T Consensus       113 ~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~  167 (313)
T TIGR00991       113 FLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSP  167 (313)
T ss_pred             HhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCC
Confidence            22  268999999665421111111223333333321  1246899999999653

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.42  E-value=1.2e-12  Score=116.09  Aligned_cols=118  Identities=19%  Similarity=0.203  Sum_probs=80.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccC----------------CCCCcceeeEEEEEEE--------------CC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE----------------SKSTIGVEFATRTLQV--------------EG   58 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~----------------~~~t~~~~~~~~~~~~--------------~~   58 (217)
                      .+...+|+|+|+.++|||||+.+|+...-...                .....+.......+..              ++
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            45667999999999999999999975432100                0011111111112222              12


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ..+.++++|||||..|.......+..+|++|+|+|+.+.-.......| ..+..   .++|+++++||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~-~~~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVL-RQALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHH-HHHHH---CCCCEEEEEECCccc
Confidence            356788999999999988888889999999999999876544443333 23333   278999999999986

>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=99.42  E-value=5.4e-12  Score=94.86  Aligned_cols=142  Identities=20%  Similarity=0.189  Sum_probs=78.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCC--CCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccch----h
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESK--STIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAIT----S   79 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~----~   79 (217)
                      ++|+|+|..||||||++|.+++........  ...+..........++.  .+.++||||...       .....    .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~--~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGR--QVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTE--EEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecce--EEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            589999999999999999999987654432  22223344444466775  467999999211       11111    1


Q ss_pred             hhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc----C---HHHHHHHHHHcCCeE
Q 042687           80 AYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV----A---AEDAQILAEKEGLSF  151 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~----~---~~~~~~~~~~~~~~~  151 (217)
                      ....+.+++++|+.+.... ....+.+++..+....- -..++||.|..|......+    .   ...+..+....+-.+
T Consensus        79 ~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~~-~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~  157 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEEI-WKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGRY  157 (212)
T ss_dssp             HTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGGG-GGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCE
T ss_pred             hccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHHH-HhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCEE
Confidence            2346789999999987321 11222222332222111 2347888888876443321    1   122456677778788


Q ss_pred             EEecCC
Q 042687          152 LETSAL  157 (217)
Q Consensus       152 ~~vSa~  157 (217)
                      +..+..
T Consensus       158 ~~f~n~  163 (212)
T PF04548_consen  158 HVFNNK  163 (212)
T ss_dssp             EECCTT
T ss_pred             EEEecc
Confidence            877665

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 ....

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.42  E-value=4.5e-12  Score=111.15  Aligned_cols=118  Identities=18%  Similarity=0.162  Sum_probs=78.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCC-----------C-----CCcceeeE--EEEEEECCeEEEEEEEecCC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-----------K-----STIGVEFA--TRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-----------~-----~t~~~~~~--~~~~~~~~~~~~~~i~D~~G   70 (217)
                      .+...+|+|+|+.++|||||+.+|+...-....           .     ...+....  ...+..++....++++||||
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            345568999999999999999999753211100           0     00111111  11222344467788999999


Q ss_pred             hhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           71 QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        71 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      +..|.......+..+|++|+|+|+...........|. .....   +.|.++++||+|+.
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~-~~~~~---~~~~iv~iNK~D~~  152 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLR-QALRE---RVKPVLFINKVDRL  152 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHH-HHHHc---CCCeEEEEECchhh
Confidence            9988888888899999999999987754333323332 22222   56789999999975

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.41  E-value=1.6e-11  Score=98.33  Aligned_cols=142  Identities=21%  Similarity=0.211  Sum_probs=87.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC----ccc------------cCC--C---CCcceee---EEEEEE-ECCeEEEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN----EFC------------LES--K---STIGVEF---ATRTLQ-VEGKTVKAQI   65 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~----~~~------------~~~--~---~t~~~~~---~~~~~~-~~~~~~~~~i   65 (217)
                      ..+.|+|+|+.++|||||+|+|.+.    ...            +..  .   .|+.-.+   ....+. .++....+.+
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            4689999999999999999999987    322            111  1   1111111   112222 2455667889


Q ss_pred             EecCChhh--------hcc---------------------chhhhhc-CCcEEEEEE-eCC----ChhhHHH-HHHHHHH
Q 042687           66 WDTAGQER--------YRA---------------------ITSAYYR-GAVGALLVY-DIT----KRQTFDN-VTRWLRE  109 (217)
Q Consensus        66 ~D~~G~~~--------~~~---------------------~~~~~~~-~~d~ii~v~-d~~----~~~s~~~-~~~~~~~  109 (217)
                      +||+|-..        ...                     -....+. .+|+.|+|. |.+    .++.+.. -++++..
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            99999210        000                     0223345 899999998 764    1122222 2566666


Q ss_pred             HHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCC
Q 042687          110 LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL  157 (217)
Q Consensus       110 i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~  157 (217)
                      +++.   ++|+++++|+.|.....  ..+....+...++++++.+|+.
T Consensus       176 Lk~~---~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~  218 (492)
T TIGR02836       176 LKEL---NKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVE  218 (492)
T ss_pred             HHhc---CCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHH
Confidence            7666   99999999999943222  2333456667778888888754

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.

>PTZ00416 elongation factor 2; Provisional

Probab=99.39  E-value=2.3e-12  Score=114.13  Aligned_cols=118  Identities=19%  Similarity=0.200  Sum_probs=79.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccC----------------CCCCcceeeEEEEEEEC--------CeEEEEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE----------------SKSTIGVEFATRTLQVE--------GKTVKAQ   64 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~----------------~~~t~~~~~~~~~~~~~--------~~~~~~~   64 (217)
                      .+...+|+|+|+.++|||||+++|+.......                .....+.......+.+.        +....+.
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            45567999999999999999999976321110                00011111111122222        2256788


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ++||||+..|.......+..+|++|+|+|+.+.-..... ..+..+...   ++|+++++||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~~---~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQE---RIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHHc---CCCEEEEEEChhhh
Confidence            999999998888888889999999999999875433332 233333333   78999999999986

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.39  E-value=3.4e-12  Score=107.33  Aligned_cols=163  Identities=20%  Similarity=0.200  Sum_probs=107.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCC----cceeeEEEE--------EEECCe-EE---EEEEEecCChhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKST----IGVEFATRT--------LQVEGK-TV---KAQIWDTAGQERYR   75 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t----~~~~~~~~~--------~~~~~~-~~---~~~i~D~~G~~~~~   75 (217)
                      .+-|+|+|+..+|||-|+..+.+..+......+    ++.++.+..        +.-++. .+   -+.++|||||+.|.
T Consensus       475 SPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFt  554 (1064)
T KOG1144|consen  475 SPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFT  554 (1064)
T ss_pred             CceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhh
Confidence            367999999999999999999875543322222    122222211        000010 01   25699999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC----------------
Q 042687           76 AITSAYYRGAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA----------------  136 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~----------------  136 (217)
                      .+.......||.+|+|+|+.+   +++++.+    +.++.   .+.|+||++||+|..-.+...                
T Consensus       555 nlRsrgsslC~~aIlvvdImhGlepqtiESi----~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v  627 (1064)
T KOG1144|consen  555 NLRSRGSSLCDLAILVVDIMHGLEPQTIESI----NLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDV  627 (1064)
T ss_pred             hhhhccccccceEEEEeehhccCCcchhHHH----HHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHH
Confidence            999999999999999999975   3444432    33333   389999999999973211000                


Q ss_pred             --------HHHHHHHHH-HcC-------------CeEEEecCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 042687          137 --------AEDAQILAE-KEG-------------LSFLETSALEALNVEKAFQTILLDIYHIISKKA  181 (217)
Q Consensus       137 --------~~~~~~~~~-~~~-------------~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~~~~  181 (217)
                              ...+.+|+. .++             +.++++||.+|+|+.+++.+|++.....+..+.
T Consensus       628 ~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl  694 (1064)
T KOG1144|consen  628 QNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKL  694 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHH
Confidence                    001122221 111             347899999999999999999998887777655

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.39  E-value=7.4e-12  Score=99.25  Aligned_cols=107  Identities=17%  Similarity=0.098  Sum_probs=68.9

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAE  138 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~  138 (217)
                      +.+.++||+|...-..   .....+|.++++.+....+.+..+..   .+.     ...-++|+||+|+......  ...
T Consensus       149 ~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k~---gi~-----E~aDIiVVNKaDl~~~~~a~~~~~  217 (332)
T PRK09435        149 YDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIKK---GIM-----ELADLIVINKADGDNKTAARRAAA  217 (332)
T ss_pred             CCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHHh---hhh-----hhhheEEeehhcccchhHHHHHHH
Confidence            5678999999652221   24667999999987555555544332   122     2223799999998652211  122


Q ss_pred             HHHHHHHH-------cCCeEEEecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          139 DAQILAEK-------EGLSFLETSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       139 ~~~~~~~~-------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      +.......       +..+++.+||+++.|++++++.|.+++.....
T Consensus       218 el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~  264 (332)
T PRK09435        218 EYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTA  264 (332)
T ss_pred             HHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            33333322       23589999999999999999999997654433

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.39  E-value=2.5e-11  Score=96.95  Aligned_cols=83  Identities=18%  Similarity=0.143  Sum_probs=56.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhh----
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQER----   73 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~----   73 (217)
                      ++|+|+|.||||||||+|+|.+........+..+.+.....+.+.+.               +..+.++|+||...    
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            78999999999999999999987754333333344444444444332               13588999999421    


Q ss_pred             ---hccchhhhhcCCcEEEEEEeCC
Q 042687           74 ---YRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        74 ---~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                         ........++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence               1112233467999999999984

>cd00066 G-alpha G protein alpha subunit

Probab=99.38  E-value=3.8e-11  Score=95.51  Aligned_cols=117  Identities=17%  Similarity=0.186  Sum_probs=81.4

Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCC
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR----------QTFDNVTRWLRELRDHA-DSNIVIMMAGNKSD  128 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~----------~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D  128 (217)
                      .+.+.+||++|+...+..|..++.+++++|+|+|+++.          ..+......+..+.... -.+.|++|++||.|
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            35688999999999999999999999999999999874          23333333333333322 14799999999999


Q ss_pred             Ccccc----------------ccCHHHHHHHHHH----------cCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          129 LNHLR----------------AVAAEDAQILAEK----------EGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       129 l~~~~----------------~~~~~~~~~~~~~----------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      +..+.                .-..+++..+...          ..+..+.++|.+..++..+|+.+.+.+...
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            62210                1123333333221          234567789999999999999998887664

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.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.38  E-value=7.7e-12  Score=97.09  Aligned_cols=163  Identities=16%  Similarity=0.164  Sum_probs=94.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc----cccCCCCC---cceeeEEEEEEE-------CCeEEEEEEEecCChhhhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE----FCLESKST---IGVEFATRTLQV-------EGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~----~~~~~~~t---~~~~~~~~~~~~-------~~~~~~~~i~D~~G~~~~~   75 (217)
                      +..+++.++|+..||||||.++|..-.    |+.....+   .+.+..-..+.+       .+....+.++|+|||....
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            445999999999999999999996532    22111111   111111111111       3455778999999997665


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--H-HHHHHHHHHc-----
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--A-EDAQILAEKE-----  147 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~-~~~~~~~~~~-----  147 (217)
                      +.......-.|..++|+|+.....-+..+-++  +.+..  -...+||+||+|...+....  . .....+.+.+     
T Consensus        85 RtiiggaqiiDlm~lviDv~kG~QtQtAEcLi--ig~~~--c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f  160 (522)
T KOG0461|consen   85 RTIIGGAQIIDLMILVIDVQKGKQTQTAECLI--IGELL--CKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGF  160 (522)
T ss_pred             HHHHhhhheeeeeeEEEehhcccccccchhhh--hhhhh--ccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCc
Confidence            55555555669999999997644333333222  22222  23467888898874432211  1 1122222221     


Q ss_pred             --CCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          148 --GLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       148 --~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                        +.|++++||+.|.-.++....|.+.+.++
T Consensus       161 ~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~  191 (522)
T KOG0461|consen  161 DGNSPIVEVSAADGYFKEEMIQELKEALESR  191 (522)
T ss_pred             CCCCceeEEecCCCccchhHHHHHHHHHHHh
Confidence              27899999999954555555555544443

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.38  E-value=6.1e-12  Score=94.30  Aligned_cols=56  Identities=14%  Similarity=0.057  Sum_probs=41.2

Q ss_pred             CCeEEEEEeCCCCccccccCHHHHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          117 NIVIMMAGNKSDLNHLRAVAAEDAQILAEKE--GLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       117 ~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ..|.++++||+|+.........+........  .++++++||+++.|++++|+++.++
T Consensus       148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       148 KEADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hhCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            5678999999999653222233344434433  3789999999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.37  E-value=1e-11  Score=99.77  Aligned_cols=158  Identities=16%  Similarity=0.179  Sum_probs=106.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcc--ccC------------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEF--CLE------------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~--~~~------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      .-+|+|+-+...|||||+..|+....  ...            .....+.+.-.+.-.+....++++|+|||||..|...
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccch
Confidence            35899999999999999999976432  111            1122233344444344455578899999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHH-------HcCC
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAE-------KEGL  149 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~-------~~~~  149 (217)
                      .+..+.-+|++++++|+.+..-.+. +..+   ......+.+.|+|+||+|.+..+... ..+.-.+..       +++.
T Consensus        85 VERvl~MVDgvlLlVDA~EGpMPQT-rFVl---kKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdF  160 (603)
T COG1217          85 VERVLSMVDGVLLLVDASEGPMPQT-RFVL---KKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDF  160 (603)
T ss_pred             hhhhhhhcceEEEEEEcccCCCCch-hhhH---HHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCC
Confidence            9999999999999999987432222 1112   22222377788999999987644211 122223322       4557


Q ss_pred             eEEEecCCCC----------CCHHHHHHHHHHHH
Q 042687          150 SFLETSALEA----------LNVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~----------~gv~~~~~~l~~~~  173 (217)
                      |++..|+..|          .++.-+|+.|++++
T Consensus       161 PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hv  194 (603)
T COG1217         161 PIVYASARNGTASLDPEDEADDMAPLFETILDHV  194 (603)
T ss_pred             cEEEeeccCceeccCccccccchhHHHHHHHHhC
Confidence            8999998876          34677888887776

>cd01882 BMS1 Bms1

Probab=99.37  E-value=1.5e-11  Score=93.18  Aligned_cols=140  Identities=16%  Similarity=0.165  Sum_probs=82.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      .+...|+|+|.+|+|||||++.+.+...........+. +   .+.. .....+.++||||.-  .. .......+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~~-~~~~~i~~vDtPg~~--~~-~l~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVVT-GKKRRLTFIECPNDI--NA-MIDIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEEe-cCCceEEEEeCCchH--HH-HHHHHHhcCEEE
Confidence            45578999999999999999999864221111111111 1   1111 133467799999864  22 233468899999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeE-EEEEeCCCCccccc-cC--HHHHHH-HHHH--cCCeEEEecCCCCCC
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVI-MMAGNKSDLNHLRA-VA--AEDAQI-LAEK--EGLSFLETSALEALN  161 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~Dl~~~~~-~~--~~~~~~-~~~~--~~~~~~~vSa~~~~g  161 (217)
                      +++|++....... ..++..+...   +.|. ++|+||.|+.+... ..  ..++.. +..+  .+.+++.+||+++..
T Consensus       109 lviDa~~~~~~~~-~~i~~~l~~~---g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         109 LLIDASFGFEMET-FEFLNILQVH---GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             EEEecCcCCCHHH-HHHHHHHHHc---CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            9999976443222 2333334333   6675 45999999853221 11  112222 2221  246899999998733

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.

>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=99.36  E-value=6.8e-12  Score=90.89  Aligned_cols=62  Identities=21%  Similarity=0.186  Sum_probs=44.9

Q ss_pred             EEEEecCChh----hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCC
Q 042687           63 AQIWDTAGQE----RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS  127 (217)
Q Consensus        63 ~~i~D~~G~~----~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  127 (217)
                      +.|+|+||..    .....+..++..+|++|+|.++.....-.....+.......   ...+++|.||+
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            6899999943    34466788889999999999998866555555555555444   34488888984

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=99.35  E-value=4.3e-13  Score=102.14  Aligned_cols=111  Identities=17%  Similarity=0.096  Sum_probs=58.3

Q ss_pred             EEEEEecCChhhhccchhhhh--------cCCcEEEEEEeCCChhh-HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           62 KAQIWDTAGQERYRAITSAYY--------RGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      .+.++|||||.++...+....        ...-++++++|.....+ ...+..++..+......+.|.+.|+||+|+.+.
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            578999999887655554332        34457888888754322 222233333333333338999999999999652


Q ss_pred             c-------ccC------------HHHHHHHHHHc---C-C-eEEEecCCCCCCHHHHHHHHHHH
Q 042687          133 R-------AVA------------AEDAQILAEKE---G-L-SFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       133 ~-------~~~------------~~~~~~~~~~~---~-~-~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      .       ...            ....+.++.-.   + + .++++|+.++.|+++++..+-+.
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a  235 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKA  235 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHH
Confidence            1       000            01112222222   2 3 69999999999999999887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>smart00275 G_alpha G protein alpha subunit

Probab=99.34  E-value=1.7e-10  Score=92.56  Aligned_cols=117  Identities=15%  Similarity=0.144  Sum_probs=81.3

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCC
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR----------QTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDL  129 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~----------~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl  129 (217)
                      +.+.+||.+|+...+..|..++.+++++|||+|+++.          ..+.....++..+.... -.+.|++|++||.|+
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            4578999999999999999999999999999999973          23344334444443322 247999999999997


Q ss_pred             cccc---------------ccCHHHHHHHHH-----H------cCCeEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          130 NHLR---------------AVAAEDAQILAE-----K------EGLSFLETSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       130 ~~~~---------------~~~~~~~~~~~~-----~------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      ....               ......+..+..     .      ..+.++.++|.+-.++..+|+.+.+.+.+..
T Consensus       264 ~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~  337 (342)
T smart00275      264 FEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRN  337 (342)
T ss_pred             HHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHHH
Confidence            3210               012233322221     1      1245677889999999999999888876653

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.33  E-value=5.7e-12  Score=92.61  Aligned_cols=156  Identities=22%  Similarity=0.328  Sum_probs=100.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-----chhhhhcCC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-----ITSAYYRGA   85 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~   85 (217)
                      .-||+++|.+|+|||++-..+..+... +....+.+.++.+..+.+-|. +.+.+||++|++.+-.     .....+.++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGn-l~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGN-LVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhh-heeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            358999999999999998877765543 222334445555555444432 4678999999884422     334568899


Q ss_pred             cEEEEEEeCCChhhHHHH---HHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cC----HHHHHHHHHHcCCeEEEecC
Q 042687           86 VGALLVYDITKRQTFDNV---TRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VA----AEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~---~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~----~~~~~~~~~~~~~~~~~vSa  156 (217)
                      +++|+|||+...+-..++   ...+..+..+.+ ...+.+..+|.|+.....  ..    ......+....++.++++|.
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP-~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsi  161 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNSP-EAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSI  161 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcCC-cceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccch
Confidence            999999999887644444   344445555554 677888999999965321  11    12234444455677888887


Q ss_pred             CCCCCHHHHHHHHH
Q 042687          157 LEALNVEKAFQTIL  170 (217)
Q Consensus       157 ~~~~gv~~~~~~l~  170 (217)
                      .+.. +-.++..+.
T Consensus       162 wDet-l~KAWS~iv  174 (295)
T KOG3886|consen  162 WDET-LYKAWSSIV  174 (295)
T ss_pred             hhHH-HHHHHHHHH
Confidence            7653 333444443

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.32  E-value=2e-11  Score=97.60  Aligned_cols=164  Identities=15%  Similarity=0.182  Sum_probs=81.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CC--cceeeEEEEEEECCeEEEEEEEecCChhhhccchhh-----hh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-ST--IGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSA-----YY   82 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t--~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----~~   82 (217)
                      ..++|+|+|.+|+|||||||+|.+-.-.+... +|  ..++.....+.....+ ++.+||.||.....-....     -+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~p-nv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFP-NVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-T-TEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCC-CCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            46899999999999999999998743322222 11  1222223333333222 4779999995322111222     35


Q ss_pred             cCCcEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCc-------cccccCHH----HHHHHH----HH
Q 042687           83 RGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLN-------HLRAVAAE----DAQILA----EK  146 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~----~~~~~~----~~  146 (217)
                      ...|.+|++.+-.    |.... .+...+...   ++|+++|-+|+|..       .++...++    ++++.+    +.
T Consensus       113 ~~yD~fiii~s~r----f~~ndv~La~~i~~~---gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k  185 (376)
T PF05049_consen  113 YRYDFFIIISSER----FTENDVQLAKEIQRM---GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQK  185 (376)
T ss_dssp             GG-SEEEEEESSS------HHHHHHHHHHHHT---T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHC
T ss_pred             cccCEEEEEeCCC----CchhhHHHHHHHHHc---CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHH
Confidence            6779888876642    22222 223334444   89999999999961       11222222    223322    22


Q ss_pred             cCC---eEEEecCCCC--CCHHHHHHHHHHHHHHHHHHHHH
Q 042687          147 EGL---SFLETSALEA--LNVEKAFQTILLDIYHIISKKAL  182 (217)
Q Consensus       147 ~~~---~~~~vSa~~~--~gv~~~~~~l~~~~~~~~~~~~~  182 (217)
                      .++   ++|-+|+.+-  .++..+.+.|.+.+-..+.+...
T Consensus       186 ~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~~fl  226 (376)
T PF05049_consen  186 AGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRHAFL  226 (376)
T ss_dssp             TT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHHHHH
T ss_pred             cCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHHHHH
Confidence            343   5899998764  45777777777766555554443

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.30  E-value=4.9e-11  Score=92.97  Aligned_cols=138  Identities=18%  Similarity=0.320  Sum_probs=74.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC----------CCCcceeeEEEEEEECCeEEEEEEEecCChhh-------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES----------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------   73 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   73 (217)
                      ..++|+|+|.+|+|||||+|.|++.......          ..+.........+.-++..+++.++||||...       
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            3589999999999999999999986543321          12223333334455578889999999999210       


Q ss_pred             hccc-------hhhhh-------------cCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           74 YRAI-------TSAYY-------------RGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        74 ~~~~-------~~~~~-------------~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      +..+       ...++             ..+|++++.++++... .-.++ ..+..+..    .+++|-|+.|+|....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di-~~mk~Ls~----~vNvIPvIaKaD~lt~  157 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDI-EFMKRLSK----RVNVIPVIAKADTLTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHH-HHHHHHTT----TSEEEEEESTGGGS-H
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHH-HHHHHhcc----cccEEeEEecccccCH
Confidence            0000       00111             3578999999986421 11222 23333333    6889999999997442


Q ss_pred             cccC--HHHHHHHHHHcCCeEEE
Q 042687          133 RAVA--AEDAQILAEKEGLSFLE  153 (217)
Q Consensus       133 ~~~~--~~~~~~~~~~~~~~~~~  153 (217)
                      .+..  ...+..-....++.+|.
T Consensus       158 ~el~~~k~~i~~~l~~~~I~~f~  180 (281)
T PF00735_consen  158 EELQAFKQRIREDLEENNIKIFD  180 (281)
T ss_dssp             HHHHHHHHHHHHHHHHTT--S--
T ss_pred             HHHHHHHHHHHHHHHHcCceeec
Confidence            2211  12233334455565554

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=5.8e-11  Score=90.43  Aligned_cols=152  Identities=20%  Similarity=0.152  Sum_probs=99.8

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCc----------------cccCCCCCcceeeEEEEEEECCeEEEEE
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNE----------------FCLESKSTIGVEFATRTLQVEGKTVKAQ   64 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~~~~   64 (217)
                      |+........+-++|..+|+.+-|||||..++..--                .+++  ...+.+.....+.++-....+.
T Consensus         1 mak~kf~r~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeE--k~rGITIntahveyet~~rhya   78 (394)
T COG0050           1 MAKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEE--KARGITINTAHVEYETANRHYA   78 (394)
T ss_pred             CchhhhcCCCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchH--hhcCceeccceeEEecCCceEE
Confidence            343344445567999999999999999999875411                1111  2233444444444444445667


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccc---cCHHHH
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRA---VAAEDA  140 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~---~~~~~~  140 (217)
                      .+|+|||..|-..+..-..++|+.|+|++++|..-.+..++.+ ..+..   ++| +++++||+|+.+..+   +-+.|.
T Consensus        79 hVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL-larqv---Gvp~ivvflnK~Dmvdd~ellelVemEv  154 (394)
T COG0050          79 HVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL-LARQV---GVPYIVVFLNKVDMVDDEELLELVEMEV  154 (394)
T ss_pred             eccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh-hhhhc---CCcEEEEEEecccccCcHHHHHHHHHHH
Confidence            9999999998887777788999999999999854434333222 12222   665 667889999976432   234567


Q ss_pred             HHHHHHcCC-----eEEEecCCC
Q 042687          141 QILAEKEGL-----SFLETSALE  158 (217)
Q Consensus       141 ~~~~~~~~~-----~~~~vSa~~  158 (217)
                      +++...++.     |++.-||..
T Consensus       155 reLLs~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         155 RELLSEYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             HHHHHHcCCCCCCcceeechhhh
Confidence            888888874     466666554

>cd01900 YchF YchF subfamily

Probab=99.28  E-value=9.2e-11  Score=90.80  Aligned_cols=81  Identities=17%  Similarity=0.130  Sum_probs=54.7

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhh------
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQER------   73 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~------   73 (217)
                      |+|+|.+|||||||+|+|.+........+..+.+.....+.+.+.               +..+.++|+||...      
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            589999999999999999998765443344444444444444332               23588999999421      


Q ss_pred             -hccchhhhhcCCcEEEEEEeCC
Q 042687           74 -YRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        74 -~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                       ........++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1112233467899999999873

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=8.4e-11  Score=101.26  Aligned_cols=119  Identities=16%  Similarity=0.172  Sum_probs=87.1

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccC-----C-----------CCCcceeeEEEEEEECCe-EEEEEEEecCCh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE-----S-----------KSTIGVEFATRTLQVEGK-TVKAQIWDTAGQ   71 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~-----~-----------~~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~   71 (217)
                      .+..-+|.|+|+..+|||||..+++...-...     .           ....+.+.......+.+. .+.++++|||||
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            55678999999999999999999864321111     0           011244444544555555 478899999999


Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      -.|.......++-+|++|+|+|+...-..+.-.-|.+..    ..++|.++++||+|...
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~----~~~vp~i~fiNKmDR~~  142 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD----KYGVPRILFVNKMDRLG  142 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh----hcCCCeEEEEECccccc
Confidence            999999999999999999999998765544444444332    33899999999999754

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.26  E-value=1.5e-10  Score=91.46  Aligned_cols=104  Identities=17%  Similarity=0.050  Sum_probs=63.8

Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCH--
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA--  137 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~--  137 (217)
                      .+.+.|+||+|.....   ......+|.++++-+....   +.+......+     .++|.++++||+|+........  
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~---~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTG---DDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCcc---HHHHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            3567899999854211   2346678888888554333   3332222222     1677899999999875322111  


Q ss_pred             HH----HHHHHH---HcCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          138 ED----AQILAE---KEGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       138 ~~----~~~~~~---~~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      ..    ...+..   .+..+++++||+++.|+++++++|.+.+.
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            00    111111   12346999999999999999999998754

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.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.25  E-value=3.8e-11  Score=98.18  Aligned_cols=180  Identities=20%  Similarity=0.345  Sum_probs=135.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+|+.|||..++|||+|+++++.+.+.....+.-  .....++.++++...+.+.|.+|...     ..|...+|++||
T Consensus        29 pelk~givg~~~sgktalvhr~ltgty~~~e~~e~--~~~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIf  101 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEG--GRFKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVF  101 (749)
T ss_pred             chhheeeeecccCCceeeeeeeccceeccccCCcC--ccceeeEEeeccceEeeeecccCCch-----hhhhhhccceEE
Confidence            56899999999999999999999998876554442  34566667788888888999988432     346678899999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCC--ccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDL--NHLRAVAAEDAQILAE-KEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl--~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ||.+.+.++++.+..+...+.... ...+|+++++++.-.  ...+.+...+...++. ...+.+|++.+..|.++..+|
T Consensus       102 vf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf  181 (749)
T KOG0705|consen  102 VFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVF  181 (749)
T ss_pred             EEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHH
Confidence            999999999999887776665443 346788888876543  2234444555555544 445789999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhccCCCCCCc
Q 042687          167 QTILLDIYHIISKKALAAQEAASSTGLPQGT  197 (217)
Q Consensus       167 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (217)
                      +.+..++.....+++.......+.+.++...
T Consensus       182 ~~~~~k~i~~~~~qq~~~~~~~s~~~s~~~s  212 (749)
T KOG0705|consen  182 QEVAQKIVQLRKYQQLPASSSKSLPESPSHS  212 (749)
T ss_pred             HHHHHHHHHHHhhhhcccccccccccCCccc
Confidence            9999999888777776666565555555444

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.23  E-value=8.1e-11  Score=84.83  Aligned_cols=54  Identities=15%  Similarity=0.036  Sum_probs=42.2

Q ss_pred             EEEEEeCCCCccccccCHHHHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          120 IMMAGNKSDLNHLRAVAAEDAQILAEKE--GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       120 ~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      =++|+||.|+......+.+...+-+++.  +.+++++|+++|.|++++++|+....
T Consensus       145 DllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         145 DLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             eEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            3789999999875555555555555554  47999999999999999999987643

>smart00053 DYNc Dynamin, GTPase

Probab=99.23  E-value=2e-10  Score=87.31  Aligned_cols=67  Identities=12%  Similarity=0.086  Sum_probs=42.7

Q ss_pred             EEEEEecCChh-------------hhccchhhhhcC-CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCC
Q 042687           62 KAQIWDTAGQE-------------RYRAITSAYYRG-AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS  127 (217)
Q Consensus        62 ~~~i~D~~G~~-------------~~~~~~~~~~~~-~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  127 (217)
                      .+.++|+||-.             ....+...|+++ .+++++|+|+...-.-.....+...+..   .+.++++|+||+
T Consensus       126 ~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK~  202 (240)
T smart00053      126 NLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITKL  202 (240)
T ss_pred             ceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEECC
Confidence            57899999953             123345567774 5689999988643222222233333333   378999999999


Q ss_pred             CCcc
Q 042687          128 DLNH  131 (217)
Q Consensus       128 Dl~~  131 (217)
                      |..+
T Consensus       203 D~~~  206 (240)
T smart00053      203 DLMD  206 (240)
T ss_pred             CCCC
Confidence            9865

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.23  E-value=1.5e-10  Score=92.82  Aligned_cols=154  Identities=18%  Similarity=0.097  Sum_probs=105.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccc---cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFC---LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~---~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .|+..|+-.-|||||+..+.+..-+   +......+.+........++.  .+.++|.||++.+-...-..+...|.+++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~--~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDG--VMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCC--ceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            5788999999999999999875443   222233444444444444443  67899999999998888888889999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccCHHHHHHHHH---HcCCeEEEecCCCCCCHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVAAEDAQILAE---KEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      |+++++.-..+..+. +..+...   +++ .++|++|+|+.++..+ .+..+++..   ..+.++|.+|+++|.|++++-
T Consensus        80 vV~~deGl~~qtgEh-L~iLdll---gi~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk  154 (447)
T COG3276          80 VVAADEGLMAQTGEH-LLILDLL---GIKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELK  154 (447)
T ss_pred             EEeCccCcchhhHHH-HHHHHhc---CCCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHH
Confidence            999965433333322 2222222   333 5899999998764322 122222222   334689999999999999999


Q ss_pred             HHHHHHHH
Q 042687          167 QTILLDIY  174 (217)
Q Consensus       167 ~~l~~~~~  174 (217)
                      +.|.+...
T Consensus       155 ~~l~~L~~  162 (447)
T COG3276         155 NELIDLLE  162 (447)
T ss_pred             HHHHHhhh
Confidence            99999774

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.21  E-value=4.6e-10  Score=92.63  Aligned_cols=154  Identities=21%  Similarity=0.245  Sum_probs=98.8

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcC--------------------ccccCC---------CCCcceeeEEEEEEECCe
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRN--------------------EFCLES---------KSTIGVEFATRTLQVEGK   59 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~--------------------~~~~~~---------~~t~~~~~~~~~~~~~~~   59 (217)
                      +...++++++|+..+|||||+.+++..                    +.+-.|         ....|+.-......++..
T Consensus       174 ~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~  253 (603)
T KOG0458|consen  174 PKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESK  253 (603)
T ss_pred             CccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecC
Confidence            335689999999999999999887542                    110000         011222233333344455


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHH-------HHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN-------VTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~-------~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      ...++|+|+|||..|......-...||++|+|+|++-. .|+.       ..+....++...  -..++|++||.|+.+=
T Consensus       254 ~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~-~FE~gfd~~gQtrEha~llr~Lg--i~qlivaiNKmD~V~W  330 (603)
T KOG0458|consen  254 SKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTG-EFESGFDPGGQTREHALLLRSLG--ISQLIVAINKMDLVSW  330 (603)
T ss_pred             ceeEEEecCCCccccchhhhccccccceEEEEEECCcc-hhhhccCCCCchHHHHHHHHHcC--cceEEEEeecccccCc
Confidence            56788999999999988888888899999999999742 2222       233333333332  3457889999999752


Q ss_pred             cccCHHH----HHHHH-HHcC-----CeEEEecCCCCCCHHHH
Q 042687          133 RAVAAED----AQILA-EKEG-----LSFLETSALEALNVEKA  165 (217)
Q Consensus       133 ~~~~~~~----~~~~~-~~~~-----~~~~~vSa~~~~gv~~~  165 (217)
                      .+...++    +..|. ...|     +.++++|+.+|.|+-..
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            2222233    33344 3334     56999999999997544

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=2.3e-10  Score=91.52  Aligned_cols=117  Identities=18%  Similarity=0.191  Sum_probs=81.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc--C------cccc-------CC-----CCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR--N------EFCL-------ES-----KSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~--~------~~~~-------~~-----~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ..-..+|+-+|.+|||||..+|+-  +      .+..       .+     ....++......+.++.....+++.||||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPG   90 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPG   90 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCC
Confidence            445679999999999999998742  1      1100       00     01234555555555555556778999999


Q ss_pred             hhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           71 QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        71 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |+.|..-....+..+|.+++|+|+...-..+. .+++...+.   .++|++=++||.|.+.
T Consensus        91 HeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT-~KLfeVcrl---R~iPI~TFiNKlDR~~  147 (528)
T COG4108          91 HEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQT-LKLFEVCRL---RDIPIFTFINKLDREG  147 (528)
T ss_pred             ccccchhHHHHHHhhheeeEEEecccCccHHH-HHHHHHHhh---cCCceEEEeecccccc
Confidence            99998888888999999999999986433222 233333333   3899999999999765

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=1.3e-09  Score=86.14  Aligned_cols=84  Identities=19%  Similarity=0.159  Sum_probs=58.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC----------------CeEEEEEEEecCCh----
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE----------------GKTVKAQIWDTAGQ----   71 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~----   71 (217)
                      .+++.|+|.||||||||.|+++.........|..+++.......+.                -....+.++|++|.    
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            4789999999999999999999888653444433444333332221                13456889999993    


Q ss_pred             ---hhhccchhhhhcCCcEEEEEEeCC
Q 042687           72 ---ERYRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        72 ---~~~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                         +.........++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence               223334455678999999999985

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.17  E-value=5.7e-11  Score=91.59  Aligned_cols=155  Identities=18%  Similarity=0.152  Sum_probs=99.5

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC--CCcceeeEEEEEEECCeEEEEEEEecCCh---------hhhccc
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK--STIGVEFATRTLQVEGKTVKAQIWDTAGQ---------ERYRAI   77 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~   77 (217)
                      .++..-|.+||..|+|||||+++|.+....+...  .|...+.....  .... ..+.+.||.|.         ..|++.
T Consensus       175 ~~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~--Lpsg-~~vlltDTvGFisdLP~~LvaAF~AT  251 (410)
T KOG0410|consen  175 GESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAH--LPSG-NFVLLTDTVGFISDLPIQLVAAFQAT  251 (410)
T ss_pred             cCCCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhcc--CCCC-cEEEEeechhhhhhCcHHHHHHHHHH
Confidence            3455789999999999999999998654433322  33222222222  2221 24568899992         223332


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe----EEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV----IMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p----~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      . .....+|.++.|.|+++|+.-+.....+..+++..-...|    ++=|-||+|..... ...       ..+  ..+.
T Consensus       252 L-eeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~-~e~-------E~n--~~v~  320 (410)
T KOG0410|consen  252 L-EEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDE-VEE-------EKN--LDVG  320 (410)
T ss_pred             H-HHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccccccccc-Ccc-------ccC--Cccc
Confidence            2 2356899999999999998766666666666666332233    45577888875422 111       011  2577


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      +||.+|+|.+++...+-..+....
T Consensus       321 isaltgdgl~el~~a~~~kv~~~t  344 (410)
T KOG0410|consen  321 ISALTGDGLEELLKAEETKVASET  344 (410)
T ss_pred             cccccCccHHHHHHHHHHHhhhhh
Confidence            899999999999998877665543

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.15  E-value=8.6e-10  Score=86.72  Aligned_cols=115  Identities=17%  Similarity=0.295  Sum_probs=73.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC----------CCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE----------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------   73 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   73 (217)
                      -.++|+++|+.|+|||||+|.|++......          ..++.........+.-++..++++++||||...       
T Consensus        22 i~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~  101 (373)
T COG5019          22 IDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKC  101 (373)
T ss_pred             CceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccccccccc
Confidence            458999999999999999999998743322          123334444455555678889999999999211       


Q ss_pred             -------hccchhhhh--------------cCCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           74 -------YRAITSAYY--------------RGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        74 -------~~~~~~~~~--------------~~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                             .......|+              ..++++++.+.++. ..+..+ .+.+..+..    .+.+|-|+.|+|..
T Consensus       102 we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~DIe~Mk~ls~----~vNlIPVI~KaD~l  175 (373)
T COG5019         102 WEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLDIEAMKRLSK----RVNLIPVIAKADTL  175 (373)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHHHHHHHHHhc----ccCeeeeeeccccC
Confidence                   011111121              24688888887653 233333 233444444    56688889999973

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.15  E-value=3e-09  Score=79.53  Aligned_cols=97  Identities=25%  Similarity=0.218  Sum_probs=66.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh-------ccchhhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY-------RAITSAYY   82 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~   82 (217)
                      ..-||+++|.|.+|||||+..+..-... ..|.+| +.+..+..+.+++.  ++++.|.||.-+-       .+..-...
T Consensus        61 GdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFT-TLtcIpGvi~y~ga--~IQllDLPGIieGAsqgkGRGRQviavA  137 (364)
T KOG1486|consen   61 GDARVALIGFPSVGKSTLLSKITSTHSEAASYEFT-TLTCIPGVIHYNGA--NIQLLDLPGIIEGASQGKGRGRQVIAVA  137 (364)
T ss_pred             CCeEEEEecCCCccHHHHHHHhhcchhhhhceeee-EEEeecceEEecCc--eEEEecCcccccccccCCCCCceEEEEe
Confidence            3469999999999999999998765433 334444 45666777778775  4679999994221       22233456


Q ss_pred             cCCcEEEEEEeCCChhhHHH-HHHHHHHH
Q 042687           83 RGAVGALLVYDITKRQTFDN-VTRWLREL  110 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~-~~~~~~~i  110 (217)
                      +.||.+++|.|++..+.-.. +++.+..+
T Consensus       138 rtaDlilMvLDatk~e~qr~~le~ELe~v  166 (364)
T KOG1486|consen  138 RTADLILMVLDATKSEDQREILEKELEAV  166 (364)
T ss_pred             ecccEEEEEecCCcchhHHHHHHHHHHHh
Confidence            88999999999987654432 34444444

>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=99.14  E-value=2.6e-10  Score=86.17  Aligned_cols=159  Identities=18%  Similarity=0.135  Sum_probs=89.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc-----------cccCCCCCc---------------ceeeEEEEEEECC------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE-----------FCLESKSTI---------------GVEFATRTLQVEG------   58 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~-----------~~~~~~~t~---------------~~~~~~~~~~~~~------   58 (217)
                      ..+.|.|-|+||+|||||+++|....           .++.+..|-               ....+...+-..+      
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            45899999999999999999885421           111111110               1111122111111      


Q ss_pred             ------------eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeC
Q 042687           59 ------------KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK  126 (217)
Q Consensus        59 ------------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  126 (217)
                                  ..+.+.|++|.|-....   -....-+|.+++|..+.-.+..+.++.-+.++        .=++|+||
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 RATRDAVRLLDAAGFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNK  176 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE-
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeC
Confidence                        12456788887732211   12356789999999987666666554433332        23788999


Q ss_pred             CCCccccccCHHHHHHHHHH-------cCCeEEEecCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 042687          127 SDLNHLRAVAAEDAQILAEK-------EGLSFLETSALEALNVEKAFQTILLDIYHIISKKA  181 (217)
Q Consensus       127 ~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~~~~  181 (217)
                      +|++.... ...+.+.....       +..|++.+||.++.|++++++.|.++.........
T Consensus       177 aD~~gA~~-~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l~~sg~  237 (266)
T PF03308_consen  177 ADRPGADR-TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDYLKESGE  237 (266)
T ss_dssp             -SHHHHHH-HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHHHHTTH
T ss_pred             CChHHHHH-HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcch
Confidence            99654222 22333333321       23589999999999999999999886655544433

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.11  E-value=2.2e-09  Score=90.88  Aligned_cols=120  Identities=18%  Similarity=0.184  Sum_probs=70.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhhc-------c---ch
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-------A---IT   78 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~---~~   78 (217)
                      +..++|+|+|.+|+||||++|.|++........ ...+..........++  ..+.++||||.....       .   ..
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~I  193 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSSV  193 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHHH
Confidence            456899999999999999999999876433222 1112222222223344  467899999943211       1   11


Q ss_pred             hhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCC--CCeEEEEEeCCCCcc
Q 042687           79 SAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADS--NIVIMMAGNKSDLNH  131 (217)
Q Consensus        79 ~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~Dl~~  131 (217)
                      ..++.  ..|++|+|..+........-..++..+......  =..+|||.|..|...
T Consensus       194 k~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       194 KKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            22333  579999998875332211222344444444431  244788899999753

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.10  E-value=6.9e-10  Score=92.85  Aligned_cols=117  Identities=24%  Similarity=0.314  Sum_probs=82.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCC---------------cc--eeeEEEEE---EECCeEEEEEEEec
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKST---------------IG--VEFATRTL---QVEGKTVKAQIWDT   68 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t---------------~~--~~~~~~~~---~~~~~~~~~~i~D~   68 (217)
                      ++...+|+++|+-++|||+|+..|.....+.-+..+               .+  +......+   ...+..+-++++||
T Consensus       125 p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDT  204 (971)
T KOG0468|consen  125 PERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDT  204 (971)
T ss_pred             cceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecC
Confidence            456689999999999999999999876543221111               01  11111112   22456677899999


Q ss_pred             CChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           69 AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        69 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      |||-+|.......++.+|++++++|+.+.-.+.. +..+....   ..+.|+++|+||.|+
T Consensus       205 PGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhai---q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  205 PGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAI---QNRLPIVVVINKVDR  261 (971)
T ss_pred             CCcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHHH---hccCcEEEEEehhHH
Confidence            9999999888889999999999999987655443 22232222   238999999999996

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.10  E-value=4.4e-09  Score=83.27  Aligned_cols=129  Identities=18%  Similarity=0.229  Sum_probs=86.1

Q ss_pred             eEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh-------hHHHHHHHHHHHHhhcC----CC
Q 042687           49 FATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-------TFDNVTRWLRELRDHAD----SN  117 (217)
Q Consensus        49 ~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-------s~~~~~~~~~~i~~~~~----~~  117 (217)
                      .....+.+.+  ..+.++|.+|+...+.-|..++.+++++|||+++++.+       .-..+.+-+..+...+.    .+
T Consensus       185 I~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~  262 (354)
T KOG0082|consen  185 IVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFAN  262 (354)
T ss_pred             eeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCccccc
Confidence            3344455555  56779999999999999999999999999999998642       12233333444444332    46


Q ss_pred             CeEEEEEeCCCCcccc---------------ccCHHHHHHHHH--------H--cCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          118 IVIMMAGNKSDLNHLR---------------AVAAEDAQILAE--------K--EGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       118 ~p~ivv~nK~Dl~~~~---------------~~~~~~~~~~~~--------~--~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      .++++++||.|+-.+.               .-..+++..+..        .  ..+.+..+.|.+-.+|+.+|..+.+.
T Consensus       263 tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~  342 (354)
T KOG0082|consen  263 TSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDT  342 (354)
T ss_pred             CcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHH
Confidence            8999999999983211               011223322211        1  13456677888889999999999998


Q ss_pred             HHHHHHH
Q 042687          173 IYHIISK  179 (217)
Q Consensus       173 ~~~~~~~  179 (217)
                      +....-+
T Consensus       343 Ii~~nlk  349 (354)
T KOG0082|consen  343 IIQNNLK  349 (354)
T ss_pred             HHHHHHH
Confidence            8765443

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.09  E-value=1.1e-09  Score=86.07  Aligned_cols=124  Identities=18%  Similarity=0.225  Sum_probs=85.9

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeE-----------------------
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKT-----------------------   60 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~-----------------------   60 (217)
                      .+...+...-|+++|+-..||||+|+-|....++.... +..++++....+.-+...                       
T Consensus        51 ~d~dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~  130 (532)
T KOG1954|consen   51 EDPDFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGN  130 (532)
T ss_pred             cCcccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHH
Confidence            44566677899999999999999999999988874432 333344444443322110                       


Q ss_pred             ----------------EEEEEEecCChh-----------hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhh
Q 042687           61 ----------------VKAQIWDTAGQE-----------RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH  113 (217)
Q Consensus        61 ----------------~~~~i~D~~G~~-----------~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~  113 (217)
                                      -.++|+||||.-           .|.....=+...+|.||++||+...+--.+.++.+..++.+
T Consensus       131 aflnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~  210 (532)
T KOG1954|consen  131 AFLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH  210 (532)
T ss_pred             HHHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC
Confidence                            147899999921           23344455678999999999987655445556666777666


Q ss_pred             cCCCCeEEEEEeCCCCcc
Q 042687          114 ADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus       114 ~~~~~p~ivv~nK~Dl~~  131 (217)
                         +-.+-||+||+|..+
T Consensus       211 ---EdkiRVVLNKADqVd  225 (532)
T KOG1954|consen  211 ---EDKIRVVLNKADQVD  225 (532)
T ss_pred             ---cceeEEEeccccccC
Confidence               445788999999865

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.07  E-value=6.1e-10  Score=86.33  Aligned_cols=55  Identities=16%  Similarity=0.091  Sum_probs=39.0

Q ss_pred             CeEEEEEeCCCCccccccCHHHHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          118 IVIMMAGNKSDLNHLRAVAAEDAQILAEKE--GLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       118 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ..-++|+||+|+........+......+..  .++++++|+++|.|++++.+||.+.
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            446899999999652222233333333333  4789999999999999999999763

>cd01855 YqeH YqeH

Probab=99.06  E-value=1.3e-09  Score=80.64  Aligned_cols=95  Identities=20%  Similarity=0.110  Sum_probs=66.0

Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHH-----HH
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EK  146 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~  146 (217)
                      +.+..++..+++.+|++++|+|+.++..     .|...+.... .+.|+++|+||+|+.... ........+.     ..
T Consensus        22 ~~~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~   94 (190)
T cd01855          22 DFILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAG   94 (190)
T ss_pred             HHHHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhh
Confidence            3457788889999999999999987542     1112221112 368999999999986532 2233333333     22


Q ss_pred             cCC---eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          147 EGL---SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       147 ~~~---~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+.   +++++||+++.|+++++++|.+.+
T Consensus        95 ~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l  124 (190)
T cd01855          95 LGLKPKDVILISAKKGWGVEELINAIKKLA  124 (190)
T ss_pred             cCCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            333   689999999999999999998865

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=99.06  E-value=6.9e-10  Score=79.43  Aligned_cols=94  Identities=19%  Similarity=0.170  Sum_probs=64.7

Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      ++.+++..++++|++|+|+|+.++..... ..+...+..   .+.|+++|+||+|+......  .....+....+.+++.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVLE---LGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHHh---CCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEE
Confidence            34566778889999999999987543222 122222222   26899999999998542211  1222333445678999


Q ss_pred             ecCCCCCCHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +||+++.|++++++.+.+.+
T Consensus        76 iSa~~~~gi~~L~~~l~~~~   95 (156)
T cd01859          76 VSAKERLGTKILRRTIKELA   95 (156)
T ss_pred             EEccccccHHHHHHHHHHHH
Confidence            99999999999999998765

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=99.05  E-value=2.1e-09  Score=86.33  Aligned_cols=92  Identities=17%  Similarity=0.163  Sum_probs=67.7

Q ss_pred             cchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEe
Q 042687           76 AITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                      .+....+.++|.+++|+|+.++. ....+.+|+..+..   .++|+++|+||+|+......  .........++++++.+
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~i  155 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLFI  155 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEEE
Confidence            34455689999999999998775 44456777665533   37999999999999642221  22223334678899999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLD  172 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~  172 (217)
                      ||.++.|+++++++|...
T Consensus       156 SA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        156 SVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EcCCCCCHHHHhhhhccc
Confidence            999999999999988653

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.05  E-value=7.1e-09  Score=82.17  Aligned_cols=143  Identities=15%  Similarity=0.278  Sum_probs=87.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC---------CCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------h
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE---------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------Y   74 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~   74 (217)
                      ..+.++++|..|.|||||+|.|+...+...         ...+.........+.-++..++++++||||-..       |
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            348999999999999999999987644332         112334444445555578889999999999211       1


Q ss_pred             -------ccchhhh-----------hc--CCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           75 -------RAITSAY-----------YR--GAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        75 -------~~~~~~~-----------~~--~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                             ......|           +.  .++++++.+.++.. .+..+ ...+..+..    .+.+|-|+.|+|.....
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di~~Mk~l~~----~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDIEFMKKLSK----KVNLIPVIAKADTLTKD  174 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhHHHHHHHhc----cccccceeeccccCCHH
Confidence                   1111112           22  57888888887642 22222 122333333    67788899999975422


Q ss_pred             cc--CHHHHHHHHHHcCCeEEEecCCC
Q 042687          134 AV--AAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus       134 ~~--~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      ++  ....+.+-....++++|....-.
T Consensus       175 El~~~K~~I~~~i~~~nI~vf~fp~~~  201 (366)
T KOG2655|consen  175 ELNQFKKRIRQDIEEHNIKVFDFPTDE  201 (366)
T ss_pred             HHHHHHHHHHHHHHHcCcceecCCCCc
Confidence            22  12345555667778877665443

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.99  E-value=4.6e-09  Score=78.05  Aligned_cols=145  Identities=18%  Similarity=0.279  Sum_probs=84.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC---------CCCCcceeeEEEEEEECCeEEEEEEEecCChhh---hccc-
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE---------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---YRAI-   77 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---~~~~-   77 (217)
                      ..++|+|||.+|.|||||+|.++.......         ...|.......-.+.-++...+++++||||...   .... 
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncW  124 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCW  124 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchh
Confidence            458999999999999999999976544321         112223333333344467788899999999211   1111 


Q ss_pred             ----------hhhh------------hc--CCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCc--
Q 042687           78 ----------TSAY------------YR--GAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLN--  130 (217)
Q Consensus        78 ----------~~~~------------~~--~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~--  130 (217)
                                ...|            +.  .++++++.+.++. .++..+ .+++..+.+    -+.++-|+.|+|-.  
T Consensus       125 ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~----vvNvvPVIakaDtlTl  199 (336)
T KOG1547|consen  125 EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTE----VVNVVPVIAKADTLTL  199 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhh----hheeeeeEeecccccH
Confidence                      1122            22  3567777776653 333333 233333333    35577788899953  


Q ss_pred             cccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687          131 HLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      +++....+.+.+-...+++.+++-.+.+.+
T Consensus       200 eEr~~FkqrI~~el~~~~i~vYPq~~fded  229 (336)
T KOG1547|consen  200 EERSAFKQRIRKELEKHGIDVYPQDSFDED  229 (336)
T ss_pred             HHHHHHHHHHHHHHHhcCcccccccccccc
Confidence            223223344555566778888776555543

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.99  E-value=2.6e-09  Score=83.91  Aligned_cols=88  Identities=15%  Similarity=0.061  Sum_probs=68.3

Q ss_pred             hhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCC
Q 042687           79 SAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL  157 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~  157 (217)
                      ...+.++|.+++|+|+.++. ++..+.+|+..+...   ++|+++|+||+|+.....  ......+....+.+++.+||+
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~---~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA---GIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc---CCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECC
Confidence            33478999999999999887 778888888766543   789999999999965321  112233344578899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILL  171 (217)
Q Consensus       158 ~~~gv~~~~~~l~~  171 (217)
                      ++.|+++++.+|..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999988764

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.97  E-value=1.6e-08  Score=77.72  Aligned_cols=106  Identities=18%  Similarity=0.111  Sum_probs=66.5

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.+.|++|.|-.....   ....-+|.++++.-+.-.+..+.++.=+.++.        =++|+||.|+.... ....+.
T Consensus       144 ~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia--------Di~vINKaD~~~A~-~a~r~l  211 (323)
T COG1703         144 YDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAGIMEIA--------DIIVINKADRKGAE-KAAREL  211 (323)
T ss_pred             CCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhhhhhhh--------heeeEeccChhhHH-HHHHHH
Confidence            4567888877432221   23456888888877666666666654433332        37889999965421 111121


Q ss_pred             HH---HH----H--HcCCeEEEecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          141 QI---LA----E--KEGLSFLETSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       141 ~~---~~----~--~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      ..   +.    .  .+.-+++.+||.+|.|++++++.+.++......
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~  258 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTE  258 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHh
Confidence            11   11    1  123479999999999999999999987755543

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.95  E-value=1.6e-08  Score=79.97  Aligned_cols=157  Identities=17%  Similarity=0.143  Sum_probs=95.5

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCC--------------cceeeEEEEEEECC-eE------------
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKST--------------IGVEFATRTLQVEG-KT------------   60 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t--------------~~~~~~~~~~~~~~-~~------------   60 (217)
                      ..+.-+.|.+.|+.+.|||||+-.|..+..++-...+              .+.+.....+-+++ ..            
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            3455689999999999999999998876554332221              11222222222222 11            


Q ss_pred             --------EEEEEEecCChhhhccch-hhh-hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           61 --------VKAQIWDTAGQERYRAIT-SAY-YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        61 --------~~~~i~D~~G~~~~~~~~-~~~-~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                              .-+.++|+.||+.|-+.. +.. -...|..++++-+++.-+--. ++.+-.....   +.|++++++|+|+.
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~a~---~lPviVvvTK~D~~  268 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIALAM---ELPVIVVVTKIDMV  268 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhhhh---cCCEEEEEEecccC
Confidence                    236799999999875543 322 357899999999887544222 2223222222   89999999999985


Q ss_pred             cccccC--HHHHHHH----------------------HHHcC---CeEEEecCCCCCCHHHHHHH
Q 042687          131 HLRAVA--AEDAQIL----------------------AEKEG---LSFLETSALEALNVEKAFQT  168 (217)
Q Consensus       131 ~~~~~~--~~~~~~~----------------------~~~~~---~~~~~vSa~~~~gv~~~~~~  168 (217)
                      ....+.  .+++..+                      +-+.+   +|+|.+|+.+|+|++-+.+.
T Consensus       269 ~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~  333 (527)
T COG5258         269 PDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEF  333 (527)
T ss_pred             cHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHH
Confidence            422111  1111111                      11111   58999999999999854443

>PRK00098 GTPase RsgA; Reviewed

Probab=98.95  E-value=3.1e-09  Score=83.94  Aligned_cols=87  Identities=21%  Similarity=0.147  Sum_probs=65.0

Q ss_pred             hhcCCcEEEEEEeCCChhhHHH-HHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      .+.++|++++|+|+.++..... +.+|+..+..   .++|+++|+||+|+..... ...+........+++++++||+++
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            3589999999999988765444 4677766554   3799999999999963221 122334445567889999999999


Q ss_pred             CCHHHHHHHHHH
Q 042687          160 LNVEKAFQTILL  171 (217)
Q Consensus       160 ~gv~~~~~~l~~  171 (217)
                      .|++++++.+..
T Consensus       153 ~gi~~L~~~l~g  164 (298)
T PRK00098        153 EGLDELKPLLAG  164 (298)
T ss_pred             ccHHHHHhhccC
Confidence            999999988753

>PRK12288 GTPase RsgA; Reviewed

Probab=98.94  E-value=7.2e-09  Score=83.18  Aligned_cols=87  Identities=14%  Similarity=0.080  Sum_probs=66.9

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ..|+|.+++|+++....++..+..|+..+..   .++|.+||+||+|+...... ...+........+++++++||+++.
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            5789999999999877789999999875543   37899999999999653211 1122233345668899999999999


Q ss_pred             CHHHHHHHHHH
Q 042687          161 NVEKAFQTILL  171 (217)
Q Consensus       161 gv~~~~~~l~~  171 (217)
                      |+++++++|..
T Consensus       195 GideL~~~L~~  205 (347)
T PRK12288        195 GLEELEAALTG  205 (347)
T ss_pred             CHHHHHHHHhh
Confidence            99999998865

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.89  E-value=1.7e-08  Score=78.58  Aligned_cols=145  Identities=18%  Similarity=0.140  Sum_probs=96.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC----------cccc-C---CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN----------EFCL-E---SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~----------~~~~-~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      .+-++|.-+|+..-|||||..++..-          .++. +   .....+++.....+.+.-....+.-.|+|||..|.
T Consensus        52 KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYI  131 (449)
T KOG0460|consen   52 KPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYI  131 (449)
T ss_pred             CCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHH
Confidence            45589999999999999999887431          1110 0   01223445555555555555567789999999888


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc---ccCHHHHHHHHHHcC----
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR---AVAAEDAQILAEKEG----  148 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~---~~~~~~~~~~~~~~~----  148 (217)
                      .....-..+.|++|+|+.++|..-.+.-+++ ...+...  -..+++++||.|+.+..   ++-+.|++++...++    
T Consensus       132 KNMItGaaqMDGaILVVaatDG~MPQTrEHl-LLArQVG--V~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd  208 (449)
T KOG0460|consen  132 KNMITGAAQMDGAILVVAATDGPMPQTREHL-LLARQVG--VKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGD  208 (449)
T ss_pred             HHhhcCccccCceEEEEEcCCCCCcchHHHH-HHHHHcC--CceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCC
Confidence            7777777889999999999986533332222 2222221  23477889999997432   334567888888886    


Q ss_pred             -CeEEEecCC
Q 042687          149 -LSFLETSAL  157 (217)
Q Consensus       149 -~~~~~vSa~  157 (217)
                       +|++.-||.
T Consensus       209 ~~PvI~GSAL  218 (449)
T KOG0460|consen  209 NTPVIRGSAL  218 (449)
T ss_pred             CCCeeecchh
Confidence             568876654

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=5.9e-08  Score=72.32  Aligned_cols=164  Identities=19%  Similarity=0.199  Sum_probs=97.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-c--hhhhhcCCcEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-I--TSAYYRGAVGA   88 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~--~~~~~~~~d~i   88 (217)
                      ..+|+++|..-+||||+.......-.+.+.-.--.+.. ...-.+.+.-+.+.+||.||+-.+.. .  ....++.+.++
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTsk-i~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gAL  105 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTSK-ITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGAL  105 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCceeEeeccCc-ccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeE
Confidence            47799999999999999886655432221110000000 01111223457899999999754322 2  35678999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCcccc-ccC------HHHHHHHHH----HcCCeEEEec
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNHLR-AVA------AEDAQILAE----KEGLSFLETS  155 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~~~-~~~------~~~~~~~~~----~~~~~~~~vS  155 (217)
                      |+|+|+-+. -.+.+.++...+....  +.++.+=+++.|.|-.... .+.      ....+.++.    ...+.++-+|
T Consensus       106 ifvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTS  184 (347)
T KOG3887|consen  106 IFVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTS  184 (347)
T ss_pred             EEEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEee
Confidence            999998652 2344444444454443  3577788999999964321 111      111122221    1124466666


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      -.+ +.+-++|..+++++..+..
T Consensus       185 IyD-HSIfEAFSkvVQkLipqLp  206 (347)
T KOG3887|consen  185 IYD-HSIFEAFSKVVQKLIPQLP  206 (347)
T ss_pred             ecc-hHHHHHHHHHHHHHhhhch
Confidence            655 6799999999998876643

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.83  E-value=9.6e-09  Score=77.95  Aligned_cols=159  Identities=18%  Similarity=0.134  Sum_probs=92.5

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC-CcceeeEEEEEEECCeEEEEEEEecCC----------hhhh
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS-TIGVEFATRTLQVEGKTVKAQIWDTAG----------QERY   74 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~   74 (217)
                      +.+.+...+++++|.+|+|||+|+|-++.......... ..+.+.....+.++.   .+.++|.||          ...+
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 DCPKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGK---SWYEVDLPGYGRAGYGFELPADW  206 (320)
T ss_pred             cCCCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccc---eEEEEecCCcccccCCccCcchH
Confidence            34456678999999999999999999988765433332 334344444444444   455999999          2234


Q ss_pred             ccchhhhhcCC---cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc------ccC-----HHHH
Q 042687           75 RAITSAYYRGA---VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR------AVA-----AEDA  140 (217)
Q Consensus        75 ~~~~~~~~~~~---d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------~~~-----~~~~  140 (217)
                      ..+...|+.+-   --+++++|++.+-.-.+. ..+..+.+.   ++|+.+|.||+|.....      ...     ...+
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 DKFTKSYLLERENLVRVFLLVDASVPIQPTDN-PEIAWLGEN---NVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGL  282 (320)
T ss_pred             hHhHHHHHHhhhhhheeeeeeeccCCCCCCCh-HHHHHHhhc---CCCeEEeeehhhhhhhccccccCccccceeehhhc
Confidence            44555555332   234555566543211111 112222233   89999999999973211      100     0111


Q ss_pred             HHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          141 QILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       141 ~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .........|++.+|+.++.|.+.++--|.+
T Consensus       283 ~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  283 IRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             cccceeccCCceeeecccccCceeeeeehhh
Confidence            1111122356778999999999988665543

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.82  E-value=1.2e-08  Score=71.73  Aligned_cols=54  Identities=24%  Similarity=0.292  Sum_probs=38.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      +++++|.+|+|||||+|++.+....... ...+.+.....+.+++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~-~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVS-ATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeC-CCCCcccceEEEEeCC---CEEEEECCCc
Confidence            8999999999999999999987764222 2223334444455554   4679999995

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.79  E-value=3.1e-08  Score=80.23  Aligned_cols=95  Identities=18%  Similarity=0.239  Sum_probs=68.6

Q ss_pred             hhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH----HHHHH
Q 042687           71 QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ----ILAEK  146 (217)
Q Consensus        71 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~~  146 (217)
                      .+.|..+...+...++++++|+|+.+...     .|...+.+... +.|+++|+||+|+.. +....+++.    +++..
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~-----s~~~~l~~~~~-~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEG-----SLIPELKRFVG-GNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCC-----CccHHHHHHhC-CCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHH
Confidence            45778888888899999999999976441     23333333333 678999999999865 222333333    34556


Q ss_pred             cCC---eEEEecCCCCCCHHHHHHHHHHH
Q 042687          147 EGL---SFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       147 ~~~---~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      .++   .++.+||+++.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            676   48999999999999999998653

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.

>cd01858 NGP_1 NGP-1

Probab=98.77  E-value=2.7e-08  Score=71.27  Aligned_cols=56  Identities=20%  Similarity=0.313  Sum_probs=37.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ..++|+++|.+|+|||||+|+|.+....... ++.+.+.....+..+.   .+.++||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~-~~~g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVA-PIPGETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeC-CCCCeeEeEEEEEcCC---CEEEEECcC
Confidence            3578999999999999999999886553222 2223333333333333   255999998

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=98.76  E-value=2.7e-08  Score=72.22  Aligned_cols=56  Identities=23%  Similarity=0.453  Sum_probs=38.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ..++|+++|.+|+|||||+|+|.+....... ...+++.....+.++.   .+.++||||
T Consensus       116 ~~~~~~~vG~pnvGKSslin~l~~~~~~~~~-~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         116 TSITVGVVGFPNVGKSSLINSLKRSRACNVG-ATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCcccceec-CCCCeEcceEEEEeCC---CEEEEECcC
Confidence            4589999999999999999999987653222 2223333333444433   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

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.75  E-value=4.1e-08  Score=76.55  Aligned_cols=85  Identities=16%  Similarity=0.132  Sum_probs=61.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC---------------CeEEEEEEEecCChh---
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE---------------GKTVKAQIWDTAGQE---   72 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------------~~~~~~~i~D~~G~~---   72 (217)
                      ..+++.|||.++||||||.|.|.+....+...|..+++.....+.+.               ..+..++++|++|.-   
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            45899999999999999999999988876665655555555444442               235578999999932   


Q ss_pred             ----hhccchhhhhcCCcEEEEEEeCC
Q 042687           73 ----RYRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        73 ----~~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                          .........++.+|+++-|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence                22333445578899999998873

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.73  E-value=1.9e-07  Score=77.52  Aligned_cols=140  Identities=19%  Similarity=0.202  Sum_probs=83.5

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..++.+-|+|+|++|+||||||+.|+..--........+    +.+ -+.+...++++..+|..  ... .....+-||.
T Consensus        65 d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~G----PiT-vvsgK~RRiTflEcp~D--l~~-miDvaKIaDL  136 (1077)
T COG5192          65 DLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRG----PIT-VVSGKTRRITFLECPSD--LHQ-MIDVAKIADL  136 (1077)
T ss_pred             cCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCC----ceE-EeecceeEEEEEeChHH--HHH-HHhHHHhhhe
Confidence            445678899999999999999999876422111110000    111 13556678889999932  222 2345567899


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccCHHHHH-----HHHH-HcCCeEEEecCCCC
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVAAEDAQ-----ILAE-KEGLSFLETSALEA  159 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~~~~~~-----~~~~-~~~~~~~~vSa~~~  159 (217)
                      +++++|.+-.-.++.+ ++++.+..+   +.| ++-|++..|+-.........-+     .|.. ..|+.+|.+|...+
T Consensus       137 VlLlIdgnfGfEMETm-EFLnil~~H---GmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~n  211 (1077)
T COG5192         137 VLLLIDGNFGFEMETM-EFLNILISH---GMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVEN  211 (1077)
T ss_pred             eEEEeccccCceehHH-HHHHHHhhc---CCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEeccccc
Confidence            9999999765444444 344555555   666 4568999998542211111111     1111 23678898886543

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.73  E-value=8.9e-09  Score=79.12  Aligned_cols=162  Identities=19%  Similarity=0.163  Sum_probs=97.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc---cccCCCCCcceeeEEE---EEEEC--------------------------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE---FCLESKSTIGVEFATR---TLQVE--------------------------   57 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~---~~~~~~~t~~~~~~~~---~~~~~--------------------------   57 (217)
                      .-.++|.-+|+..-||||++.++.+-.   |..+.....+....+.   .+.++                          
T Consensus        36 QATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~  115 (466)
T KOG0466|consen   36 QATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRP  115 (466)
T ss_pred             eeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccC
Confidence            456999999999999999999876521   1111111110000000   00000                          


Q ss_pred             C------eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           58 G------KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        58 ~------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      +      -...+.++|+|||+..-+.+..-..-.|++++++..+.+..-....+.+..+.-..  =..++++-||+|+..
T Consensus       116 g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~--LkhiiilQNKiDli~  193 (466)
T KOG0466|consen  116 GCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLIK  193 (466)
T ss_pred             CCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhh--hceEEEEechhhhhh
Confidence            0      01357899999998766555555555688888877665321111112222222221  245888999999965


Q ss_pred             cccc--CHHHHHHHHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          132 LRAV--AAEDAQILAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       132 ~~~~--~~~~~~~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +...  ..+++..|....   ++|++++||.-+-|++-+.++|+.++
T Consensus       194 e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkI  240 (466)
T KOG0466|consen  194 ESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKI  240 (466)
T ss_pred             HHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcC
Confidence            4332  223455555433   57999999999999999999998876

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=1.6e-07  Score=74.19  Aligned_cols=151  Identities=19%  Similarity=0.215  Sum_probs=91.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC----------------CCc-------ceeeEEEEEEEC----------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK----------------STI-------GVEFATRTLQVE----------   57 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~----------------~t~-------~~~~~~~~~~~~----------   57 (217)
                      -.+|++++|...+|||||+-.|..+..+....                .|.       +.+.....+.+.          
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            45799999999999999998887665432111                111       111111111111          


Q ss_pred             CeEEEEEEEecCChhhhccchhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc--
Q 042687           58 GKTVKAQIWDTAGQERYRAITSAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR--  133 (217)
Q Consensus        58 ~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~--  133 (217)
                      ....-++++|.+|+..|....-..+.  ..|.+.+|+++...-.+.. ++.+-.+...   ++|++++++|.|+....  
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~AL---~iPfFvlvtK~Dl~~~~~~  321 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAAL---NIPFFVLVTKMDLVDRQGL  321 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHHh---CCCeEEEEEeeccccchhH
Confidence            11123679999999988776544433  3577888888876544433 2333444444   89999999999985421  


Q ss_pred             ----------------------ccCHHHHHHHHH----HcCCeEEEecCCCCCCHHHH
Q 042687          134 ----------------------AVAAEDAQILAE----KEGLSFLETSALEALNVEKA  165 (217)
Q Consensus       134 ----------------------~~~~~~~~~~~~----~~~~~~~~vSa~~~~gv~~~  165 (217)
                                            .-...++..-++    ..-+|+|.+|+.+|+|++-+
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                                  111222222222    22258999999999998743

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=3.9e-07  Score=77.01  Aligned_cols=117  Identities=14%  Similarity=0.215  Sum_probs=70.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEE-------------------------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT-------------------------------------   53 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~-------------------------------------   53 (217)
                      ...||+|.|..++||||++|+++....-+......+.-+-.+.                                     
T Consensus       108 ~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~  187 (749)
T KOG0448|consen  108 RHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLG  187 (749)
T ss_pred             cccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccC
Confidence            4579999999999999999999876554333211111110000                                     


Q ss_pred             ------EEECCeE-----EEEEEEecCChh---hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe
Q 042687           54 ------LQVEGKT-----VKAQIWDTAGQE---RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV  119 (217)
Q Consensus        54 ------~~~~~~~-----~~~~i~D~~G~~---~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p  119 (217)
                            +..+...     -.+.++|.||-+   +...-...+...+|++|+|.++.+.....+ +.++......   ...
T Consensus       188 ~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~~---Kpn  263 (749)
T KOG0448|consen  188 AGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSEE---KPN  263 (749)
T ss_pred             cceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhcc---CCc
Confidence                  0000000     025688999943   444445667789999999999877544333 3334433332   455


Q ss_pred             EEEEEeCCCCcc
Q 042687          120 IMMAGNKSDLNH  131 (217)
Q Consensus       120 ~ivv~nK~Dl~~  131 (217)
                      +.|+.||.|...
T Consensus       264 iFIlnnkwDasa  275 (749)
T KOG0448|consen  264 IFILNNKWDASA  275 (749)
T ss_pred             EEEEechhhhhc
Confidence            777888989744

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.69  E-value=2.1e-08  Score=80.22  Aligned_cols=117  Identities=19%  Similarity=0.195  Sum_probs=90.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc--------cccCC--------CCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE--------FCLES--------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~--------~~~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      ..-+|.|+.+..+||||...|+..-.        ++...        ....+.+.....+.+++...+++++||||+..|
T Consensus        36 kirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf  115 (753)
T KOG0464|consen   36 KIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDF  115 (753)
T ss_pred             hhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceE
Confidence            34589999999999999999985421        11111        122355666777888999999999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      +-..+.+++--|+++.|||.+..-..+.+..|.+    ....++|..+++||+|...
T Consensus       116 ~leverclrvldgavav~dasagve~qtltvwrq----adk~~ip~~~finkmdk~~  168 (753)
T KOG0464|consen  116 RLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQ----ADKFKIPAHCFINKMDKLA  168 (753)
T ss_pred             EEEHHHHHHHhcCeEEEEeccCCcccceeeeehh----ccccCCchhhhhhhhhhhh
Confidence            9999999999999999999987665566666654    2334899999999999754

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.69  E-value=2.6e-06  Score=59.93  Aligned_cols=146  Identities=17%  Similarity=0.189  Sum_probs=77.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecC-Ch------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA-GQ------------------   71 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~-G~------------------   71 (217)
                      ..+||.|-|+||||||||+.++...-....+ ..  -.+....+.-++..+=|.++|+. |.                  
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 MAMKIFITGRPGVGKTTLVLKIAEKLREKGY-KV--GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCc-ee--eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            4589999999999999999988653221111 11  12334444455555556666665 31                  


Q ss_pred             ---h----hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHH
Q 042687           72 ---E----RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILA  144 (217)
Q Consensus        72 ---~----~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~  144 (217)
                         +    .........+..||++|  +|---+-.+.. ..+...+.+....+.|++..+.+.+...       -+..+.
T Consensus        81 V~v~~le~i~~~al~rA~~~aDvII--IDEIGpMElks-~~f~~~ve~vl~~~kpliatlHrrsr~P-------~v~~ik  150 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADVII--IDEIGPMELKS-KKFREAVEEVLKSGKPLIATLHRRSRHP-------LVQRIK  150 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCEEE--Eecccchhhcc-HHHHHHHHHHhcCCCcEEEEEecccCCh-------HHHHhh
Confidence               0    11122334456678554  45332222111 3344445555555889888888776422       233333


Q ss_pred             HHcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          145 EKEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       145 ~~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ...++.+|    .+..|-+.++..+...+
T Consensus       151 ~~~~v~v~----lt~~NR~~i~~~Il~~L  175 (179)
T COG1618         151 KLGGVYVF----LTPENRNRILNEILSVL  175 (179)
T ss_pred             hcCCEEEE----EccchhhHHHHHHHHHh
Confidence            33334444    34445556666666544

>cd01856 YlqF YlqF

Probab=98.68  E-value=6.6e-08  Score=70.27  Aligned_cols=58  Identities=19%  Similarity=0.294  Sum_probs=40.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      +..++++++|.+|+|||||+|++.+..+... ....+++.....+.++   ..+.++||||.
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            3457999999999999999999998776422 2222334444444444   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.

>cd01858 NGP_1 NGP-1

Probab=98.67  E-value=1.2e-07  Score=67.86  Aligned_cols=91  Identities=13%  Similarity=0.019  Sum_probs=57.7

Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      ..+..+|++++|+|+.++.... ...+...+... ..++|+++|+||+|+...... ......+...+...++.+||+.+
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~-~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~   80 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTR-CKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNP   80 (157)
T ss_pred             HhhhhCCEEEEEEECCCCcccc-CHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeecccc
Confidence            3567899999999998864211 12222233322 336899999999998642211 11122222222233578999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|++++++++.+.+
T Consensus        81 ~~~~~L~~~l~~~~   94 (157)
T cd01858          81 FGKGSLIQLLRQFS   94 (157)
T ss_pred             ccHHHHHHHHHHHH
Confidence            99999999987653

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.

>TIGR00092 GTP-binding protein YchF

Probab=98.67  E-value=1.1e-07  Score=76.25  Aligned_cols=83  Identities=16%  Similarity=0.014  Sum_probs=57.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc-ccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhh---
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF-CLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQER---   73 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~---   73 (217)
                      ++++|+|.+++|||||.+.|.+... .....+..+.+.....+.+.+.               +..+.+.|+||...   
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            7899999999999999999998876 4333333333444444444332               23578999999432   


Q ss_pred             ----hccchhhhhcCCcEEEEEEeCC
Q 042687           74 ----YRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        74 ----~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                          ........++++|++++|+++.
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2223445678999999999984

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.67  E-value=5.3e-07  Score=83.24  Aligned_cols=114  Identities=21%  Similarity=0.286  Sum_probs=70.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCC----CCCccee-eEEEEEEECCeEEEEEEEecCCh----h----hhccchhh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLES----KSTIGVE-FATRTLQVEGKTVKAQIWDTAGQ----E----RYRAITSA   80 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~----~~t~~~~-~~~~~~~~~~~~~~~~i~D~~G~----~----~~~~~~~~   80 (217)
                      =.+|+|++|+|||||++.- +..++...    ..+.+.. .......+.+.   ..++||+|.    +    .....|..
T Consensus       113 WYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~wwf~~~---avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       113 WYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWWFTDE---AVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             CEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceEecCC---EEEEcCCCccccCCCcccccHHHHHH
Confidence            3689999999999999975 44443211    1111110 11122223333   349999992    1    22334555


Q ss_pred             hh---------cCCcEEEEEEeCCCh-----hh----HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           81 YY---------RGAVGALLVYDITKR-----QT----FDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        81 ~~---------~~~d~ii~v~d~~~~-----~s----~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      ++         +..+++|+++|+.+-     +.    -..+...+.++........|+.|++||+|+..
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            43         458999999998642     11    12345556666777777999999999999854

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd01855 YqeH YqeH

Probab=98.63  E-value=7.4e-08  Score=71.20  Aligned_cols=56  Identities=16%  Similarity=0.334  Sum_probs=38.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcccc-------CCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCL-------ESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~-------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ..+++++|.+|+|||||+|+|.+.....       ......+++.....+.++.   .+.++||||
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcC
Confidence            3689999999999999999998754311       1112224445555555543   457999998

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.61  E-value=3.9e-07  Score=65.11  Aligned_cols=85  Identities=14%  Similarity=-0.008  Sum_probs=55.8

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      |++++|+|+.++.+...  .++.. ......++|+++|+||+|+...... ......+....+.+++.+||.++.|++++
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            78999999988765432  22321 1112237899999999998542211 11112233333567899999999999999


Q ss_pred             HHHHHHHHH
Q 042687          166 FQTILLDIY  174 (217)
Q Consensus       166 ~~~l~~~~~  174 (217)
                      ++.+.+...
T Consensus        77 ~~~i~~~~~   85 (155)
T cd01849          77 ESAFTKQTN   85 (155)
T ss_pred             HHHHHHHhH
Confidence            999887654

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.61  E-value=1.9e-07  Score=70.42  Aligned_cols=88  Identities=22%  Similarity=0.229  Sum_probs=56.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYYRG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~   84 (217)
                      -+|.++|.|.+|||||+..|.+-.-. +.+..| +.......+.+.+  -++++.|.||.-+       -........+.
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s~vasyeft-tl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFT-TLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCCccccccce-eEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            38999999999999999998764332 223222 2222233333444  3578999999321       11223345678


Q ss_pred             CcEEEEEEeCCChhhHHHH
Q 042687           85 AVGALLVYDITKRQTFDNV  103 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~  103 (217)
                      ++.+++|.|+..|-+...+
T Consensus       137 cnli~~vld~~kp~~hk~~  155 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKI  155 (358)
T ss_pred             ccEEEEEeeccCcccHHHH
Confidence            9999999999877655544

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.61  E-value=4e-06  Score=69.59  Aligned_cols=83  Identities=14%  Similarity=0.116  Sum_probs=57.2

Q ss_pred             EEEEEecCC-------------hhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           62 KAQIWDTAG-------------QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        62 ~~~i~D~~G-------------~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      ++.++|.||             .+....+.+.+..+.+++|+|+--.+-+.-..  ..-..+....+.+...|+|++|.|
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERS--nVTDLVsq~DP~GrRTIfVLTKVD  490 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERS--IVTDLVSQMDPHGRRTIFVLTKVD  490 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhh--hHHHHHHhcCCCCCeeEEEEeecc
Confidence            467999999             23445667889999999999985433222111  222334555566888999999999


Q ss_pred             CccccccCHHHHHHHHHH
Q 042687          129 LNHLRAVAAEDAQILAEK  146 (217)
Q Consensus       129 l~~~~~~~~~~~~~~~~~  146 (217)
                      +.+.+-.+...++++...
T Consensus       491 lAEknlA~PdRI~kIleG  508 (980)
T KOG0447|consen  491 LAEKNVASPSRIQQIIEG  508 (980)
T ss_pred             hhhhccCCHHHHHHHHhc
Confidence            988766677777776653

>cd01859 MJ1464 MJ1464

Probab=98.61  E-value=1.6e-07  Score=67.13  Aligned_cols=56  Identities=21%  Similarity=0.305  Sum_probs=38.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ...+++++|.+|+|||||+|++.+... ....++.+.+.....+..+.   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHS-ASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCc-cccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            457899999999999999999987553 23334444443333333333   577999998

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.

>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=98.60  E-value=5.1e-08  Score=69.34  Aligned_cols=58  Identities=22%  Similarity=0.293  Sum_probs=33.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccc------cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFC------LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      -++++|++|||||||+|.|......      ........++.....+..+...+   ++||||...+
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~~---iIDTPGf~~~  100 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGGY---IIDTPGFRSF  100 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSEE---EECSHHHHT-
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCcE---EEECCCCCcc
Confidence            5899999999999999999886321      11111112222334445544443   9999996543

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.60  E-value=1.8e-07  Score=73.55  Aligned_cols=58  Identities=22%  Similarity=0.373  Sum_probs=40.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ...++|+|+|.+|||||||+|+|.+....... ...+.+.....+..+.   .+.++||||-
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~-~~~g~T~~~~~~~~~~---~~~l~DtPGi  176 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTG-NRPGVTKAQQWIKLGK---GLELLDTPGI  176 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccC-CCCCeEEEEEEEEeCC---cEEEEECCCc
Confidence            35689999999999999999999987653322 2223334444444443   3669999995

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.60  E-value=1.6e-07  Score=73.54  Aligned_cols=57  Identities=19%  Similarity=0.358  Sum_probs=40.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ..++|+++|.+|||||||+|+|.+....... ...+.+.....+.++.   .+.++||||.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~~-~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKVG-NRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccC-CCCCeecceEEEEeCC---CEEEEECCCc
Confidence            4589999999999999999999987643322 2223334444455543   4579999995

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.

>cd01856 YlqF YlqF

Probab=98.58  E-value=2.6e-07  Score=67.12  Aligned_cols=91  Identities=16%  Similarity=0.019  Sum_probs=60.4

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEe
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                      .......+.++|++++|+|+.++...... .++..+     .+.|+++|+||+|+......  ....++....+..++.+
T Consensus        10 ~~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~-----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~i   81 (171)
T cd01856          10 LRQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL-----GNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFV   81 (171)
T ss_pred             HHHHHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh-----cCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEE
Confidence            33446678899999999999876432211 122211     15789999999998642211  11212223334578999


Q ss_pred             cCCCCCCHHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLDI  173 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~~  173 (217)
                      ||+++.|++++.+.+...+
T Consensus        82 Sa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          82 NAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             ECCCcccHHHHHHHHHHHH
Confidence            9999999999999888765

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.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.57  E-value=2.6e-07  Score=78.77  Aligned_cols=118  Identities=15%  Similarity=0.209  Sum_probs=81.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccC--------------CCCCcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE--------------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~--------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      ..+..-+|+++-+...|||||...|+....-..              ...+.+.+-....+..-...+.++++|+|||-.
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            445667999999999999999999876432111              112223333333334434556788999999999


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      |.+.......-+|++++++|+...-+-+...-+.+.+.+    +...++|+||+|.
T Consensus        85 f~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~----~~~~~lvinkidr  136 (887)
T KOG0467|consen   85 FSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIE----GLKPILVINKIDR  136 (887)
T ss_pred             hhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHc----cCceEEEEehhhh
Confidence            999999999999999999999765444442222222222    5667889999994

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.56  E-value=6.4e-06  Score=66.63  Aligned_cols=143  Identities=20%  Similarity=0.234  Sum_probs=85.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcc-----------------ccC----CCCCcceeeE---EEEEEE-CCeEEEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEF-----------------CLE----SKSTIGVEFA---TRTLQV-EGKTVKAQI   65 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~-----------------~~~----~~~t~~~~~~---~~~~~~-~~~~~~~~i   65 (217)
                      ..+=|.||||.-+||||||.||...-+                 +..    ...|+.-.+.   ...+.+ ++..+++.+
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            346789999999999999999965311                 111    1111111121   233444 567889999


Q ss_pred             EecCCh-------------hhh-ccchh---------------hhh--cCCcEEEEEEeCC--C--hhhHHHH-HHHHHH
Q 042687           66 WDTAGQ-------------ERY-RAITS---------------AYY--RGAVGALLVYDIT--K--RQTFDNV-TRWLRE  109 (217)
Q Consensus        66 ~D~~G~-------------~~~-~~~~~---------------~~~--~~~d~ii~v~d~~--~--~~s~~~~-~~~~~~  109 (217)
                      +||.|-             +++ ..-|.               ..+  +..-++++.-|.+  +  ++.+..+ ++.+..
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            999981             000 00011               011  1234566665653  2  4444444 455555


Q ss_pred             HHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC
Q 042687          110 LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus       110 i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      +++.   ++|+++++|-.+.....  ..+...++..+++++++++++..
T Consensus       176 Lk~i---gKPFvillNs~~P~s~e--t~~L~~eL~ekY~vpVlpvnc~~  219 (492)
T PF09547_consen  176 LKEI---GKPFVILLNSTKPYSEE--TQELAEELEEKYDVPVLPVNCEQ  219 (492)
T ss_pred             HHHh---CCCEEEEEeCCCCCCHH--HHHHHHHHHHHhCCcEEEeehHH
Confidence            6555   99999999998854322  24456777888899999887653

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.53  E-value=2e-07  Score=74.30  Aligned_cols=57  Identities=19%  Similarity=0.337  Sum_probs=42.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ..++++|+|.+|||||||||+|.+....... +..|.+.....+.++..   +.++||||-
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s-~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTS-NRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeC-CCCceecceEEEEcCCC---eEEecCCCc
Confidence            3478999999999999999999998763332 33355566666666654   569999994

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.48  E-value=1.9e-06  Score=68.46  Aligned_cols=151  Identities=16%  Similarity=0.127  Sum_probs=81.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc----------------CCCCCcceeeEEEEEE-------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL----------------ESKSTIGVEFATRTLQ-------------------   55 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~----------------~~~~t~~~~~~~~~~~-------------------   55 (217)
                      ...+|+++|...+|||||+-.|..+..+.                ++..|........-++                   
T Consensus       132 ~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWv  211 (641)
T KOG0463|consen  132 IEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWV  211 (641)
T ss_pred             eeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCcccce
Confidence            34799999999999999997665543211                1111111111111111                   


Q ss_pred             --ECCeEEEEEEEecCChhhhccchhh--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           56 --VEGKTVKAQIWDTAGQERYRAITSA--YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        56 --~~~~~~~~~i~D~~G~~~~~~~~~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                        +.+..--++++|.+|++.|-...-.  .-.-.|...+++-++-.- .-..++.+-....   ..+|+++|++|+|+..
T Consensus       212 kIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLALa---L~VPVfvVVTKIDMCP  287 (641)
T KOG0463|consen  212 KICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLALA---LHVPVFVVVTKIDMCP  287 (641)
T ss_pred             eeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhhh---hcCcEEEEEEeeccCc
Confidence              1122234789999999987654322  123346666666554321 1111222222222   2899999999999854


Q ss_pred             ccccCHH--HHH--------------------------HHHHHcCCeEEEecCCCCCCHHHH
Q 042687          132 LRAVAAE--DAQ--------------------------ILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus       132 ~~~~~~~--~~~--------------------------~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      .+.+.+.  .+.                          .|..+.-+|+|.+|-.+|.|++-+
T Consensus       288 ANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  288 ANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             HHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence            3222111  111                          122222367899999999998733

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.48  E-value=6e-07  Score=63.10  Aligned_cols=77  Identities=17%  Similarity=0.128  Sum_probs=52.3

Q ss_pred             hhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecC
Q 042687           79 SAYYRGAVGALLVYDITKRQTFD--NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                      ...+..+|++++|+|+.++.+..  .+.+|+.   ... .++|+++|+||+|+.....  ..+........+.+++++||
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~---~~~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa   79 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVK---EVD-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSA   79 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHH---hcc-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEe
Confidence            45678999999999998876533  3333333   222 3789999999999864322  22344455566788999999


Q ss_pred             CCCCC
Q 042687          157 LEALN  161 (217)
Q Consensus       157 ~~~~g  161 (217)
                      .++.+
T Consensus        80 ~~~~~   84 (141)
T cd01857          80 LKENA   84 (141)
T ss_pred             cCCCc
Confidence            88753

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.46  E-value=9.1e-07  Score=71.61  Aligned_cols=83  Identities=14%  Similarity=0.162  Sum_probs=59.2

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHH-HcCCeEEEecCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-KEGLSFLETSALEAL  160 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~  160 (217)
                      ..++|.+++|+++...-....+++++..+...   +++.+||+||+|+.+...   .....+.. ..+.+++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCc
Confidence            57999999999996444444556666555444   778899999999965311   11222222 456899999999999


Q ss_pred             CHHHHHHHHH
Q 042687          161 NVEKAFQTIL  170 (217)
Q Consensus       161 gv~~~~~~l~  170 (217)
                      |++++..+|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999988874

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.45  E-value=6.3e-07  Score=64.01  Aligned_cols=56  Identities=18%  Similarity=0.296  Sum_probs=37.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   70 (217)
                      ....+|+++|.+|+|||||+|.+.+.... ....+..+..  ...+..+   ..+.++||||
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~--~~~~~~~---~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTS--QQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccc--eEEEEec---CCEEEEECCC
Confidence            34588999999999999999999986532 2222222222  2223333   2467999998

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=98.45  E-value=1.1e-06  Score=68.72  Aligned_cols=99  Identities=16%  Similarity=0.058  Sum_probs=64.3

Q ss_pred             CChh-hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc
Q 042687           69 AGQE-RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE  147 (217)
Q Consensus        69 ~G~~-~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~  147 (217)
                      |||- .........+..+|++++|+|+.++.+... ..+...+     .+.|+++|+||+|+.+...  ...........
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~-~~i~~~l-----~~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~   76 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN-PMIDEIR-----GNKPRLIVLNKADLADPAV--TKQWLKYFEEK   76 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC-hhHHHHH-----CCCCEEEEEEccccCCHHH--HHHHHHHHHHc
Confidence            5543 223334567889999999999977644222 1111112     1679999999999864221  11222222334


Q ss_pred             CCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          148 GLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       148 ~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +.+++.+||.++.|++++.+.+.+.+.+
T Consensus        77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        77 GIKALAINAKKGKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            5688999999999999999988876644

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.42  E-value=2.8e-06  Score=64.39  Aligned_cols=86  Identities=16%  Similarity=0.098  Sum_probs=52.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC--ccccCCC---CCcceeeEEEEEEECCeEEEEEEEecCChhhh------ccch
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN--EFCLESK---STIGVEFATRTLQVEGKTVKAQIWDTAGQERY------RAIT   78 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~--~~~~~~~---~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------~~~~   78 (217)
                      .+..-|.|+|++++|||+|+|.|.+.  .+.....   .|.+.-.....+. .+....+.++||+|....      ....
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~-~~~~~~v~~lDteG~~~~~~~~~~~~~~   83 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFK-LGKEHAVLLLDTEGTDGRERGEFEDDAR   83 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEecccc-CCCcceEEEEecCCcCccccCchhhhhH
Confidence            35578999999999999999999998  6653332   2222111111111 123357889999995422      1122


Q ss_pred             hhhhcC--CcEEEEEEeCCC
Q 042687           79 SAYYRG--AVGALLVYDITK   96 (217)
Q Consensus        79 ~~~~~~--~d~ii~v~d~~~   96 (217)
                      ...+..  +|++|+..+...
T Consensus        84 ~~~l~~llss~~i~n~~~~~  103 (224)
T cd01851          84 LFALATLLSSVLIYNSWETI  103 (224)
T ss_pred             HHHHHHHHhCEEEEeccCcc
Confidence            233333  788888777654

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

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.40  E-value=9e-07  Score=73.98  Aligned_cols=119  Identities=18%  Similarity=0.148  Sum_probs=82.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc---CCC-------------CCcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL---ESK-------------STIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~---~~~-------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      +..-+|.+.-+-.+||||+.+++..-..-.   ...             ...+++.......+.+..++++++|||||-.
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvD  116 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVD  116 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCcee
Confidence            345689999999999999999875421100   000             1113333333344455577899999999999


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      |.-..+..++-.|++|++++....-.-+...-|.+.    ..+++|.+.++||.|....
T Consensus       117 FT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~----~ry~vP~i~FiNKmDRmGa  171 (721)
T KOG0465|consen  117 FTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQM----KRYNVPRICFINKMDRMGA  171 (721)
T ss_pred             EEEEehhhhhhccCeEEEEEcccceehhhHHHHHHH----HhcCCCeEEEEehhhhcCC
Confidence            988889999999999999998765443444455432    2338999999999997553

>PRK12288 GTPase RsgA; Reviewed

Probab=98.38  E-value=8.5e-07  Score=71.34  Aligned_cols=58  Identities=21%  Similarity=0.319  Sum_probs=35.7

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCC------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLES------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      ++|+|.+|||||||+|+|.+.......      .....++.....+.+.+..   .++||||...+.
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            789999999999999999876432111      1111122223334443322   399999976544

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.38  E-value=2.8e-06  Score=60.90  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -+++.|..|+|||||++++...
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3679999999999999998765

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.

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.37  E-value=7.1e-06  Score=61.77  Aligned_cols=161  Identities=20%  Similarity=0.256  Sum_probs=96.5

Q ss_pred             eEEEEEcCCCC--CHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           13 FKIVLIGDSGV--GKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        13 ~~i~i~G~~~~--GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .-++|+|..|+  ||.+|+.+|....+.........+.+...++........+.+.-.+--+++.-..........++++
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishicde~~lpn~~~a~pl~a~vm   84 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHICDEKFLPNAEIAEPLQAFVM   84 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeecccchhccCCcccccceeeEEE
Confidence            46789999999  9999999998887766555444445555443322211112221111112221112223345578999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc------------------ccc------------------
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH------------------LRA------------------  134 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------------~~~------------------  134 (217)
                      +||++....+..+..|+....-.  .--.+++++||.|...                  .+.                  
T Consensus        85 vfdlse~s~l~alqdwl~htdin--sfdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssl  162 (418)
T KOG4273|consen   85 VFDLSEKSGLDALQDWLPHTDIN--SFDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSL  162 (418)
T ss_pred             EEeccchhhhHHHHhhccccccc--cchhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccccc
Confidence            99999988899998887532111  0122567899999621                  000                  


Q ss_pred             --------cCHHHHHHHHHHcCCeEEEecCCC------------CCCHHHHHHHHHHHHHH
Q 042687          135 --------VAAEDAQILAEKEGLSFLETSALE------------ALNVEKAFQTILLDIYH  175 (217)
Q Consensus       135 --------~~~~~~~~~~~~~~~~~~~vSa~~------------~~gv~~~~~~l~~~~~~  175 (217)
                              .......+|+.+.++.+++.++..            ..|++.+|..|-.++..
T Consensus       163 lgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmwp  223 (418)
T KOG4273|consen  163 LGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMWP  223 (418)
T ss_pred             cccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccCc
Confidence                    011234677888899999988743            25678888777665543

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.36  E-value=8e-07  Score=69.04  Aligned_cols=59  Identities=25%  Similarity=0.312  Sum_probs=39.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC------ccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN------EFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      -.+++|++|||||||+|+|...      ..+........++.....+.+++..+   ++||||...+.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~---iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGGW---IIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCCE---EEeCCCCCccC
Confidence            5789999999999999999763      22233323333344455566654443   99999976544

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.35  E-value=2.7e-06  Score=66.94  Aligned_cols=100  Identities=17%  Similarity=0.116  Sum_probs=65.1

Q ss_pred             cCChh-hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH
Q 042687           68 TAGQE-RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK  146 (217)
Q Consensus        68 ~~G~~-~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~  146 (217)
                      .|||- .-.......+..+|++++|+|+.++.+...  .++....   . +.|+++|+||+|+.+...  ......+...
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~---~-~kp~iiVlNK~DL~~~~~--~~~~~~~~~~   78 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII---G-NKPRLLILNKSDLADPEV--TKKWIEYFEE   78 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh---C-CCCEEEEEEchhcCCHHH--HHHHHHHHHH
Confidence            46653 223334567889999999999977644222  1122211   1 688999999999864211  1122222334


Q ss_pred             cCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          147 EGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       147 ~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      .+.+++.+|+.++.|++++.+.+.+.+.+
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLKE  107 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            46788999999999999999988876644

>PRK13796 GTPase YqeH; Provisional

Probab=98.33  E-value=4.3e-06  Score=68.01  Aligned_cols=92  Identities=20%  Similarity=0.272  Sum_probs=60.0

Q ss_pred             hhccchhhhhcCCc-EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH----HHHHHc
Q 042687           73 RYRAITSAYYRGAV-GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ----ILAEKE  147 (217)
Q Consensus        73 ~~~~~~~~~~~~~d-~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~~~  147 (217)
                      .|...... +..++ .+++|+|+.|..     ..|...+..... +.|+++|+||+|+.. .....+++.    .++...
T Consensus        58 ~~~~~l~~-i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         58 DFLKLLNG-IGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-NNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             HHHHHHHh-hcccCcEEEEEEECccCC-----CchhHHHHHHhC-CCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhc
Confidence            44444433 34445 899999997743     123333333333 678999999999964 222233333    335555


Q ss_pred             CC---eEEEecCCCCCCHHHHHHHHHHH
Q 042687          148 GL---SFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       148 ~~---~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ++   .++.+||+++.|++++++.|.+.
T Consensus       130 g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            65   58999999999999999998653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.33  E-value=1.4e-05  Score=62.33  Aligned_cols=96  Identities=15%  Similarity=0.064  Sum_probs=55.7

Q ss_pred             EEEEEEecCChhhhccch----h---hhh-----cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           61 VKAQIWDTAGQERYRAIT----S---AYY-----RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~----~---~~~-----~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      +.+.++||||........    .   ...     ...|..++|+|++...  +.+.. ...+.+..   .+.-+|+||.|
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~~-~~~f~~~~---~~~g~IlTKlD  228 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALEQ-AKVFNEAV---GLTGIILTKLD  228 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHHH-HHHHHhhC---CCCEEEEEccC
Confidence            567899999964322111    1   111     2378999999997532  23222 22333221   23568899999


Q ss_pred             CccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687          129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus       129 l~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      ....    .-.+..+....+.|+..++  +|.+++++-..
T Consensus       229 e~~~----~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~~  262 (272)
T TIGR00064       229 GTAK----GGIILSIAYELKLPIKFIG--VGEKIDDLAPF  262 (272)
T ss_pred             CCCC----ccHHHHHHHHHCcCEEEEe--CCCChHhCccC
Confidence            6431    2234445556688988887  66777776443

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.31  E-value=1.1e-05  Score=66.41  Aligned_cols=86  Identities=14%  Similarity=0.033  Sum_probs=46.3

Q ss_pred             EEEEEEEecCChhhhccc----hhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           60 TVKAQIWDTAGQERYRAI----TSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~----~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      .+.+.|+||+|.......    ...+  ....|-+++|.|++-.+...   .....+.+.   -.+.-+|+||.|... +
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~---~~~~g~IlTKlD~~a-r  254 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS---VDVGSVIITKLDGHA-K  254 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc---cCCcEEEEECccCCC-C
Confidence            356789999995322111    1111  23567899999986543222   222333332   235678899999643 1


Q ss_pred             ccCHHHHHHHHHHcCCeEEEec
Q 042687          134 AVAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~vS  155 (217)
                         .-.+..+....+.|+..++
T Consensus       255 ---gG~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       255 ---GGGALSAVAATKSPIIFIG  273 (429)
T ss_pred             ---ccHHhhhHHHHCCCeEEEc
Confidence               1123334445566655553

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.30  E-value=1e-05  Score=64.76  Aligned_cols=96  Identities=16%  Similarity=0.062  Sum_probs=55.1

Q ss_pred             EEEEEEecCChhhhcc----chhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRA----ITSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.++||+|......    .....  ....|..++|.|+...+.   .......+....   .+--+|+||.|... + 
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d---~~~~a~~f~~~~---~~~giIlTKlD~~~-~-  294 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGND---AVEQAREFNEAV---GIDGVILTKVDADA-K-  294 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchh---HHHHHHHHHhcC---CCCEEEEeeecCCC-C-
Confidence            4578999999542111    11111  235788899999865431   111122232221   22467889999753 1 


Q ss_pred             cCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687          135 VAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                        .-.+-.++...+.|+..++  +|.+++++..+
T Consensus       295 --~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~  324 (336)
T PRK14974        295 --GGAALSIAYVIGKPILFLG--VGQGYDDLIPF  324 (336)
T ss_pred             --ccHHHHHHHHHCcCEEEEe--CCCChhhcccC
Confidence              1234444555688988886  68888877543

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=7.3e-06  Score=74.51  Aligned_cols=113  Identities=24%  Similarity=0.299  Sum_probs=65.8

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCC-C--CCc-ceeeEEEEEEECCeEEEEEEEecCCh--------hhhccchhhh-
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLES-K--STI-GVEFATRTLQVEGKTVKAQIWDTAGQ--------ERYRAITSAY-   81 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~-~--~t~-~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~-   81 (217)
                      -+|+|++|+||||++.. .+..|+... .  ... +........-+.+   .-.++||.|.        +.....|..+ 
T Consensus       128 y~viG~pgsGKTtal~~-sgl~Fpl~~~~~~~~~~~~gT~~cdwwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~fL  203 (1188)
T COG3523         128 YMVIGPPGSGKTTALLN-SGLQFPLAEQMGALGLAGPGTRNCDWWFTD---EAVLIDTAGRYITQDSADEVDRAEWLGFL  203 (1188)
T ss_pred             eEEecCCCCCcchHHhc-ccccCcchhhhccccccCCCCcccCccccc---ceEEEcCCcceecccCcchhhHHHHHHHH
Confidence            47999999999999974 333332111 1  110 1110111112223   3449999992        1334445544 


Q ss_pred             --------hcCCcEEEEEEeCCCh-----hh----HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           82 --------YRGAVGALLVYDITKR-----QT----FDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        82 --------~~~~d~ii~v~d~~~~-----~s----~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                              .+..++||+..|+++-     ..    ...+..-+.++.+......|++|++||.|+..
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                    2568999999998642     11    12233334556666667899999999999864

>PRK12289 GTPase RsgA; Reviewed

Probab=98.30  E-value=1.3e-06  Score=70.27  Aligned_cols=56  Identities=21%  Similarity=0.247  Sum_probs=34.8

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCC------CCCcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLES------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      ++|+|++|||||||+|+|.+.......      .....++.....+.+.+..   .++||||...
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~  236 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQ  236 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccc
Confidence            799999999999999999875432111      1111122333444453322   4999999643

>PRK13796 GTPase YqeH; Provisional

Probab=98.30  E-value=1.4e-06  Score=70.87  Aligned_cols=56  Identities=18%  Similarity=0.375  Sum_probs=36.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc----cCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC----LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~----~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      .++.|+|.+|||||||+|+|......    ....+..+++.....+.+++.   ..++||||-
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi  220 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGI  220 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCc
Confidence            47999999999999999999854311    111122233344444545443   259999995

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.29  E-value=1.7e-06  Score=66.44  Aligned_cols=56  Identities=23%  Similarity=0.222  Sum_probs=34.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccC------CCCCcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLE------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      .++++|++|||||||+|+|.+......      ......++.....+...+.    .++||||-..
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~~----~liDtPG~~~  183 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHGG----LIADTPGFNE  183 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCCc----EEEeCCCccc
Confidence            689999999999999999987533211      1111112222333334332    4999999654

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.29  E-value=4.4e-06  Score=63.76  Aligned_cols=117  Identities=25%  Similarity=0.380  Sum_probs=69.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCC----cceeeEEEEEEECCeEEEEEEEecCCh-------hhh----
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKST----IGVEFATRTLQVEGKTVKAQIWDTAGQ-------ERY----   74 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t----~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~----   74 (217)
                      ...++|+-+|..|.|||||+..|++-.+.....+.    .........+.-.+..++++++||.|-       +.|    
T Consensus        40 GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iV  119 (406)
T KOG3859|consen   40 GFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIV  119 (406)
T ss_pred             CceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHH
Confidence            35689999999999999999999998876544322    222222222223566788999999991       111    


Q ss_pred             ---ccchhhh-------------hc--CCcEEEEEEeCCChhhHHHHHH-HHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           75 ---RAITSAY-------------YR--GAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        75 ---~~~~~~~-------------~~--~~d~ii~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                         .+....|             +.  ..+++++.+.++ ..++..+.- .+..+.    ..+.+|-++.|+|-..
T Consensus       120 dyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PT-GH~LKslDLvtmk~Ld----skVNIIPvIAKaDtis  190 (406)
T KOG3859|consen  120 DYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPT-GHSLKSLDLVTMKKLD----SKVNIIPVIAKADTIS  190 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCC-CcchhHHHHHHHHHHh----hhhhhHHHHHHhhhhh
Confidence               1112222             23  356666666665 345555422 122222    2566777788888643

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.27  E-value=1.9e-05  Score=62.86  Aligned_cols=145  Identities=17%  Similarity=0.213  Sum_probs=78.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC-------CCC--------------CcceeeEEEEEEE-------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE-------SKS--------------TIGVEFATRTLQV-------------   56 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~-------~~~--------------t~~~~~~~~~~~~-------------   56 (217)
                      ..--|+++|++|+||||++..|...-....       .+.              -.+..+.......             
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~  192 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAA  192 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            346889999999999999998854211000       000              0011111100000             


Q ss_pred             CCeEEEEEEEecCChhhhccc----hhhh--------hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEE
Q 042687           57 EGKTVKAQIWDTAGQERYRAI----TSAY--------YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG  124 (217)
Q Consensus        57 ~~~~~~~~i~D~~G~~~~~~~----~~~~--------~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~  124 (217)
                      ....+.+.++||||.......    ....        -...+..++|.|++...  ..+... ..+.+.   -.+.-+|+
T Consensus       193 ~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~a-~~f~~~---~~~~giIl  266 (318)
T PRK10416        193 KARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQA-KAFHEA---VGLTGIIL  266 (318)
T ss_pred             HhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHHH-HHHHhh---CCCCEEEE
Confidence            012346789999995321111    1111        12467789999998532  222221 222222   12346888


Q ss_pred             eCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687          125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       125 nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      ||.|... +   .-.+..++...++|+..++  +|.+++++-.
T Consensus       267 TKlD~t~-~---~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        267 TKLDGTA-K---GGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             ECCCCCC-C---ccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            9999543 1   2234555667799999887  6777777643

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.26  E-value=2.5e-06  Score=69.27  Aligned_cols=57  Identities=16%  Similarity=0.360  Sum_probs=37.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc----cCCCCCcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC----LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~----~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      .+|+++|.+|||||||+|+|.+....    .......+++.....+.+++.   +.++||||-.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCC
Confidence            58999999999999999999875321    111122233344444555332   3599999943

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.23  E-value=1.3e-05  Score=62.49  Aligned_cols=93  Identities=17%  Similarity=0.095  Sum_probs=67.5

Q ss_pred             cchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEe
Q 042687           76 AITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                      .+.+....+.|-+++|+.+.+|+ +...+.+++-.....   ++..+|++||+|+.........+........+++++.+
T Consensus        71 ~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~---gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~  147 (301)
T COG1162          71 VLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAG---GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFV  147 (301)
T ss_pred             ceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHc---CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEe
Confidence            33444456688889999998876 555556655444333   67778889999997644433345566677789999999


Q ss_pred             cCCCCCCHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILL  171 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~  171 (217)
                      |++++.|++++..++..
T Consensus       148 s~~~~~~~~~l~~~l~~  164 (301)
T COG1162         148 SAKNGDGLEELAELLAG  164 (301)
T ss_pred             cCcCcccHHHHHHHhcC
Confidence            99999999999887754

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

Probab=98.19  E-value=2e-05  Score=58.97  Aligned_cols=75  Identities=27%  Similarity=0.255  Sum_probs=46.0

Q ss_pred             EEEEec-CChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCC-CeEEEEEeCCCCccccccCHHHH
Q 042687           63 AQIWDT-AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        63 ~~i~D~-~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.++|| +|.+.|.   +...+++|.+|.|.|++ ..++...++......+.   + .++.+|+||.|-.      ....
T Consensus       136 ~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS-~~sl~taeri~~L~~el---g~k~i~~V~NKv~e~------e~~~  202 (255)
T COG3640         136 VVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPS-YKSLRTAERIKELAEEL---GIKRIFVVLNKVDEE------EELL  202 (255)
T ss_pred             EEEEecccchhhhc---cccccCCCEEEEEeCCc-HHHHHHHHHHHHHHHHh---CCceEEEEEeeccch------hHHH
Confidence            445555 3333222   34567899999999997 45666665544433333   4 7899999999843      2334


Q ss_pred             HHHHHHcCCe
Q 042687          141 QILAEKEGLS  150 (217)
Q Consensus       141 ~~~~~~~~~~  150 (217)
                      ...+...+.+
T Consensus       203 ~~~~~~~~~~  212 (255)
T COG3640         203 RELAEELGLE  212 (255)
T ss_pred             HhhhhccCCe
Confidence            4445555544

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.13  E-value=3.3e-06  Score=69.42  Aligned_cols=56  Identities=20%  Similarity=0.245  Sum_probs=41.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      .+.|++||.|||||||+||.|++.+.-. -..|.|-+..-.++.+..   .+.+.||||.
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVS-VSSTPGKTKHFQTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceee-eecCCCCcceeEEEEcCC---CceecCCCCc
Confidence            5899999999999999999999987632 234445445555555554   3459999994

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.12  E-value=2e-05  Score=63.83  Aligned_cols=137  Identities=16%  Similarity=0.121  Sum_probs=70.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcccc---CCCCCcceee------------------EEEEEEEC---------CeEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCL---ESKSTIGVEF------------------ATRTLQVE---------GKTV   61 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~---~~~~t~~~~~------------------~~~~~~~~---------~~~~   61 (217)
                      .-.++|+|++||||||++.+|.......   ......+.+.                  ......-.         ....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~  216 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNK  216 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCC
Confidence            3578899999999999999986532110   0000000000                  00000000         0123


Q ss_pred             EEEEEecCChhhhccch---hhhh---cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHhhcC--C---CCeEEEEEeCCCC
Q 042687           62 KAQIWDTAGQERYRAIT---SAYY---RGAVGALLVYDITKR-QTFDNVTRWLRELRDHAD--S---NIVIMMAGNKSDL  129 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~---~~~~---~~~d~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~--~---~~p~ivv~nK~Dl  129 (217)
                      .+.++||+|........   ...+   ...+-.++|++++.. +.+..+   +..+.....  .   .-+--+|+||.|.
T Consensus       217 DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~ev---i~~f~~~~~~p~~~~~~~~~~I~TKlDE  293 (374)
T PRK14722        217 HMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEV---VQAYRSAAGQPKAALPDLAGCILTKLDE  293 (374)
T ss_pred             CEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHH---HHHHHHhhcccccccCCCCEEEEecccc
Confidence            57899999954322211   1112   233456888888753 333333   333332210  0   0123578899995


Q ss_pred             ccccccCHHHHHHHHHHcCCeEEEec
Q 042687          130 NHLRAVAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~vS  155 (217)
                      ..    ..-.+..+....+.|+..++
T Consensus       294 t~----~~G~~l~~~~~~~lPi~yvt  315 (374)
T PRK14722        294 AS----NLGGVLDTVIRYKLPVHYVS  315 (374)
T ss_pred             CC----CccHHHHHHHHHCcCeEEEe
Confidence            43    22345666777788877664

>PRK00098 GTPase RsgA; Reviewed

Probab=98.12  E-value=5.8e-06  Score=65.42  Aligned_cols=57  Identities=26%  Similarity=0.293  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCC-C-----CcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESK-S-----TIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~-----t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      .++++|++|||||||+|.|.+........ +     ...++.....+.+++..   .++||||-..
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~~---~~~DtpG~~~  228 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGGG---LLIDTPGFSS  228 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCCc---EEEECCCcCc
Confidence            58999999999999999998754322111 0     01112223333344322   4999999743

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.12  E-value=7.4e-06  Score=64.49  Aligned_cols=59  Identities=22%  Similarity=0.296  Sum_probs=36.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCC------CCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESK------STIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      -.++++|++|+|||||+|.|.+........      ....++.....+...+..   .++||||...+
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~---~liDtPG~~~~  226 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGG---LLIDTPGFREF  226 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCC---EEEECCCCCcc
Confidence            469999999999999999998764322111      111122223334443222   49999998654

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.

>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=98.11  E-value=4.4e-05  Score=55.18  Aligned_cols=135  Identities=17%  Similarity=0.231  Sum_probs=63.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEec-CCh---------------------
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT-AGQ---------------------   71 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~-~G~---------------------   71 (217)
                      ||+|-|++|+|||||+++++..-... ..+.  ..+....+.-++..+-+.+.|. .|.                     
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 HIFITGPPGVGKTTLLKKVIEELKKK-GLPV--GGFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHT-CGGE--EEEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhcc-CCcc--ceEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            68999999999999999987532111 1111  1122222233344444445554 221                     


Q ss_pred             -hhhcc----chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCC-CCccccccCHHHHHHHHH
Q 042687           72 -ERYRA----ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS-DLNHLRAVAAEDAQILAE  145 (217)
Q Consensus        72 -~~~~~----~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~-Dl~~~~~~~~~~~~~~~~  145 (217)
                       +.+..    .....+..+|  ++++|---+-.+. ...|...+......++|++.++.+. +.+        -++.+..
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl~-~~~F~~~v~~~l~s~~~vi~vv~~~~~~~--------~l~~i~~  146 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMELK-SPGFREAVEKLLDSNKPVIGVVHKRSDNP--------FLEEIKR  146 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCCC--CHHHHHHHHHHCTTSEEEEE--SS--SC--------CHHHHHT
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhhc-CHHHHHHHHHHHcCCCcEEEEEecCCCcH--------HHHHHHh
Confidence             11111    1122234666  6666742211000 0223334444444588988888776 321        3455666


Q ss_pred             HcCCeEEEecCCCCCCH
Q 042687          146 KEGLSFLETSALEALNV  162 (217)
Q Consensus       146 ~~~~~~~~vSa~~~~gv  162 (217)
                      ..++.+++++..+.+-+
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            67788998876655443

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.

>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=98.09  E-value=8.2e-05  Score=61.20  Aligned_cols=123  Identities=16%  Similarity=0.174  Sum_probs=79.1

Q ss_pred             eEEEEEEE-CCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh-------hHHHHHHHHHHHHhhcC----C
Q 042687           49 FATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-------TFDNVTRWLRELRDHAD----S  116 (217)
Q Consensus        49 ~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-------s~~~~~~~~~~i~~~~~----~  116 (217)
                      .....+.+ ++  ..+.++|++|+...+..|..++.+++++|||+++++-+       ....+.+-+..+...+.    .
T Consensus       225 i~e~~f~~~~~--~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~  302 (389)
T PF00503_consen  225 ITEIDFNFSGS--RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFK  302 (389)
T ss_dssp             EEEEEEEE-TT--EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGT
T ss_pred             eeEEEEEeecc--cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccc
Confidence            33344445 44  46779999999999999999999999999999986522       11223333333333322    4


Q ss_pred             CCeEEEEEeCCCCcc------c-----------c-ccCHHHHHHHHHH------------cCCeEEEecCCCCCCHHHHH
Q 042687          117 NIVIMMAGNKSDLNH------L-----------R-AVAAEDAQILAEK------------EGLSFLETSALEALNVEKAF  166 (217)
Q Consensus       117 ~~p~ivv~nK~Dl~~------~-----------~-~~~~~~~~~~~~~------------~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +.|++|++||.|+-.      .           . .-....+..+...            ..+.+..++|.+...+..+|
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            799999999999721      0           0 0223344333321            22356788999888899999


Q ss_pred             HHHHHHH
Q 042687          167 QTILLDI  173 (217)
Q Consensus       167 ~~l~~~~  173 (217)
                      +.+.+.+
T Consensus       383 ~~v~~~i  389 (389)
T PF00503_consen  383 NAVKDII  389 (389)
T ss_dssp             HHHHHHH
T ss_pred             HHhcCcC
Confidence            8887643

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 ....

>PRK13695 putative NTPase; Provisional

Probab=98.06  E-value=0.00016  Score=52.65  Aligned_cols=22  Identities=32%  Similarity=0.652  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|.|.+|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998654

>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=98.01  E-value=8e-05  Score=55.26  Aligned_cols=85  Identities=18%  Similarity=0.087  Sum_probs=46.8

Q ss_pred             EEEEEEecCChhhhcc----chhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRA----ITSAYY--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~----~~~~~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.++||+|......    .+..++  ...+-+++|.+++...  +.+..+.. +....  + +--++++|.|...   
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~--~~~~~~~~-~~~~~--~-~~~lIlTKlDet~---  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQ--EDLEQALA-FYEAF--G-IDGLILTKLDETA---  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGG--HHHHHHHH-HHHHS--S-TCEEEEESTTSSS---
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccCh--HHHHHHHH-Hhhcc--c-CceEEEEeecCCC---
Confidence            3477999999432211    111111  2567788999987643  23322222 22221  1 2256789999643   


Q ss_pred             cCHHHHHHHHHHcCCeEEEec
Q 042687          135 VAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vS  155 (217)
                       ..-.+-.++...+.|+-.++
T Consensus       155 -~~G~~l~~~~~~~~Pi~~it  174 (196)
T PF00448_consen  155 -RLGALLSLAYESGLPISYIT  174 (196)
T ss_dssp             -TTHHHHHHHHHHTSEEEEEE
T ss_pred             -CcccceeHHHHhCCCeEEEE
Confidence             22346667777888877775

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 ....

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.00  E-value=0.00011  Score=59.54  Aligned_cols=134  Identities=19%  Similarity=0.225  Sum_probs=71.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcc--ccCCC-CCcceeeEE-EE--------------EEE--C----------CeEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEF--CLESK-STIGVEFAT-RT--------------LQV--E----------GKTV   61 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~--~~~~~-~t~~~~~~~-~~--------------~~~--~----------~~~~   61 (217)
                      .-.|++|||.||||||-+.+|.....  ...+. .-.+++.+. ..              +..  .          -..+
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            45799999999999999988865433  11110 001111110 00              000  0          0123


Q ss_pred             EEEEEecCChhhhccc----hhhhhcCC--cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERYRAI----TSAYYRGA--VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~----~~~~~~~~--d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.++||.|...+...    ...++..+  .-.-+|++++.  ..+.+++.+..++...   . --+++||.|-..    
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~--K~~dlkei~~~f~~~~---i-~~~I~TKlDET~----  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT--KYEDLKEIIKQFSLFP---I-DGLIFTKLDETT----  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc--chHHHHHHHHHhccCC---c-ceeEEEcccccC----
Confidence            5789999996543333    23333322  33455666654  2355666666655432   1 246779999543    


Q ss_pred             CHHHHHHHHHHcCCeEEEec
Q 042687          136 AAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vS  155 (217)
                      ..-..-.+..+.+.|+-.++
T Consensus       353 s~G~~~s~~~e~~~PV~YvT  372 (407)
T COG1419         353 SLGNLFSLMYETRLPVSYVT  372 (407)
T ss_pred             chhHHHHHHHHhCCCeEEEe
Confidence            23345556666677766654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.99  E-value=0.0001  Score=59.87  Aligned_cols=133  Identities=17%  Similarity=0.184  Sum_probs=70.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc---------ccCCCC------------CcceeeEEEE--------E-EEC-CeEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF---------CLESKS------------TIGVEFATRT--------L-QVE-GKTV   61 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~---------~~~~~~------------t~~~~~~~~~--------~-~~~-~~~~   61 (217)
                      ..|+|+|+.||||||++.+|...-.         ..+...            ..+..+....        + ... ...+
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            5799999999999999999854211         000000            0011111000        0 000 0124


Q ss_pred             EEEEEecCChhhhcc----chhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERYRA----ITSAYY--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~----~~~~~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.|+||+|......    ....++  ...+.+++|.|++-..  ..+..++..+...    .+--+|+||.|-..    
T Consensus       322 DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~~i~~~F~~~----~idglI~TKLDET~----  391 (436)
T PRK11889        322 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKDI----HIDGIVFTKFDETA----  391 (436)
T ss_pred             CEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHHHHHHHhcCC----CCCEEEEEcccCCC----
Confidence            678999999532111    112222  2356788888875322  2333444444432    22357789999643    


Q ss_pred             CHHHHHHHHHHcCCeEEEec
Q 042687          136 AAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vS  155 (217)
                      ..-.+-.++...++|+..++
T Consensus       392 k~G~iLni~~~~~lPIsyit  411 (436)
T PRK11889        392 SSGELLKIPAVSSAPIVLMT  411 (436)
T ss_pred             CccHHHHHHHHHCcCEEEEe
Confidence            22345666777788877664

>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=97.98  E-value=5.8e-05  Score=54.85  Aligned_cols=83  Identities=18%  Similarity=0.076  Sum_probs=45.4

Q ss_pred             EEEEEEecCChhhh----ccchhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERY----RAITSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~----~~~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      ..+.++|++|...+    ......+  ....|.+++|+|+.....  .+ .+...+....  + ...+|.||.|....  
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~--~~-~~~~~~~~~~--~-~~~viltk~D~~~~--  154 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD--AV-NQAKAFNEAL--G-ITGVILTKLDGDAR--  154 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH--HH-HHHHHHHhhC--C-CCEEEEECCcCCCC--
Confidence            35678999996422    1111112  134899999999865432  22 2333333322  2 35677799996541  


Q ss_pred             cCHHHHHHHHHHcCCeEEE
Q 042687          135 VAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~  153 (217)
                        ...+...+...++|+..
T Consensus       155 --~g~~~~~~~~~~~p~~~  171 (173)
T cd03115         155 --GGAALSIRAVTGKPIKF  171 (173)
T ss_pred             --cchhhhhHHHHCcCeEe
Confidence              12233366666776543

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.96  E-value=9.3e-05  Score=60.94  Aligned_cols=142  Identities=18%  Similarity=0.124  Sum_probs=73.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcccc---CCC-----CC---------------cceeeEEEEEE-------ECCeEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCL---ESK-----ST---------------IGVEFATRTLQ-------VEGKTV   61 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~---~~~-----~t---------------~~~~~~~~~~~-------~~~~~~   61 (217)
                      .-.|+++|+.|+||||++.+|.+.....   ...     .+               .+.......-.       ..-...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~  270 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGK  270 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCC
Confidence            4589999999999999999886531100   000     00               00000000000       000122


Q ss_pred             EEEEEecCChhhh----ccchhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERY----RAITSAYY--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~----~~~~~~~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.++||+|....    ......+.  ....-.++|.|++..  ...+..++..+...    -+--+|+||.|-..    
T Consensus       271 d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~--~~~~~~~~~~f~~~----~~~~~I~TKlDEt~----  340 (420)
T PRK14721        271 HMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSS--GDTLDEVISAYQGH----GIHGCIITKVDEAA----  340 (420)
T ss_pred             CEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeeeCCC----
Confidence            4679999994321    11122221  223457788888742  23333444444322    22357889999643    


Q ss_pred             CHHHHHHHHHHcCCeEEEecCCCCCCH-HHH
Q 042687          136 AAEDAQILAEKEGLSFLETSALEALNV-EKA  165 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vSa~~~~gv-~~~  165 (217)
                      ..-.+-.++...++|+..++  +|.++ +++
T Consensus       341 ~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl  369 (420)
T PRK14721        341 SLGIALDAVIRRKLVLHYVT--NGQKVPEDL  369 (420)
T ss_pred             CccHHHHHHHHhCCCEEEEE--CCCCchhhh
Confidence            23345666777888877774  44555 444

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.96  E-value=0.00019  Score=60.43  Aligned_cols=137  Identities=18%  Similarity=0.205  Sum_probs=71.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccc------c---CCCC--C------------cceeeEEEEEE------E-CCeEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFC------L---ESKS--T------------IGVEFATRTLQ------V-EGKTV   61 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~------~---~~~~--t------------~~~~~~~~~~~------~-~~~~~   61 (217)
                      .-.|+|+|+.|+||||++.+|...-..      .   ..+.  .            .+..+....-.      + .-..+
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~  429 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDY  429 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccC
Confidence            457899999999999999888642110      0   0000  0            00000000000      0 01235


Q ss_pred             EEEEEecCChhhhccc-------hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           62 KAQIWDTAGQERYRAI-------TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~-------~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      .+.|+||+|.......       .... . ....++|++.+.  +...+...+..+..    ..+.-+|+||.|...   
T Consensus       430 DLVLIDTaG~s~~D~~l~eeL~~L~aa-~-~~a~lLVLpAts--s~~Dl~eii~~f~~----~~~~gvILTKlDEt~---  498 (559)
T PRK12727        430 KLVLIDTAGMGQRDRALAAQLNWLRAA-R-QVTSLLVLPANA--HFSDLDEVVRRFAH----AKPQGVVLTKLDETG---  498 (559)
T ss_pred             CEEEecCCCcchhhHHHHHHHHHHHHh-h-cCCcEEEEECCC--ChhHHHHHHHHHHh----hCCeEEEEecCcCcc---
Confidence            6789999995322111       1111 1 224566667653  23344444444433    235678999999643   


Q ss_pred             cCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687          135 VAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                       ..-.+..+....+.++..++  +|..+
T Consensus       499 -~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        499 -RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             -chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence             23456666777788877774  34444

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.92  E-value=2.9e-05  Score=62.28  Aligned_cols=154  Identities=23%  Similarity=0.185  Sum_probs=90.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc-----------------------c--------ccCCCCCcceeeEEEEEEECC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE-----------------------F--------CLESKSTIGVEFATRTLQVEG   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~-----------------------~--------~~~~~~t~~~~~~~~~~~~~~   58 (217)
                      ..-++++++|+..+||||+-..+....                       +        .+......+.......+....
T Consensus        77 k~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte~  156 (501)
T KOG0459|consen   77 KEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETEN  156 (501)
T ss_pred             CCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEecc
Confidence            345899999999999999987653210                       0        001111111222222233333


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh---hHHHH--HHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ---TFDNV--TRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~---s~~~~--~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                        .++++.|+|||..|-..+-.-..+||+.++|+++...+   .|+.-  .+-..++..... -..+++++||.|-+.-+
T Consensus       157 --~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~g-v~~lVv~vNKMddPtvn  233 (501)
T KOG0459|consen  157 --KRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAG-VKHLIVLINKMDDPTVN  233 (501)
T ss_pred             --eeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhc-cceEEEEEEeccCCccC
Confidence              46789999999988877777788999999999884322   12211  111112222222 45578889999964311


Q ss_pred             --ccCH----HHHHHHHHHcC------CeEEEecCCCCCCHHHHH
Q 042687          134 --AVAA----EDAQILAEKEG------LSFLETSALEALNVEKAF  166 (217)
Q Consensus       134 --~~~~----~~~~~~~~~~~------~~~~~vSa~~~~gv~~~~  166 (217)
                        ....    +.+..+.+..|      ..++++|..+|.++.+-.
T Consensus       234 Ws~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  234 WSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             cchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence              1111    22334444333      458999999999887654

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

Probab=97.87  E-value=9.3e-05  Score=51.82  Aligned_cols=107  Identities=15%  Similarity=0.155  Sum_probs=61.7

Q ss_pred             EEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCC
Q 042687           16 VLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                      +.-|..|+|||++.-.+...-. .....+.-.+...   ......+.+.++|+|+..  .......+..+|.++++.+.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~-~~~~~~~~vd~D~---~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALA-KLGKRVLLLDADL---GLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH-HCCCcEEEEECCC---CCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            4567889999999876643211 1110110000000   000111567899999753  223356788999999999886


Q ss_pred             ChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           96 KRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        96 ~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                       ..++..+...+..+..... ..++.+|+|+.+..
T Consensus        78 -~~s~~~~~~~l~~l~~~~~-~~~~~lVvN~~~~~  110 (139)
T cd02038          78 -PTSITDAYALIKKLAKQLR-VLNFRVVVNRAESP  110 (139)
T ss_pred             -hhHHHHHHHHHHHHHHhcC-CCCEEEEEeCCCCH
Confidence             4455555455555544332 45678999999754

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.

>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=97.86  E-value=4.4e-05  Score=55.82  Aligned_cols=80  Identities=18%  Similarity=0.125  Sum_probs=41.0

Q ss_pred             EEEEEecCChhhhccc--hh---hhhcCCcEEEEEEeCCChhhHHHHHH-HHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERYRAI--TS---AYYRGAVGALLVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~--~~---~~~~~~d~ii~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      ...++.+.|...-..+  ..   ...-..+.+|.|+|+.+-.....+.. +..++.. ++     ++++||+|+.+.. .
T Consensus        86 d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-AD-----vIvlnK~D~~~~~-~  158 (178)
T PF02492_consen   86 DRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAF-AD-----VIVLNKIDLVSDE-Q  158 (178)
T ss_dssp             SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT--S-----EEEEE-GGGHHHH--
T ss_pred             CEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchh-cC-----EEEEeccccCChh-h
Confidence            4567788884322222  01   11235688999999976433344433 3333322 22     7888999987644 1


Q ss_pred             CHHHHHHHHHHcC
Q 042687          136 AAEDAQILAEKEG  148 (217)
Q Consensus       136 ~~~~~~~~~~~~~  148 (217)
                      ..+...+..+..+
T Consensus       159 ~i~~~~~~ir~ln  171 (178)
T PF02492_consen  159 KIERVREMIRELN  171 (178)
T ss_dssp             -HHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHC
Confidence            2244555555443

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.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.86  E-value=0.00023  Score=56.79  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.+|.|.-|||||||+|++...
T Consensus         5 pv~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          5 AVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             CEEEEEECCCCCHHHHHHHHHhc
Confidence            45688999999999999999754

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.84  E-value=0.00064  Score=56.48  Aligned_cols=85  Identities=18%  Similarity=0.063  Sum_probs=47.2

Q ss_pred             EEEEEecCChhhhccc----hh--hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERYRAI----TS--AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~----~~--~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.|+||+|.......    ..  ..+..+|.+++|+|++...   ........+....   ...-+|+||.|... +  
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~l---~i~gvIlTKlD~~a-~--  247 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEAV---GIGGIIITKLDGTA-K--  247 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhcC---CCCEEEEecccCCC-c--
Confidence            6789999995432211    11  1234678899999987642   2222223333221   12357889999643 1  


Q ss_pred             CHHHHHHHHHHcCCeEEEecC
Q 042687          136 AAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vSa  156 (217)
                       --.+-.+....+.|+..++.
T Consensus       248 -~G~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        248 -GGGALSAVAETGAPIKFIGT  267 (437)
T ss_pred             -ccHHHHHHHHHCcCEEEEec
Confidence             12344555666777666643

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.84  E-value=0.00024  Score=56.64  Aligned_cols=87  Identities=17%  Similarity=0.058  Sum_probs=48.7

Q ss_pred             EEEEecCChhhhccchhhh--------hcCCcEEEEEEeCCChhhHHH-H-HHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           63 AQIWDTAGQERYRAITSAY--------YRGAVGALLVYDITKRQTFDN-V-TRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        63 ~~i~D~~G~~~~~~~~~~~--------~~~~d~ii~v~d~~~~~s~~~-~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      ..++.+.|-..-......+        .-..|++|-|+|+.+-..... . .....++...      =+|++||.|+.+.
T Consensus        87 ~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A------D~ivlNK~Dlv~~  160 (323)
T COG0523          87 RLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA------DVIVLNKTDLVDA  160 (323)
T ss_pred             EEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC------cEEEEecccCCCH
Confidence            4577787733221221111        124588999999876433222 2 2222333222      2788999999875


Q ss_pred             cccCHHHHHHHHHHcC--CeEEEecCC
Q 042687          133 RAVAAEDAQILAEKEG--LSFLETSAL  157 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~--~~~~~vSa~  157 (217)
                      ..  .+..+...+..+  ++++.++..
T Consensus       161 ~~--l~~l~~~l~~lnp~A~i~~~~~~  185 (323)
T COG0523         161 EE--LEALEARLRKLNPRARIIETSYG  185 (323)
T ss_pred             HH--HHHHHHHHHHhCCCCeEEEcccc
Confidence            53  344555555554  678887763

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.84  E-value=3.4e-05  Score=59.97  Aligned_cols=60  Identities=17%  Similarity=0.351  Sum_probs=39.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc----cCCCCCcceeeEEEE-EEECCeEEEEEEEecCC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC----LESKSTIGVEFATRT-LQVEGKTVKAQIWDTAG   70 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~----~~~~~t~~~~~~~~~-~~~~~~~~~~~i~D~~G   70 (217)
                      +..+++.|+|.||+|||||+|++......    ....+-.+++..... +.+.+.+ .+.++||||
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPG  205 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPG  205 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCC
Confidence            45689999999999999999988653221    112222344444433 4454444 367999999

>PRK10867 signal recognition particle protein; Provisional

Probab=97.83  E-value=0.00035  Score=57.95  Aligned_cols=86  Identities=17%  Similarity=0.088  Sum_probs=47.2

Q ss_pred             EEEEEEecCChhhhc----cchhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYR----AITSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~----~~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.|+||+|.....    ......  .-..+.+++|.|+...   +........+.+..  + ..-+|+||.|-.. + 
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~~--~-i~giIlTKlD~~~-r-  255 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEAL--G-LTGVILTKLDGDA-R-  255 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhhC--C-CCEEEEeCccCcc-c-
Confidence            457899999943211    111111  1256778999998653   22323333343321  1 2357779999532 1 


Q ss_pred             cCHHHHHHHHHHcCCeEEEecC
Q 042687          135 VAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                        .-.+.......++|+..++.
T Consensus       256 --gG~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        256 --GGAALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             --ccHHHHHHHHHCcCEEEEeC
Confidence              12355666677888766654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.83  E-value=0.00023  Score=57.68  Aligned_cols=134  Identities=19%  Similarity=0.181  Sum_probs=69.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcc---------ccCCCCC------------cceeeEEEEEEE----------C-Ce
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEF---------CLESKST------------IGVEFATRTLQV----------E-GK   59 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~---------~~~~~~t------------~~~~~~~~~~~~----------~-~~   59 (217)
                      .-.|+++|+.||||||++.++.....         ..+....            .+..+... ...          . ..
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~-~dp~dL~~al~~l~~~~  284 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVA-TSPAELEEAVQYMTYVN  284 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEec-CCHHHHHHHHHHHHhcC
Confidence            45789999999999999998864210         0000000            01111100 000          0 01


Q ss_pred             EEEEEEEecCChhhhcc----chhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           60 TVKAQIWDTAGQERYRA----ITSAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~----~~~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      .+.+.++||+|......    ....+..  ..+.+++|.++..  ....+...+..+..    -.+--+|+||.|...  
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~--~~~d~~~i~~~f~~----l~i~glI~TKLDET~--  356 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM--KSADVMTILPKLAE----IPIDGFIITKMDETT--  356 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc--cHHHHHHHHHhcCc----CCCCEEEEEcccCCC--
Confidence            24678999999642221    1222222  3466677776632  23333333333322    123357789999643  


Q ss_pred             ccCHHHHHHHHHHcCCeEEEecC
Q 042687          134 AVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                        ..-.+-.++...+.|+..++.
T Consensus       357 --~~G~~Lsv~~~tglPIsylt~  377 (407)
T PRK12726        357 --RIGDLYTVMQETNLPVLYMTD  377 (407)
T ss_pred             --CccHHHHHHHHHCCCEEEEec
Confidence              233456667778888777753

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

Probab=97.82  E-value=9.8e-05  Score=52.28  Aligned_cols=57  Identities=14%  Similarity=0.052  Sum_probs=34.8

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      +.+.++||+|....   ...++..+|-+|++..+.-.+.+.- .++ ..+..      --++++||.|
T Consensus        92 ~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~-~k~-~~~~~------~~~~~~~k~~  148 (148)
T cd03114          92 FDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQA-IKA-GIMEI------ADIVVVNKAD  148 (148)
T ss_pred             CCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHH-hhh-hHhhh------cCEEEEeCCC
Confidence            46789999886422   2347889999999988763333222 222 12211      1378889987

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.

>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=97.80  E-value=0.00012  Score=42.34  Aligned_cols=45  Identities=18%  Similarity=0.237  Sum_probs=30.5

Q ss_pred             cCCcEEEEEEeCCCh--hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           83 RGAVGALLVYDITKR--QTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      .-.++++|++|++..  .+.+.-..++..++.... ++|+++|.||+|
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            456899999999864  356666677788887776 899999999998

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.

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

Probab=97.80  E-value=0.00018  Score=47.61  Aligned_cols=82  Identities=16%  Similarity=0.126  Sum_probs=50.4

Q ss_pred             EEEEc-CCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           15 IVLIG-DSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        15 i~i~G-~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      |++.| ..|+||||+...+...-. ...       .....++.+.. +.+.++|+|+.....  ....+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~-~~~-------~~vl~~d~d~~-~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALA-RRG-------KRVLLIDLDPQ-YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHH-hCC-------CcEEEEeCCCC-CCEEEEeCcCCCCHH--HHHHHHHCCEEEEecc
Confidence            56677 568999999877644221 111       11222222222 567799999864322  3366778999999998


Q ss_pred             CCChhhHHHHHHHHH
Q 042687           94 ITKRQTFDNVTRWLR  108 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~  108 (217)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            75 556666666655

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=97.77  E-value=0.00015  Score=60.05  Aligned_cols=86  Identities=19%  Similarity=0.098  Sum_probs=48.8

Q ss_pred             EEEEEEecCChhhhcc----chhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRA----ITSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.|+||+|......    ....+  .-..|.+++|+|+...+   ....+...+....   ...-+|+||.|-.. + 
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v---~i~giIlTKlD~~~-~-  254 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL---GLTGVVLTKLDGDA-R-  254 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC---CCCEEEEeCccCcc-c-
Confidence            4578999999432211    11111  23568889999987532   3333334443322   12457799999532 1 


Q ss_pred             cCHHHHHHHHHHcCCeEEEecC
Q 042687          135 VAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                        .-.+..++...++|+..+..
T Consensus       255 --~G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       255 --GGAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             --ccHHHHHHHHHCcCEEEEeC
Confidence              12366667777888776654

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.76  E-value=0.00055  Score=60.24  Aligned_cols=144  Identities=17%  Similarity=0.129  Sum_probs=74.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCC--C-CCcceeeEE---------------EEEE-E-C----------CeEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLES--K-STIGVEFAT---------------RTLQ-V-E----------GKTVK   62 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~--~-~t~~~~~~~---------------~~~~-~-~----------~~~~~   62 (217)
                      --|+|+|+.||||||++.+|.........  . .-.+.+.+.               ..+. . +          -....
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            36899999999999999988753211000  0 000000000               0000 0 0          01235


Q ss_pred             EEEEecCChhhh----ccchhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC
Q 042687           63 AQIWDTAGQERY----RAITSAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA  136 (217)
Q Consensus        63 ~~i~D~~G~~~~----~~~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~  136 (217)
                      +.|+||+|....    .......  ....+-.++|.|++..  .+.+......+...... -+--+|+||.|-..    .
T Consensus       266 ~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~--~~~l~~i~~~f~~~~~~-~i~glIlTKLDEt~----~  338 (767)
T PRK14723        266 LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASH--GDTLNEVVHAYRHGAGE-DVDGCIITKLDEAT----H  338 (767)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCc--HHHHHHHHHHHhhcccC-CCCEEEEeccCCCC----C
Confidence            789999993211    1111111  2234567889898742  23333334444332110 13357889999643    2


Q ss_pred             HHHHHHHHHHcCCeEEEecCCCCCCH-HHH
Q 042687          137 AEDAQILAEKEGLSFLETSALEALNV-EKA  165 (217)
Q Consensus       137 ~~~~~~~~~~~~~~~~~vSa~~~~gv-~~~  165 (217)
                      .-.+-.+....++|+..++  +|.+| +++
T Consensus       339 ~G~iL~i~~~~~lPI~yit--~GQ~VPdDL  366 (767)
T PRK14723        339 LGPALDTVIRHRLPVHYVS--TGQKVPEHL  366 (767)
T ss_pred             ccHHHHHHHHHCCCeEEEe--cCCCChhhc
Confidence            2345566777788877774  44555 444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.75  E-value=0.00092  Score=54.72  Aligned_cols=90  Identities=11%  Similarity=-0.006  Sum_probs=50.1

Q ss_pred             EEEEEEecCChhhhcc----chhhhhcC--Cc-EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           61 VKAQIWDTAGQERYRA----ITSAYYRG--AV-GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~----~~~~~~~~--~d-~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      +.+.++||+|......    ....++..  .+ -.++|.|++..  ...+...+..+...    -+--+++||.|-..  
T Consensus       255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~~----~~~~~I~TKlDet~--  326 (388)
T PRK12723        255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSPF----SYKTVIFTKLDETT--  326 (388)
T ss_pred             CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeccCCC--
Confidence            4678999999542211    11222222  13 57889998764  23343444444322    13357889999543  


Q ss_pred             ccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687          134 AVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                        ..-.+-.++...+.|+..++  +|.++
T Consensus       327 --~~G~~l~~~~~~~~Pi~yit--~Gq~v  351 (388)
T PRK12723        327 --CVGNLISLIYEMRKEVSYVT--DGQIV  351 (388)
T ss_pred             --cchHHHHHHHHHCCCEEEEe--CCCCC
Confidence              22345566677788876664  34444

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.72  E-value=0.00079  Score=56.50  Aligned_cols=92  Identities=20%  Similarity=0.137  Sum_probs=48.8

Q ss_pred             EEEEEecCChhhhcc---chhhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           62 KAQIWDTAGQERYRA---ITSAYYRG---AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~---~~~~~~~~---~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      .+.++||+|......   .....+..   ..-.++|+|++...  ..+......+..    ..+--+|+||.|-..    
T Consensus       336 d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~~f~~----~~~~g~IlTKlDet~----  405 (484)
T PRK06995        336 HIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQAYRG----PGLAGCILTKLDEAA----  405 (484)
T ss_pred             CeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHHHhcc----CCCCEEEEeCCCCcc----
Confidence            467999999332111   11111111   12267888886422  233333333322    223457789999543    


Q ss_pred             CHHHHHHHHHHcCCeEEEecCCCCCCH-HHH
Q 042687          136 AAEDAQILAEKEGLSFLETSALEALNV-EKA  165 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vSa~~~~gv-~~~  165 (217)
                      ..-.+-.+....++|+..++  +|.+| +++
T Consensus       406 ~~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL  434 (484)
T PRK06995        406 SLGGALDVVIRYKLPLHYVS--NGQRVPEDL  434 (484)
T ss_pred             cchHHHHHHHHHCCCeEEEe--cCCCChhhh
Confidence            23356667777888877774  45556 544

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.69  E-value=7.4e-05  Score=55.79  Aligned_cols=119  Identities=14%  Similarity=0.152  Sum_probs=73.2

Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh----------hHHHHHHHHHHHHhhcC-CCCeEEEEEeCC
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ----------TFDNVTRWLRELRDHAD-SNIVIMMAGNKS  127 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~----------s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~  127 (217)
                      ..+.+.++|.+|+...+..|..++.++-.+++++.++..+          ..++-..++..+...-. .+.++|+++||.
T Consensus       197 ~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKk  276 (359)
T KOG0085|consen  197 QKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKK  276 (359)
T ss_pred             hhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechh
Confidence            3456779999998888888888888887777776654321          22222223333322211 367899999999


Q ss_pred             CCcccc----------------ccCHHHHHHHHH----HcC------CeEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          128 DLNHLR----------------AVAAEDAQILAE----KEG------LSFLETSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       128 Dl~~~~----------------~~~~~~~~~~~~----~~~------~~~~~vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      |+.++.                ......+++|..    ..+      +.-..+-|.+..|+.-+|..+.+.++...
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            984321                112233344432    222      12234567778899999999988887654

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.67  E-value=3.9e-05  Score=61.44  Aligned_cols=58  Identities=22%  Similarity=0.450  Sum_probs=41.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ...+++.|+|.+++||||+||+|......... .+.|.+..-..+..+.   .+.|+|.||-
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C~vg-~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKACNVG-NVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccccCC-CCccchhhhhheeccC---CceeccCCce
Confidence            45699999999999999999999987764322 2233444444444443   5669999993

>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=97.67  E-value=0.00045  Score=47.98  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ..++|.|++|+|||+|++.+....
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            469999999999999999987754

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.65  E-value=0.00092  Score=52.04  Aligned_cols=132  Identities=17%  Similarity=0.169  Sum_probs=71.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc---------cCCC------------CCcceeeEEEEEE----------E-CCeE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC---------LESK------------STIGVEFATRTLQ----------V-EGKT   60 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~---------~~~~------------~t~~~~~~~~~~~----------~-~~~~   60 (217)
                      -+++++|++|+||||++..+...-..         .+..            ...+..+... ..          . ....
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~-~~~~~l~~~l~~l~~~~~  154 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAV-RDEAAMTRALTYFKEEAR  154 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEec-CCHHHHHHHHHHHHhcCC
Confidence            58999999999999999877543110         0000            0011111100 00          0 0113


Q ss_pred             EEEEEEecCChhhhc----cchhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYR----AITSAYY--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~----~~~~~~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.++||+|.....    ..+..++  ...+-.++|.|++..  .+.+..++..+...    .+--+++||.|...   
T Consensus       155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~--~~d~~~~~~~f~~~----~~~~~I~TKlDet~---  225 (270)
T PRK06731        155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI----HIDGIVFTKFDETA---  225 (270)
T ss_pred             CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC--HHHHHHHHHHhCCC----CCCEEEEEeecCCC---
Confidence            567899999954211    1122222  244668899998642  23333444444432    22357789999654   


Q ss_pred             cCHHHHHHHHHHcCCeEEEec
Q 042687          135 VAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vS  155 (217)
                       ..-.+-.++...+.|+..++
T Consensus       226 -~~G~~l~~~~~~~~Pi~~it  245 (270)
T PRK06731        226 -SSGELLKIPAVSSAPIVLMT  245 (270)
T ss_pred             -CccHHHHHHHHHCcCEEEEe
Confidence             12345566667788877664

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.64  E-value=0.00056  Score=44.10  Aligned_cols=68  Identities=18%  Similarity=0.141  Sum_probs=43.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc-hhhhhcCCcEEEEEEe
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI-TSAYYRGAVGALLVYD   93 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~ii~v~d   93 (217)
                      +++.|..|+||||+...+...-...      +  +...  .++    .+.++|+++....... .......+|.++++.+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~------g--~~v~--~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKR------G--KRVL--LID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC------C--CeEE--EEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            6788999999999998876533210      1  1111  122    5669999986432221 1455678899999988


Q ss_pred             CCC
Q 042687           94 ITK   96 (217)
Q Consensus        94 ~~~   96 (217)
                      ...
T Consensus        68 ~~~   70 (99)
T cd01983          68 PEA   70 (99)
T ss_pred             Cch
Confidence            764

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

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.64  E-value=6.6e-05  Score=61.99  Aligned_cols=114  Identities=18%  Similarity=0.276  Sum_probs=75.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccC------CCCC--------cceeeEEEEEEE----------------CCeEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLE------SKST--------IGVEFATRTLQV----------------EGKTV   61 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~------~~~t--------~~~~~~~~~~~~----------------~~~~~   61 (217)
                      .-++-++-+...|||||...|+.......      ...+        .+.+.....+..                ++..+
T Consensus        19 iRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~F   98 (842)
T KOG0469|consen   19 IRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGF   98 (842)
T ss_pred             cccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcce
Confidence            35788899999999999999865322111      0011        111121111111                23355


Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      -++++|.|||-.|.+.....++-.|+++.|+|..+.-..+.-..+.+.+.+    .+.-+++.||.|.
T Consensus        99 LiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   99 LINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE----RIKPVLVMNKMDR  162 (842)
T ss_pred             eEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh----hccceEEeehhhH
Confidence            688999999999999999999999999999999887655554444444444    3334567799995

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.63  E-value=0.00039  Score=57.09  Aligned_cols=134  Identities=19%  Similarity=0.211  Sum_probs=69.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc-cc---------cCCC------------CCcceeeEEEE-E-----EECCeEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE-FC---------LESK------------STIGVEFATRT-L-----QVEGKTVKAQ   64 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~-~~---------~~~~------------~t~~~~~~~~~-~-----~~~~~~~~~~   64 (217)
                      .-|+++|++||||||++.+|.... ..         .+..            ...+....... .     ......+.+.
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            468899999999999999886421 00         0000            00011111100 0     0011234567


Q ss_pred             EEecCChhhh----ccchhhhhc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc
Q 042687           65 IWDTAGQERY----RAITSAYYR-----GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        65 i~D~~G~~~~----~~~~~~~~~-----~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~  135 (217)
                      ++||+|....    ...+..++.     ...-.++|.|++...  ..+...+..+...    -+--+|+||.|-..    
T Consensus       304 LIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~~~----~~~glIlTKLDEt~----  373 (432)
T PRK12724        304 LIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYESL----NYRRILLTKLDEAD----  373 (432)
T ss_pred             EEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhcCC----CCCEEEEEcccCCC----
Confidence            9999995321    111222222     233578888987543  2333333333222    22357889999543    


Q ss_pred             CHHHHHHHHHHcCCeEEEecC
Q 042687          136 AAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~vSa  156 (217)
                      ..-.+..++...+.|+..++.
T Consensus       374 ~~G~il~i~~~~~lPI~ylt~  394 (432)
T PRK12724        374 FLGSFLELADTYSKSFTYLSV  394 (432)
T ss_pred             CccHHHHHHHHHCCCEEEEec
Confidence            123456666777888776653

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.61  E-value=0.0013  Score=54.72  Aligned_cols=86  Identities=15%  Similarity=0.161  Sum_probs=48.4

Q ss_pred             EEEEEEecCChhhhc----cchhhhhc---CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           61 VKAQIWDTAGQERYR----AITSAYYR---GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~----~~~~~~~~---~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      +.+.++||+|.....    .....++.   .-.-+++|++++-.  ...+...+..+...   + +--+|+||.|...  
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~---~-~~~vI~TKlDet~--  371 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRL---P-LDGLIFTKLDETS--  371 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCC---C-CCEEEEecccccc--
Confidence            467899999953221    11222333   23456777887542  23333333334322   2 2358889999643  


Q ss_pred             ccCHHHHHHHHHHcCCeEEEecC
Q 042687          134 AVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                        ..-.+..+....++|+..++.
T Consensus       372 --~~G~i~~~~~~~~lPv~yit~  392 (424)
T PRK05703        372 --SLGSILSLLIESGLPISYLTN  392 (424)
T ss_pred             --cccHHHHHHHHHCCCEEEEeC
Confidence              223566777788888877753

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.54  E-value=9.7e-05  Score=50.86  Aligned_cols=24  Identities=29%  Similarity=0.573  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      --++|.|++|+|||++++++....
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHh
Confidence            357899999999999999998754

>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=97.51  E-value=8.4e-05  Score=50.52  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|.|++||||||+.+.|...
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            4899999999999999999763

...

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.51  E-value=0.00078  Score=51.97  Aligned_cols=20  Identities=40%  Similarity=0.679  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+++|.+||||||+.+.|..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999998864

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>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=97.47  E-value=0.0014  Score=47.85  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            478999999999999999988754

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.

>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=97.46  E-value=0.0062  Score=43.70  Aligned_cols=139  Identities=10%  Similarity=0.065  Sum_probs=91.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..-.|+++|..+.++..|..++.....          ++. ..+....   .  +- .|.  +..    ..=...|.|+|
T Consensus        14 n~atiLLVg~e~~~~~~LA~a~l~~~~----------~~~-l~Vh~a~---s--LP-Lp~--e~~----~lRprIDlIVF   70 (176)
T PF11111_consen   14 NTATILLVGTEEALLQQLAEAMLEEDK----------EFK-LKVHLAK---S--LP-LPS--ENN----NLRPRIDLIVF   70 (176)
T ss_pred             ceeEEEEecccHHHHHHHHHHHHhhcc----------cee-EEEEEec---c--CC-Ccc--ccc----CCCceeEEEEE
Confidence            457899999999999999999985221          111 1111100   0  00 111  111    11246799999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ++|.....|+..++.-+..+....-.++ +.++++-....+...+...++.+++..++.|++.+.-....+...+-+.|+
T Consensus        71 vinl~sk~SL~~ve~SL~~vd~~fflGK-VCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~lAqRLL  149 (176)
T PF11111_consen   71 VINLHSKYSLQSVEASLSHVDPSFFLGK-VCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTSLAQRLL  149 (176)
T ss_pred             EEecCCcccHHHHHHHHhhCChhhhccc-eEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHHHHHHHH
Confidence            9999999999999887777654443344 444555555555566778899999999999999998777766665555555


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +.+
T Consensus       150 ~~l  152 (176)
T PF11111_consen  150 RML  152 (176)
T ss_pred             HHH
Confidence            543

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 [].

>PRK08118 topology modulation protein; Reviewed

Probab=97.46  E-value=0.00011  Score=53.11  Aligned_cols=23  Identities=39%  Similarity=0.661  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+|+|+|++|||||||...|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999998764

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.44  E-value=0.00011  Score=53.57  Aligned_cols=23  Identities=26%  Similarity=0.749  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .||+|+|++||||||+..+|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999876

>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=97.43  E-value=0.0011  Score=44.11  Aligned_cols=100  Identities=17%  Similarity=0.100  Sum_probs=57.2

Q ss_pred             EcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCCh
Q 042687           18 IGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKR   97 (217)
Q Consensus        18 ~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~   97 (217)
                      =+..|+||||+...|...-.......+.-.+.     +.... ..+.++|+|+....  .....+..+|.++++.+.+ .
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~-----d~~~~-~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDL-----DLQFG-DDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-L   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEEC-----CCCCC-CCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-h
Confidence            35678999998876643221110111110000     00000 05679999885432  2345678899999998775 4


Q ss_pred             hhHHHHHHHHHHHHhhcCC-CCeEEEEEeC
Q 042687           98 QTFDNVTRWLRELRDHADS-NIVIMMAGNK  126 (217)
Q Consensus        98 ~s~~~~~~~~~~i~~~~~~-~~p~ivv~nK  126 (217)
                      .+...+..++..+.+.... ...+.+|+|+
T Consensus        77 ~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 PSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            5667777777777665433 3456677775

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.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.42  E-value=0.0019  Score=47.07  Aligned_cols=86  Identities=28%  Similarity=0.269  Sum_probs=60.1

Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHH
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAE  138 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  138 (217)
                      ..+.+.++|+|+....  .....+..+|.++++...+ ..+...+..++..+...   +.|+.+|+|++|....   ...
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAE  161 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHH
Confidence            3457889999975322  2345678899999999887 34566666666666554   5678899999996532   245


Q ss_pred             HHHHHHHHcCCeEEE
Q 042687          139 DAQILAEKEGLSFLE  153 (217)
Q Consensus       139 ~~~~~~~~~~~~~~~  153 (217)
                      +.+++....+++++.
T Consensus       162 ~~~~~~~~~~~~vl~  176 (179)
T cd03110         162 EIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHcCCCeEE
Confidence            677778888887664

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

>PRK07261 topology modulation protein; Provisional

Probab=97.41  E-value=0.00014  Score=52.85  Aligned_cols=22  Identities=41%  Similarity=0.735  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +|+|+|++|||||||...|...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998643

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.37  E-value=0.00074  Score=49.87  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+-++|+|+.||||||+++.+..
T Consensus         3 ~ya~lV~GpAgSGKSTyC~~~~~   25 (273)
T KOG1534|consen    3 RYAQLVMGPAGSGKSTYCSSMYE   25 (273)
T ss_pred             ceeEEEEccCCCCcchHHHHHHH
Confidence            46789999999999999998853

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.35  E-value=0.00022  Score=42.18  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..+|.|+.|+|||||+.++..-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988643

>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=97.32  E-value=0.00018  Score=50.39  Aligned_cols=20  Identities=40%  Similarity=0.768  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+++|++|||||||++.|..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

...

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=97.30  E-value=0.0025  Score=48.68  Aligned_cols=77  Identities=18%  Similarity=0.264  Sum_probs=54.3

Q ss_pred             EEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh-------hHHHHHHHHHHHHhhcC----CCCe
Q 042687           51 TRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-------TFDNVTRWLRELRDHAD----SNIV  119 (217)
Q Consensus        51 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-------s~~~~~~~~~~i~~~~~----~~~p  119 (217)
                      ...+.++.  ++++.+|.+|+...+..|...+.++-++|||...++..       +-..+.+-+..++....    ..+.
T Consensus       194 et~FqVdk--v~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tis  271 (379)
T KOG0099|consen  194 ETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTIS  271 (379)
T ss_pred             eEEEeccc--cceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhh
Confidence            33344443  56889999999999999999999999999999886521       22233333343333321    3577


Q ss_pred             EEEEEeCCCC
Q 042687          120 IMMAGNKSDL  129 (217)
Q Consensus       120 ~ivv~nK~Dl  129 (217)
                      +|+++||.|+
T Consensus       272 vIlFLNKqDl  281 (379)
T KOG0099|consen  272 VILFLNKQDL  281 (379)
T ss_pred             eeEEecHHHH
Confidence            8999999997

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.26  E-value=0.0005  Score=51.49  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=23.1

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+....-|+|+|++|||||||++.|...
T Consensus         9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          9 KPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4445567889999999999999999754

>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=97.26  E-value=0.00029  Score=42.91  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |++.|++|+||||+.++|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998764

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.25  E-value=0.00016  Score=51.97  Aligned_cols=22  Identities=23%  Similarity=0.593  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ||+|.|.+++|||||++.|...
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            7999999999999999999754

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.25  E-value=0.0014  Score=45.26  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      --|++.|+.|+|||||++.+...-
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999998753

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=97.25  E-value=0.0067  Score=51.47  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.++|.|++|+||||+++.+...
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999999764

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.24  E-value=0.0081  Score=48.56  Aligned_cols=22  Identities=23%  Similarity=0.493  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.+|.|.-|+|||||++++...
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         6 VTIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            4688899999999999999754

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.23  E-value=0.00012  Score=58.73  Aligned_cols=84  Identities=17%  Similarity=0.238  Sum_probs=49.6

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc--cchhhhhcCCc
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR--AITSAYYRGAV   86 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~~~~~~~~~~d   86 (217)
                      ...-+-|.++|.+|+||||+||.|...++..... -.+.+.....+..   ...+-++|+||...-.  .-....++   
T Consensus       304 dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAP-IpGETKVWQYItL---mkrIfLIDcPGvVyps~dset~ivLk---  376 (572)
T KOG2423|consen  304 DKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAP-IPGETKVWQYITL---MKRIFLIDCPGVVYPSSDSETDIVLK---  376 (572)
T ss_pred             CccceeeeeecCCCCchHHHHHHHhhcccccccC-CCCcchHHHHHHH---HhceeEecCCCccCCCCCchHHHHhh---
Confidence            4456899999999999999999998877653322 1122222211111   1245699999953222  21222233   


Q ss_pred             EEEEEEeCCChhh
Q 042687           87 GALLVYDITKRQT   99 (217)
Q Consensus        87 ~ii~v~d~~~~~s   99 (217)
                      +++-|=.+.+++.
T Consensus       377 GvVRVenv~~pe~  389 (572)
T KOG2423|consen  377 GVVRVENVKNPED  389 (572)
T ss_pred             ceeeeeecCCHHH
Confidence            4566667777653

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.23  E-value=0.00026  Score=53.30  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -|+|+|++|||||||+|-+-+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4899999999999999987553

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.22  E-value=0.00028  Score=53.50  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      =|+|+|++|||||||++.+.+-..
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999998876443

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.22  E-value=0.00033  Score=52.53  Aligned_cols=20  Identities=40%  Similarity=0.615  Sum_probs=17.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHH
Q 042687           13 FKIVLIGDSGVGKSNILSRF   32 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l   32 (217)
                      +-.+|+|+|||||||.++-+
T Consensus         3 fgqvVIGPPgSGKsTYc~g~   22 (290)
T KOG1533|consen    3 FGQVVIGPPGSGKSTYCNGM   22 (290)
T ss_pred             cceEEEcCCCCCccchhhhH
Confidence            45689999999999998754

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.21  E-value=0.00028  Score=52.36  Aligned_cols=25  Identities=40%  Similarity=0.488  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      =.|+|+|++|||||||++.+-+.+.
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE~   53 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLEE   53 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCcC
Confidence            3689999999999999998866443

>PRK01889 GTPase RsgA; Reviewed

Probab=97.18  E-value=0.00053  Score=55.71  Aligned_cols=24  Identities=38%  Similarity=0.663  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.++|+|.+|+|||||+|.+.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            479999999999999999998754

>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=97.17  E-value=0.00034  Score=48.57  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+..
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            68999999999999999887754

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 ....

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

Probab=97.17  E-value=0.0098  Score=43.10  Aligned_cols=84  Identities=15%  Similarity=0.055  Sum_probs=51.7

Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ  141 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  141 (217)
                      .+.++|+|+....  .....+..+|.+|++.+... .++..+..++..+....  .....+++|+.+.....  ......
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEALG--IKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHcC--CceEEEEEeCCcccccc--hhhHHH
Confidence            5779999875432  23455788999999988763 45555555555555431  23467899999864321  122234


Q ss_pred             HHHHHcCCeEE
Q 042687          142 ILAEKEGLSFL  152 (217)
Q Consensus       142 ~~~~~~~~~~~  152 (217)
                      .+....+.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            45555676654

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.17  E-value=0.0018  Score=48.15  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -|+|+|++||||||+++.+.+..
T Consensus         3 lilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999887643

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.15  E-value=0.00037  Score=48.81  Aligned_cols=23  Identities=13%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .|+|+|+.|||||||+..|++.-
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999997643

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=97.14  E-value=0.0081  Score=47.29  Aligned_cols=21  Identities=33%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      -.|+|.|++||||||+++.|-
T Consensus         7 ~~i~i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416          7 RLVIVTGLSGAGKSVALRALE   27 (288)
T ss_pred             eEEEEECCCCCcHHHHHHHHH
Confidence            369999999999999999984

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.14  E-value=0.004  Score=48.85  Aligned_cols=104  Identities=17%  Similarity=0.259  Sum_probs=57.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh-----------------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE-----------------   72 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------------   72 (217)
                      .....++|+|++|.|||+++++|...... ..... .            ..+.+..+.+|...                 
T Consensus        59 ~Rmp~lLivG~snnGKT~Ii~rF~~~hp~-~~d~~-~------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~  124 (302)
T PF05621_consen   59 HRMPNLLIVGDSNNGKTMIIERFRRLHPP-QSDED-A------------ERIPVVYVQMPPEPDERRFYSAILEALGAPY  124 (302)
T ss_pred             cCCCceEEecCCCCcHHHHHHHHHHHCCC-CCCCC-C------------ccccEEEEecCCCCChHHHHHHHHHHhCccc
Confidence            34468999999999999999999875432 11111 1            11233344444411                 


Q ss_pred             -------hhccchhhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHhhc-CCCCeEEEEEeCC
Q 042687           73 -------RYRAITSAYYRGAVGALLVYDITKR---QTFDNVTRWLRELRDHA-DSNIVIMMAGNKS  127 (217)
Q Consensus        73 -------~~~~~~~~~~~~~d~ii~v~d~~~~---~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~  127 (217)
                             .........++...+=++++|--+-   -+...-...++.++... ...+|++.+++.-
T Consensus       125 ~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~  190 (302)
T PF05621_consen  125 RPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTRE  190 (302)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHH
Confidence                   1122223456677777888885321   11222233444444433 2479999998753

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.14  E-value=0.00041  Score=51.07  Aligned_cols=24  Identities=21%  Similarity=0.319  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .=|+|+|++|||||||+++|....
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            448999999999999999998753

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.11  E-value=0.00046  Score=48.19  Aligned_cols=21  Identities=57%  Similarity=0.854  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|+|++|||||||++.|...
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.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.10  E-value=0.0014  Score=44.59  Aligned_cols=24  Identities=33%  Similarity=0.491  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      --|++-|+-|+|||||++.+...-
T Consensus        16 ~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   16 DVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999987643

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.

>PRK06217 hypothetical protein; Validated

Probab=97.09  E-value=0.00047  Score=50.57  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+|+|+|.+|||||||..+|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998754

>TIGR00235 udk uridine kinase

Probab=97.07  E-value=0.00062  Score=50.98  Aligned_cols=26  Identities=23%  Similarity=0.279  Sum_probs=22.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +...-|+|+|++|||||||++.+.+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            34577999999999999999999763

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.06  E-value=0.00058  Score=46.97  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      -.++|+|++|+||||++..+...-.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            4789999999999999999987554

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.

>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=97.06  E-value=0.00048  Score=47.09  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|.|.+||||||+++.|...
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            789999999999999998764

...

>PRK10646 ADP-binding protein; Provisional

Probab=97.06  E-value=0.0047  Score=43.75  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -|++-|.-|+|||||++.+...-
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999997643

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.05  E-value=0.00056  Score=50.32  Aligned_cols=22  Identities=36%  Similarity=0.631  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|+|++|||||||++.|.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999999664

>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=97.05  E-value=0.00053  Score=47.06  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999998764

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 ....

>PRK03839 putative kinase; Provisional

Probab=97.04  E-value=0.00054  Score=50.10  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +|+|+|++||||||+.++|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998654

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.02  E-value=0.0025  Score=51.37  Aligned_cols=21  Identities=24%  Similarity=0.494  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      --|.++|-.|+||||.+-+|.
T Consensus       102 sVimfVGLqG~GKTTtc~KlA  122 (483)
T KOG0780|consen  102 SVIMFVGLQGSGKTTTCTKLA  122 (483)
T ss_pred             cEEEEEeccCCCcceeHHHHH
Confidence            358899999999999998763

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.01  E-value=0.00037  Score=50.50  Aligned_cols=25  Identities=40%  Similarity=0.611  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ..-++|.||+|||||||+++|....
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3568999999999999999998765

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.01  E-value=0.0096  Score=49.33  Aligned_cols=92  Identities=17%  Similarity=0.156  Sum_probs=53.4

Q ss_pred             EEEEEEEecCChhh-hccchh-----hhhcCCcEEEEEEeCC-ChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           60 TVKAQIWDTAGQER-YRAITS-----AYYRGAVGALLVYDIT-KRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        60 ~~~~~i~D~~G~~~-~~~~~~-----~~~~~~d~ii~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      .+.+.++||+|... ...++.     .-....|.+++|-.+- -.++.+.+.++-..+..+......--++++|+|-.+.
T Consensus       466 gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vgealvg~dsv~q~~~fn~al~~~~~~r~id~~~ltk~dtv~d  545 (587)
T KOG0781|consen  466 GFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEALVGNDSVDQLKKFNRALADHSTPRLIDGILLTKFDTVDD  545 (587)
T ss_pred             CCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehhhhhCcHHHHHHHHHHHHHhcCCCccccceEEEEeccchhh
Confidence            34678999999431 111111     1245779999997653 3457777777666666664333344578899997542


Q ss_pred             cccCHHHHHHHHHHcCCeEEEe
Q 042687          133 RAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                      ..   -.+..+.=.-+.|++++
T Consensus       546 ~v---g~~~~m~y~~~~pi~fv  564 (587)
T KOG0781|consen  546 KV---GAAVSMVYITGKPILFV  564 (587)
T ss_pred             HH---HHHhhheeecCCceEEE
Confidence            21   11222333346677766

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.01  E-value=0.00059  Score=51.96  Aligned_cols=25  Identities=32%  Similarity=0.627  Sum_probs=22.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..++++|+|++|||||+|+..++..
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh
Confidence            4589999999999999999988754

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK14530 adenylate kinase; Provisional

Probab=97.01  E-value=0.00061  Score=51.34  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+|+|+|++||||||+.+.|..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999998854

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.99  E-value=0.00062  Score=49.67  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|+|++|||||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4799999999999999998664

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.

>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=96.98  E-value=0.00069  Score=44.89  Aligned_cols=21  Identities=29%  Similarity=0.680  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      -.++|+|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            358999999999999999875

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

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.97  E-value=0.00068  Score=49.48  Aligned_cols=22  Identities=41%  Similarity=0.652  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -|+|+|++|||||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4899999999999999999874

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.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.94  E-value=0.0008  Score=48.75  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      =.++|+|++|+|||||+|-+.+
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAG   47 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAG   47 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHh
Confidence            4789999999999999997765

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.93  E-value=0.00074  Score=49.52  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++||||||+++++..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999873

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.92  E-value=0.00075  Score=51.86  Aligned_cols=21  Identities=29%  Similarity=0.490  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|+.|||||||++.+.+
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999876

>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=96.92  E-value=0.015  Score=40.81  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            57899999999999999998754

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.

>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=96.92  E-value=0.00085  Score=48.90  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      -.++|+|+.|+|||||++.+.
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            478999999999999999875

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.92  E-value=0.00093  Score=50.07  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=22.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....|+|.|++|||||||.+.|...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3489999999999999999998764

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.92  E-value=0.00076  Score=50.08  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|.|++|||||||.+.|.+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998764

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.

>PRK14531 adenylate kinase; Provisional

Probab=96.91  E-value=0.00085  Score=49.23  Aligned_cols=23  Identities=22%  Similarity=0.530  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+|+++|++||||||+..+|...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999988653

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.91  E-value=0.00094  Score=53.38  Aligned_cols=23  Identities=43%  Similarity=0.619  Sum_probs=20.3

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCcc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      ++++||+|||||||++.+.+-..
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe~   54 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLEE   54 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            78999999999999999887543

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=96.91  E-value=0.0047  Score=43.26  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      --|++-|+-|+|||||.+.+...--
T Consensus        26 ~Vv~L~GdLGAGKTtf~rgi~~~Lg   50 (149)
T COG0802          26 DVVLLSGDLGAGKTTLVRGIAKGLG   50 (149)
T ss_pred             CEEEEEcCCcCChHHHHHHHHHHcC
Confidence            4588999999999999999876443

>PRK08727 hypothetical protein; Validated

Probab=96.90  E-value=0.015  Score=44.38  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +++.|++|+|||.|+..+...
T Consensus        44 l~l~G~~G~GKThL~~a~~~~   64 (233)
T PRK08727         44 LYLSGPAGTGKTHLALALCAA   64 (233)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999998654

>PRK13949 shikimate kinase; Provisional

Probab=96.90  E-value=0.00092  Score=48.42  Aligned_cols=21  Identities=33%  Similarity=0.635  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+|+|++|||||||...|..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998765

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.88  E-value=0.00096  Score=49.09  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .-.++|+|++|||||||++.+.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3579999999999999999988643

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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.88  E-value=0.0045  Score=49.96  Aligned_cols=25  Identities=20%  Similarity=0.406  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ..+|+|.|+.|||||||++.|.+.-
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHccc
Confidence            4789999999999999999998654

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.88  E-value=0.00083  Score=48.64  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-+.|+|++|||||||++++...
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHH
Confidence            46899999999999999999864

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

Probab=96.87  E-value=0.009  Score=45.11  Aligned_cols=102  Identities=15%  Similarity=0.108  Sum_probs=62.7

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN--VTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAE  138 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  138 (217)
                      +.+.|+|+.|.....  ....+..+|.+|+=.-.+..+.-+.  ...|+..+.......+|.-|+.|+..-...+. ...
T Consensus        84 ~d~VlvDleG~as~~--~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~~~~~-~~~  160 (231)
T PF07015_consen   84 FDFVLVDLEGGASEL--NDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAARLTR-AQR  160 (231)
T ss_pred             CCEEEEeCCCCCchh--HHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcchhhH-HHH
Confidence            567899998864322  3445678998888666653332222  23455555555566899999999986321111 111


Q ss_pred             HHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687          139 DAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       139 ~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      .+.++..  ++|+|.+...+..-+.++|.
T Consensus       161 ~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  161 IISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHh--cCCccccccccHHHHHHHHH
Confidence            2233332  58999998888776666665

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.87  E-value=0.0013  Score=47.83  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-|++.|.+||||||+.+.+...
T Consensus         8 ~~I~i~G~~GsGKst~a~~l~~~   30 (176)
T PRK05541          8 YVIWITGLAGSGKTTIAKALYER   30 (176)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999988653

>PRK14532 adenylate kinase; Provisional

Probab=96.87  E-value=0.00095  Score=49.12  Aligned_cols=21  Identities=24%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+++|++||||||+..+|..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999864

>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=96.83  E-value=0.0011  Score=49.97  Aligned_cols=23  Identities=30%  Similarity=0.535  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            68999999999999999998754

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.82  E-value=0.0012  Score=48.09  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +-|+|.|.+|||||||.++|...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            67889999999999999998753

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.82  E-value=0.011  Score=50.50  Aligned_cols=22  Identities=27%  Similarity=0.575  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -+++.||+|+||||.++.|...
T Consensus        47 iLlLtGP~G~GKtttv~~La~e   68 (519)
T PF03215_consen   47 ILLLTGPSGCGKTTTVKVLAKE   68 (519)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4677999999999999988754

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.82  E-value=0.0044  Score=44.96  Aligned_cols=35  Identities=20%  Similarity=0.139  Sum_probs=23.6

Q ss_pred             HHHHHHcCCeEE--EecCCCCCCHHHHHHHHHHHHHH
Q 042687          141 QILAEKEGLSFL--ETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       141 ~~~~~~~~~~~~--~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +.++-+..+-+|  ++||.+.+-+.+++..|.++..+
T Consensus       165 RaLameP~vmLFDEPTSALDPElVgEVLkv~~~LAeE  201 (256)
T COG4598         165 RALAMEPEVMLFDEPTSALDPELVGEVLKVMQDLAEE  201 (256)
T ss_pred             HHHhcCCceEeecCCcccCCHHHHHHHHHHHHHHHHh
Confidence            333333333344  68999999999999888776644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	217
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-78
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		3e-78
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		8e-78
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-77
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-77
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-76
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		5e-76
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-70
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		6e-69
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		3e-63
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		6e-63
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		6e-63
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-48
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		2e-48
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		3e-48
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-47
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		1e-47
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		7e-47
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		2e-46
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-46
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		2e-46
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		2e-46
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-46
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		3e-46
4fmc_B	171	Espg-Rab1 Complex Length = 171		3e-46
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		3e-46
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		6e-46
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		1e-45
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-45
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-45
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		3e-45
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		3e-45
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-44
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-43
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		4e-43
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-42
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		5e-42
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		9e-42
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-41
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		5e-41
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		5e-41
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-40
2efc_B	181	Ara7-GdpATVPS9A Length = 181		5e-40
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		5e-40
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		5e-40
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		2e-39
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-39
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		8e-39
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		2e-38
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		2e-38
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		5e-38
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		5e-38
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		5e-38
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		6e-38
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		6e-38
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		6e-38
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		6e-38
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		8e-38
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		1e-37
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		1e-37
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		1e-37
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-37
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		1e-37
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		4e-37
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		4e-37
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		6e-37
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		7e-37
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-35
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-34
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-34
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		3e-34
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-33
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-33
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		3e-33
4fmc_F	117	Espg-Rab1 Complex Length = 117		3e-33
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-33
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		4e-33
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		6e-33
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-32
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		1e-32
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-32
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		3e-32
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		5e-32
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		5e-32
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		1e-31
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-31
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-31
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-31
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-31
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		3e-31
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-30
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		1e-30
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		1e-30
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		9e-30
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		1e-29
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		1e-29
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-28
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		6e-27
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-26
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		3e-26
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-23
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		1e-22
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		1e-22
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		1e-22
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		1e-22
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-22
1byu_A	216	Canine Gdp-Ran Length = 216		1e-22
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-22
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		4e-22
2bku_A	177	Kap95p:rangtp Complex Length = 177		4e-22
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		5e-22
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		6e-22
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		6e-22
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		6e-22
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		1e-21
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		2e-21
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-21
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		4e-21
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		4e-21
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		4e-21
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		4e-21
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		6e-21
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		8e-21
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		1e-20
3icq_B	171	Karyopherin Nuclear State Length = 171		1e-20
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		1e-20
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		4e-20
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		7e-20
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		8e-20
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		9e-20
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-19
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-19
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-19
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		3e-19
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-16
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		3e-16
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		3e-16
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		3e-16
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		3e-16
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		4e-16
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		5e-16
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		5e-16
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		5e-16
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		6e-16
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		6e-16
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		8e-16
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		8e-16
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		1e-15
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-15
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-15
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		2e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		2e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		2e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		2e-15
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-15
1wq1_R	166	Ras-Rasgap Complex Length = 166		3e-15
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		3e-15
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		4e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		4e-15
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		4e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		4e-15
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		6e-15
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		6e-15
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		8e-15
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		8e-15
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		8e-15
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		8e-15
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		9e-15
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-14
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-14
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		1e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-14
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-14
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		2e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		2e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		2e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		2e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		2e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		3e-14
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		3e-14
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		4e-14
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		4e-14
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		5e-14
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		5e-14
1mh1_A	186	Small G-Protein Length = 186		5e-14
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		6e-14
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		6e-14
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		6e-14
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		6e-14
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		9e-14
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		1e-13
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		1e-13
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		1e-13
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		1e-13
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		1e-13
1s1c_A	183	Crystal Structure Of The Complex Between The Human		1e-13
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		1e-13
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		1e-13
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-13
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-13
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-13
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-13
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-13
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-13
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-13
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-13
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-13
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-13
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-13
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		2e-13
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-13
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		3e-13
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		3e-13
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		7e-13
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		7e-13
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		8e-13
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		1e-12
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		1e-12
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-12
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-12
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		1e-12
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-12
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-12
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-12
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-12
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		1e-12
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		1e-12
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		1e-12
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		2e-12
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		2e-12
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-12
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		2e-12
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		2e-12
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		2e-12
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		2e-12
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-12
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		3e-12
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		4e-12
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		5e-12
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		7e-12
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		7e-12
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		7e-12
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		9e-12
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		1e-11
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		1e-11
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-11
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-11
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-11
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-11
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-11
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		2e-11
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		2e-11
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-11
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		2e-11
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		3e-11
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-11
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		3e-11
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		3e-11
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		3e-11
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		3e-11
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		3e-11
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		3e-11
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		3e-11
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		3e-11
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		4e-11
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		4e-11
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		9e-11
2kb0_A	178	Cdc42(T35a) Length = 178		1e-10
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		1e-10
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		2e-10
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		2e-10
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		2e-10
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		2e-10
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		2e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		6e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		2e-09
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		1e-08
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		1e-08
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		1e-08
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		3e-08
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		4e-08
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		8e-08
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		8e-08
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		8e-08
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		8e-08
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		1e-07
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		1e-07
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-07
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		3e-07
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		4e-07
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		5e-07
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		5e-07
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		6e-07
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		6e-07
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		6e-07
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		7e-07
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		9e-07
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		1e-06
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		2e-06
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		3e-06
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		4e-06
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		4e-06
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		4e-06
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		5e-06
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		7e-06
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		9e-06
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-05
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		1e-05
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-05
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		2e-05
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-05
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-05
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		2e-05
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		2e-05
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		3e-05
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		4e-05
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		5e-05
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		6e-05
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		6e-05
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		6e-05
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		2e-04
2bmj_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		4e-04
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		5e-04
2iwr_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		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 =  288 bits (737), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 136/169 (80%), Positives = 153/169 (90%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct: 23  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82
Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct: 83  WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  287 bits (735), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 136/194 (70%), Positives = 164/194 (84%), Gaps = 2/194 (1%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR ITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GNKSD
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAA 188
           L HLRAV  ++A+  AEK  LSF+ETSAL++ NVE+AF+ IL +IY I+S+K +A + A 
Sbjct: 122 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAH 181
Query: 189 SSTGLPQGTTINVA 202
             +  P    ++++
Sbjct: 182 DES--PGNNVVDIS 193

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  286 bits (731), Expect = 8e-78,   Method: Compositional matrix adjust.
 Identities = 135/168 (80%), Positives = 152/168 (90%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWDT
Sbjct: 17  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 76
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GNKSD
Sbjct: 77  AGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 136
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
           L HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I
Sbjct: 137 LRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 184

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  285 bits (728), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 135/169 (79%), Positives = 152/169 (89%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct: 23  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82
Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAG ERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct: 83  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  284 bits (726), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 135/169 (79%), Positives = 152/169 (89%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWD
Sbjct: 4   EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWD 63
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAG ERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GNKS
Sbjct: 64  TAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKS 123
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
           DL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY I
Sbjct: 124 DLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 172

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  281 bits (720), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 134/169 (79%), Positives = 151/169 (89%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct: 5   DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64
Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAG ERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVI + GN
Sbjct: 65  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGN 124
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY
Sbjct: 125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 173

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  280 bits (716), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 133/167 (79%), Positives = 150/167 (89%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWD
Sbjct: 1   EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWD 60
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAG ERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVI + GNKS
Sbjct: 61  TAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKS 120
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           DL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY
Sbjct: 121 DLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 167

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  261 bits (666), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 125/173 (72%), Positives = 150/173 (86%), Gaps = 1/173 (0%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWD 67
           YDYLFKIVLIGDSGVGKSN+LSRFTR+EF LESKSTIGVEFAT+++Q++  K +KAQIWD
Sbjct: 4   YDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWD 63
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQERYRAITSAYYRGAVGALLVYDITK+ +F+N+ +WL+ELRD+ADSNIVI++ GNKS
Sbjct: 64  TAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKS 123
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           DL HLR +   DA   A+KE L+F+ETSALEA NVE AF  +L +IY++  KK
Sbjct: 124 DLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNVRQKK 176

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  256 bits (654), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 124/216 (57%), Positives = 160/216 (74%), Gaps = 8/216 (3%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
           ++YD LFKIVLIGDSGVGKSN+LSRFT+NEF ++SKSTIGVEFATRTL++EGK +KAQIW
Sbjct: 8   YDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIW 67
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAGQERYRAITSAYYRGAVGAL+VYDI+K  +++N   WL ELR++AD N+ + + GNK
Sbjct: 68  DTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNK 127
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL---- 182
           SDL HLRAV  E+++  A++  L F ETSAL + NV+KAF+ ++  IY  +SK  +    
Sbjct: 128 SDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGD 187
Query: 183 -AAQEAASSTGLPQGTTINV---ANLSGNVKGKACC 214
            +A   A+    P G TI++    N +    G  CC
Sbjct: 188 SSANGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  237 bits (605), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 111/173 (64%), Positives = 143/173 (82%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
           ++YDYLFKIVLIGDSGVGKSN+LSRFT +EF +ESKSTIGVEFATRT++VE K +KAQIW
Sbjct: 5   YDYDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIW 64
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAG ERYRAITSAYYRGAVGAL+VYDI+K  +++N   WL ELR++AD N+ + + GNK
Sbjct: 65  DTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNK 124
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
           SDL HLRAV  ++A+  A +  + F ETSAL + NV+KAF+ +++ I+ ++SK
Sbjct: 125 SDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSK 177

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  236 bits (603), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 110/173 (63%), Positives = 144/173 (83%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +Y+++FK+VLIG+SGVGK+N+LSRFTRNEF  +S++TIGVEF+TRT+ +    VKAQIWD
Sbjct: 6   DYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWD 65
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAG ERYRAITSAYYRGAVGALLV+D+TK QT+  V RWL+EL DHA++ IV+M+ GNKS
Sbjct: 66  TAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKS 125
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           DL+  R V  E+A++ AE  GL FLETSAL++ NVE AF+T+L +I+  +SK+
Sbjct: 126 DLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 178

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  236 bits (603), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 110/173 (63%), Positives = 144/173 (83%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +Y+++FK+VLIG+SGVGK+N+LSRFTRNEF  +S++TIGVEF+TRT+ +    VKAQIWD
Sbjct: 21  DYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWD 80
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAG ERYRAITSAYYRGAVGALLV+D+TK QT+  V RWL+EL DHA++ IV+M+ GNKS
Sbjct: 81  TAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKS 140
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           DL+  R V  E+A++ AE  GL FLETSAL++ NVE AF+T+L +I+  +SK+
Sbjct: 141 DLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  188 bits (478), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 91/166 (54%), Positives = 118/166 (71%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++GK +K QIWDT
Sbjct: 7   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 66
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQE +R+IT +YYRGA GALLVYDIT+R TF+++T WL + R H++SN+VIM+ GNKSD
Sbjct: 67  AGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSD 126
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V  E+ +  A + GL F+ETSA  A NVE+AF     +IY
Sbjct: 127 LESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIY 172

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  188 bits (477), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 92/178 (51%), Positives = 127/178 (71%), Gaps = 2/178 (1%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT++++GK +K QIWDT
Sbjct: 5   YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDT 64
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+R IT+AYYRGA+G +LVYDIT  ++FDN+  W+R + +HA +++  M+ GNK D
Sbjct: 65  AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCD 124
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK--KALAA 184
           +N  R V+ E  + LA   G+ F+ETSA   +NVE AF T+  DI   + K  KA AA
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  187 bits (475), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 91/169 (53%), Positives = 119/169 (70%)
Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++GK +K QIWDTAG
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79
Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QE +R+IT +YYRGA GALLVYDIT+R+TF+++T WL + R H+ SN+VIM+ GNKSDL 
Sbjct: 80  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
             R V  E+ +  A + GL F+ETSA  A NVE+AF     +IY  I +
Sbjct: 140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 188

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  186 bits (471), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 88/171 (51%), Positives = 123/171 (71%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           DYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT++++GK +K QIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT+AYYRGA+G +LVYDIT  ++FDN+  W+R + +HA +++  M+ GNK D+
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 123
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           N  R V+ E  + LA   G+ F+ETSA   +NVE AF T+  DI   + KK
Sbjct: 124 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKK 174

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  186 bits (471), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 88/165 (53%), Positives = 121/165 (73%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT+ +E KTVK Q
Sbjct: 2   MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQ 61
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRGA G ++VYD+T R +FDNV +W++E+  +A  N+  ++ G
Sbjct: 62  IWDTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVG 121
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           NK DL   R V +++ + LA+  G+ F+ETSA  A NVE+AF T+
Sbjct: 122 NKCDLVSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTM 166

>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 =  183 bits (464), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 88/180 (48%), Positives = 126/180 (70%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K Q
Sbjct: 9   MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQ 68
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ G
Sbjct: 69  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 128
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           NK DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I   +   A A 
Sbjct: 129 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAG 188

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  182 bits (461), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/169 (50%), Positives = 117/169 (69%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
           + Y Y+FK ++IGD GVGKS +L +FT  +F  +   TIGVEF TR ++V G+ +K QIW
Sbjct: 10  YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW 69
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAGQER+RA+T +YYRGA GAL+VYDIT+R T+++++ WL + R+  + N VI++ GNK
Sbjct: 70  DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNK 129
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
           +DL   R V  E+A+  AE+ GL FLE SA    NVE AF      IY 
Sbjct: 130 ADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 92/211 (43%), Positives = 140/211 (66%), Gaps = 6/211 (2%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIG+SGVGKS +L RF+ + +  +  STIGV+F  +T++++GKTVK Q
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRG+ G ++VYD+T +++F+ V  WL+E+  +A S ++ ++ G
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 120
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           NK DL   R V  + A+  A+   + FLETSAL++ NVE AF T+   I     K++++ 
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI-----KESMSQ 175
Query: 185 QEAASSTGLPQGT-TINVANLSGNVKGKACC 214
           Q    +T   +    +N+   S    G  CC
Sbjct: 176 QNLNETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 92/211 (43%), Positives = 140/211 (66%), Gaps = 6/211 (2%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIG+SGVGKS +L RF+ + +  +  STIGV+F  +T++++GKTVK Q
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRG+ G ++VYD+T +++F+ V  WL+E+  +A S ++ ++ G
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 120
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           NK DL   R V  + A+  A+   + FLETSAL++ NVE AF T+   I     K++++ 
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI-----KESMSQ 175
Query: 185 QEAASSTGLPQGT-TINVANLSGNVKGKACC 214
           Q    +T   +    +N+   S    G  CC
Sbjct: 176 QNLNETTQKKEDKGNVNLKGQSLTNTGGGCC 206

>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 =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/166 (52%), Positives = 121/166 (72%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWD
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 64
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRGA G ++VYD+T ++++ NV +WL+E+  +A  N+  ++ GNKS
Sbjct: 65  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKS 124
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   + V    A+  A+  G+ FLETSA  A NVE+AF T+  +I
Sbjct: 125 DLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>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 =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/166 (52%), Positives = 121/166 (72%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWD
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 64
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRGA G ++VYD+T ++++ NV +WL+E+  +A  N+  ++ GNKS
Sbjct: 65  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKS 124
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   + V    A+  A+  G+ FLETSA  A NVE+AF T+  +I
Sbjct: 125 DLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  181 bits (459), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 86/166 (51%), Positives = 121/166 (72%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWD
Sbjct: 21  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 80
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK 
Sbjct: 81  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKC 140
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 141 DLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  181 bits (459), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 86/166 (51%), Positives = 121/166 (72%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWD
Sbjct: 2   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 61
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK 
Sbjct: 62  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKC 121
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 122 DLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>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 =  181 bits (459), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 85/169 (50%), Positives = 123/169 (72%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIGDSGVGK+ +L RF  + +     STIGV+F  RT++++GKT+K Q
Sbjct: 9   MNPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQ 68
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ G
Sbjct: 69  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 128
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           NK DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 129 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  180 bits (456), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 86/168 (51%), Positives = 121/168 (72%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           + EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QI
Sbjct: 27  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 86
Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GN
Sbjct: 87  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 146
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           K DL   + V    A+  A+  G+ FLETSA  A NVE++F T   +I
Sbjct: 147 KCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEI 194

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  179 bits (454), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 86/171 (50%), Positives = 117/171 (68%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
           + Y Y+FK ++IGD GVGKS +L +FT  +F  +   TIGVEF TR ++V G+ +K QIW
Sbjct: 25  YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW 84
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAGQ R+RA+T +YYRGA GAL+VYDIT+R T+++++ WL + R+  + N VI++ GNK
Sbjct: 85  DTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNK 144
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHII 177
           +DL   R V  E+A+  AE+ GL FLE SA    NVE AF      IY  I
Sbjct: 145 ADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQNI 195

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  179 bits (453), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 87/162 (53%), Positives = 119/162 (73%), Gaps = 1/162 (0%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D +YD+LFK+VL+GD+ VGK+ ++ RF    F     STIGV+F  +TL+++GK VK QI
Sbjct: 23  DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 82
Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R IT +YYR A GA+L YDITKR +F +V  W+ ++R +A SNIV ++ GN
Sbjct: 83  WDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGN 142
Query: 126 KSDLNHLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAF 166
           KSDL+ LR V+  +AQ LAE  + L  +ETSA ++ NVE+AF
Sbjct: 143 KSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAF 184

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  178 bits (452), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/169 (50%), Positives = 122/169 (72%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K Q
Sbjct: 1   MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQ 60
Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ G
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120
Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            K DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 121 IKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  177 bits (450), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 83/162 (51%), Positives = 121/162 (74%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIG+SGVGKS +L RF+ + +  +  STIGV+F  +T++++GKTVK QIWD
Sbjct: 17  EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWD 76
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRG+ G ++VYD+T +++F+ V  WL+E+  +A S ++ ++ GNK 
Sbjct: 77  TAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKC 136
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           DL   R V  + A+  A+   + FLETSAL++ NVE AF T+
Sbjct: 137 DLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTM 178

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  177 bits (450), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 85/166 (51%), Positives = 120/166 (72%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYD LFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWD
Sbjct: 2   EYDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 61
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK 
Sbjct: 62  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKC 121
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 122 DLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  176 bits (445), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 85/157 (54%), Positives = 113/157 (71%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D+LFK ++IG +G GKS +L +F  N+F  +S  TIGVEF +R + V GKTVK QIWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R++T +YYRGA GALLVYDIT R+T++++  WL + R  A  NIV+++ GNK DL
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDL 142
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           +  R V   +A   A++  L FLETSAL   NVE+AF
Sbjct: 143 DPEREVTFLEASRFAQENELMFLETSALTGENVEEAF 179

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  172 bits (437), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 85/158 (53%), Positives = 113/158 (71%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD+LFK ++IG++G GKS +L +F   +F  +S  TIGVEF ++ + V GK VK QIWDT
Sbjct: 7   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 66
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+R++T +YYRGA GALLVYDIT R+T++ +T WL + R  A  NIVI++ GNK D
Sbjct: 67  AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 126
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           L+  R V   +A   A++  L FLETSAL   NVE+AF
Sbjct: 127 LDADREVTFLEASRFAQENELMFLETSALTGENVEEAF 164

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  171 bits (432), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 84/158 (53%), Positives = 113/158 (71%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD+LFK ++IG++G GKS +L +F   +F  +S  TIGVEF ++ + V GK VK QIWDT
Sbjct: 8   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 67
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+R++T +YYRGA GALLVYDIT R+T++ +T WL + R  A  NIVI++ GNK D
Sbjct: 68  AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 127
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           L+  R V   +A   A++  L FLETSAL   +VE+AF
Sbjct: 128 LDADREVTFLEASRFAQENELMFLETSALTGEDVEEAF 165

>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 =  167 bits (424), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 83/158 (52%), Positives = 112/158 (70%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD+LFK ++IG++G GKS +L +F   +F  +S  TIGVEF ++ + V GK VK QIWDT
Sbjct: 5   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 64
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AG ER+R++T +YYRGA GALLVYDIT R+T++ +T WL + R  A  NIVI++ GNK D
Sbjct: 65  AGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 124
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           L+  R V   +A   A++  L FLETSAL   +VE+AF
Sbjct: 125 LDADREVTFLEASRFAQENELMFLETSALTGEDVEEAF 162

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  167 bits (422), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 80/160 (50%), Positives = 115/160 (71%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           +R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK DL   +
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            V    A+  A+  G+ FLETSA  A NVE++F T+  +I
Sbjct: 121 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  166 bits (420), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 80/162 (49%), Positives = 111/162 (68%), Gaps = 1/162 (0%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +YD+LFK+++IGDSGVGKS++L RF  N F     +TIGV+F  RT+++ G+ VK QIWD
Sbjct: 5   DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWD 64
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS YYRG  G ++VYD+T  ++F NV RWL E+  + D ++  ++ GNK+
Sbjct: 65  TAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKN 123
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           D    + V  EDA   A + G+   ETSA E +NVE+ F  I
Sbjct: 124 DDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI 165

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  165 bits (417), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 76/161 (47%), Positives = 113/161 (70%), Gaps = 1/161 (0%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK Q+WDT
Sbjct: 17  YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDT 76
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+R IT+AYYRGA+G +LVYD+T  +TF N+ +W + + +HA+    +++ GNKSD
Sbjct: 77  AGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD 136
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           +   R V A+  + LA++ G+ F+E+SA    NV + F T+
Sbjct: 137 M-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 176

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  163 bits (413), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 78/162 (48%), Positives = 110/162 (67%), Gaps = 1/162 (0%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWD 67
           YD  FK++L+GDSGVGK+ +L RF    F   +  ST+G++F  + L V+G  VK Q+WD
Sbjct: 7   YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWD 66
Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R++T AYYR A   LL+YD+T + +FDN+  WL E+ ++A  ++ +M+ GNK 
Sbjct: 67  TAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKV 126
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           D  H R V  ED + LA++ GL F+ETSA   LNV+ AF  I
Sbjct: 127 DSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAI 168

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  163 bits (413), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 77/160 (48%), Positives = 112/160 (70%), Gaps = 1/160 (0%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK QIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT+AYYRGA+G +LVYDIT  +TF N+ +W + + +HA+    +++ GNKSD+
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
              R V A+  + LA++ G+ F+E+SA    NV + F T+
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 75/160 (46%), Positives = 112/160 (70%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
            +YD+LFKIVLIG++GVGK+ ++ RFT+  F     +TIGV+F  +T+++ G+ VK QIW
Sbjct: 21  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW 80
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAGQER+R+IT +YYR A   +L YDIT  ++F  +  WLRE+  +A + ++ ++ GNK
Sbjct: 81  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNK 140
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
            DL   R V+ + A+  +E + + +LETSA E+ NVEK F
Sbjct: 141 IDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF 180

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  160 bits (405), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 75/156 (48%), Positives = 109/156 (69%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD G GKS+++ RF +++F    +STIG  F ++TL V   TVK +IWDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           Y ++   YYRGA  A++V+D+T + +F+   +W++EL+   + N+V+ +AGNKSDL   R
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133
Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
            V AEDAQ  A++ GL F+ETSA  A NV++ F  I
Sbjct: 134 KVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEI 169

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  160 bits (405), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 77/160 (48%), Positives = 110/160 (68%), Gaps = 1/160 (0%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK QIWDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT+AYYRGA G +LVYDIT  +TF N+ +W + + +HA+    +++ GNKSD 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDX 120
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
              R V A+  + LA++ G+ F+E+SA    NV + F T+
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  160 bits (405), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 74/158 (46%), Positives = 111/158 (70%), Gaps = 1/158 (0%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK Q+WDTAGQ
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           ER+R IT+AYYRGA+G +LVYD+T  +TF N+ +W + + +HA+    +++ GNKSD+  
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 125
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
            R V A+  + LA++ G+ F+E+SA    NV + F T+
Sbjct: 126 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 163

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  159 bits (401), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 75/160 (46%), Positives = 110/160 (68%), Gaps = 1/160 (0%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK Q+WDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 60
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT+AYYRGA G +LVYD+T  +TF N+ +W + + +HA+    +++ GNKSD 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDX 120
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
              R V A+  + LA++ G+ F+E+SA    NV + F T+
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  157 bits (398), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 71/162 (43%), Positives = 110/162 (67%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    K VK QIWDT
Sbjct: 20  FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDT 79
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GNK D
Sbjct: 80  AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCD 139
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           +   R V  E  Q+LAE+ G  F E SA E ++V +AF+ ++
Sbjct: 140 MEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLV 181

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  156 bits (395), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 77/157 (49%), Positives = 106/157 (67%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT   TF     W++EL+  A  NIVI +AGNK+DL   
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 123
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  A+NV + F  I
Sbjct: 124 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 160

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 68/165 (41%), Positives = 113/165 (68%), Gaps = 1/165 (0%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D+  ++++IG  GVGK++++ RFT + FC   KST+GV+F  +T+++ GK ++ QIWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+ +ITSAYYR A G +LVYDITK++TFD++ +W++ +  +A  +  +++ GNK D 
Sbjct: 84  GQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC 143
Query: 130 NHLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDI 173
              R +  +  +  A++  G+ F E SA +  NV++ F  ++ DI
Sbjct: 144 ETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 188

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  155 bits (391), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 72/161 (44%), Positives = 108/161 (67%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           DY+FK++LIG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIWDTA
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTA 79
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQERYR IT+AYYRGA+G LL+YDI  +++F  V  W  +++ ++  N  +++ GNK DL
Sbjct: 80  GQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL 139
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
              R V AED + LA+  G  F E SA E +NV++ F+ ++
Sbjct: 140 EDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLV 180

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  154 bits (388), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  154 bits (388), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 128 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 164

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  154 bits (388), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  153 bits (387), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 105/157 (66%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT   TF     W++EL+  A  NIVI +AGNK+DL   
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  A+NV + F  I
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  153 bits (387), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 75/157 (47%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+++ ++  TVK +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT ++TF     W++EL+  A  +IVI +AGNK+DL + 
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANK 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V  E+AQ  A+   L F+ETSA  A+NV   F  I
Sbjct: 129 RMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAI 165

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  153 bits (387), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/157 (45%), Positives = 105/157 (66%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ L+GD+GVGKS+I+ RF ++ F      TIG  F T+T+    +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+ ++   YYRG+  A++VYDITK+ +F  + +W++EL++H   NIV+ +AGNK DL+ +
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V  +DA+  AE  G   +ETSA  A+N+E+ FQ I
Sbjct: 144 REVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGI 180

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  153 bits (387), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 105/157 (66%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STI   F T+T+ ++  TVK +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT   TF     W++EL+  A  NIVI +AGNK+DL   
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  A+NV + F  I
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  153 bits (386), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  152 bits (385), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  152 bits (385), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  152 bits (384), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 68/162 (41%), Positives = 110/162 (67%)
Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           +DY+FKI++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIWDT
Sbjct: 2   FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 61
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GNK D
Sbjct: 62  AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD 121
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           +   R V++E  + LA+  G  F E SA + +NV++ F+ ++
Sbjct: 122 MEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 163

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  152 bits (384), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 73/157 (46%), Positives = 101/157 (64%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ L+GD+GVGKS+I+ RF  + F      TIG  F T+T+Q + +  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+RA+   YYRG+  A++VYDITK +TF  +  W+RELR H   +IV+ +AGNK DL  +
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 125
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V   DA+  A+     F+ETSA  A+N+ + F  I
Sbjct: 126 REVMERDAKDYADSIHAIFVETSAKNAININELFIEI 162

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  152 bits (384), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  150 bits (380), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 106/157 (67%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F ETSA  + NV + F  I
Sbjct: 128 RAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAI 164

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  150 bits (380), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/157 (46%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 125
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I
Sbjct: 126 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 162

>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 =  150 bits (378), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 75/195 (38%), Positives = 118/195 (60%), Gaps = 6/195 (3%)
Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66
           H +DY FKI++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIW
Sbjct: 3   HXFDYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW 62
Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAG ERYR IT+AYYRGA G +L YDIT  ++F+ V  W  +++ ++  N  +++ GNK
Sbjct: 63  DTAGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNK 122
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQE 186
            D    R V++E  + LA+  G  F E SA + +NV++ F+ ++     +I +K   + +
Sbjct: 123 CDXEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV----DVICEKXSESLD 178
Query: 187 AASS--TGLPQGTTI 199
            A    TG  QG  +
Sbjct: 179 TADPAVTGAKQGPQL 193

>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 =  150 bits (378), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 72/157 (45%), Positives = 100/157 (63%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ L+GD+GVGKS+I+ RF  + F      TIG  F T+T+Q + +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+RA+   YYRG+  A++VYDITK +TF  +  W+RELR H   +IV+ +AGNK DL  +
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V   DA+  A+     F+ETSA  A+N+ + F  I
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEI 163

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 85/218 (38%), Positives = 134/218 (61%), Gaps = 21/218 (9%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR-----TLQVEGK 59
            D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  +     T   +G 
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGA 63
Query: 60  TVKA-----QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA 114
           + KA     Q+WDTAG ER+R++T+A++R A+G LL++D+T +Q+F NV  W+ +L+ +A
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA 123
Query: 115 -DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              N  I++ GNK+DL   R V    A+ LAEK G+ + ETSA    NVEK+ +T+L   
Sbjct: 124 YCENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL--- 180
Query: 174 YHIISKKALAAQEAASSTGLPQGTTINVANLSGNVKGK 211
             +I K+    ++    T +P   T+N  N SG + G+
Sbjct: 181 -DLIMKR---MEKCVEKTQVPD--TVNGGN-SGKLDGE 211

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  142 bits (358), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 74/179 (41%), Positives = 117/179 (65%), Gaps = 12/179 (6%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-------- 57
           D +YDYL K + +GDSGVGK+++L ++T  +F  +  +T+G++F  + +           
Sbjct: 5   DGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAV 64
Query: 58  --GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD 115
             G+ +  Q+WDTAG ER+R++T+A++R A+G LL++D+T  Q+F NV  W+ +L+ HA 
Sbjct: 65  GRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAY 124
Query: 116 S-NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           S N  I++ GNKSDL   RAV  E+A+ LAEK G+ + ETSA    N+  A + +LLD+
Sbjct: 125 SENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIE-MLLDL 182

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 74/174 (42%), Positives = 114/174 (65%), Gaps = 11/174 (6%)
Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE--------GK 59
           +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +           GK
Sbjct: 21  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 80
Query: 60  TVKA--QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-S 116
             K   Q+WDTAGQER+R++T+A++R A+G LL++D+T +Q+F NV  W+ +L+ +A   
Sbjct: 81  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCE 140
Query: 117 NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           N  I++ GNK+DL   R V    A+ LA+K G+ + ETSA    NVEKA +T+L
Sbjct: 141 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLL 194

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 75/176 (42%), Positives = 116/176 (65%), Gaps = 11/176 (6%)
Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR-----TLQVEGKT 60
           D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  +     T   +G +
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 61  VKA-----QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD 115
            KA     Q+WDTAG ER+R++T+A++R A+G LL++D+T +Q+F NV  W+ +L+ +A 
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 124
Query: 116 -SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
             N  I++ GNK+DL   R V    A+ LAEK G+ + ETSA    NVEK+ +T+L
Sbjct: 125 CENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 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 =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 75/177 (42%), Positives = 113/177 (63%), Gaps = 11/177 (6%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR-----TLQVEGK 59
            D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  +     T   +G 
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGA 63
Query: 60  TVKA-----QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA 114
           + KA     Q+WDTAG ER+R++T+A++R A G LL +D+T +Q+F NV  W  +L+ +A
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANA 123
Query: 115 D-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
              N  I++ GNK+DL   R V    A+ LAEK G+ + ETSA    NVEK+ +T+L
Sbjct: 124 YCENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 71/159 (44%), Positives = 99/159 (62%), Gaps = 3/159 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+G++ VGKS+I+ RF  N+F    + TIG  F T+ + +   TVK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL---N 130
           + ++   YYR A  AL+VYD+TK Q+F     W++EL + A  +I+I + GNK D     
Sbjct: 65  FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEG 124
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
             R VA E+ + LAE++GL F ETSA    NV   F  I
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGI 163

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  138 bits (347), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 75/177 (42%), Positives = 113/177 (63%), Gaps = 11/177 (6%)
Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR-----TLQVEGK 59
            D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  +     T   +G 
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGA 63
Query: 60  TVKA-----QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA 114
           + KA     Q+WDTAG ER+R++T+A++R A G LL +D+T +Q+F NV  W  +L+ +A
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANA 123
Query: 115 D-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
              N  I++ GNK+DL   R V    A+ LAEK G+ + ETSA    NVEK+ +T+L
Sbjct: 124 YCENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  138 bits (347), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 62/115 (53%), Positives = 89/115 (77%)
Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           ++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QIWDTAGQER+
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 75  RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GNK DL
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  137 bits (346), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +T++ Q+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 109/157 (69%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   ++W+ ++R    S+++IM+ GNK+DL+  
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 135 RQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 171

>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 =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 60/157 (38%), Positives = 108/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 122 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 158

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  136 bits (342), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 76/181 (41%), Positives = 105/181 (58%), Gaps = 2/181 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            KI++IG+SGVGKS++L RFT + F  E  +TIGV+F  +T+ V+G   K  IWDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDLNH 131
           R+R +T +YYRGA G +LVYD+T+R TF  +  WL EL  +   N IV  + GNK D  +
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN 135
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAASST 191
            R V   +    A K    F+E SA     V+ AF+ ++  I           Q +  S+
Sbjct: 136 -REVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESENQNSGPSS 194
Query: 192 G 192
           G
Sbjct: 195 G 195

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  135 bits (341), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 60/155 (38%), Positives = 104/155 (67%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V +G+  VGK++I++RF  + F    +STIG++F ++TL ++   V+ Q+WDTAGQE
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT RQ+F+N T+W++++ +    +++I + GNK+DL  L
Sbjct: 62  RFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 121
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
           R V  E+    A++    F ETSA    N++  F+
Sbjct: 122 RKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFK 156

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 58/157 (36%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   ++W+ ++R    S+++IM+ GNK+DL   
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R +  E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 123 RQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRV 159

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  134 bits (337), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 58/157 (36%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +T++ Q+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 133
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 134 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 170

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  134 bits (336), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  134 bits (336), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 107/157 (68%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +
Sbjct: 137 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 68/163 (41%), Positives = 104/163 (63%), Gaps = 6/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGNKS 127
           ER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 128 DLNHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTI 169
           DL + R VA + AQ     K  + + ETSA EA+NVE+AFQTI
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  132 bits (332), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 68/163 (41%), Positives = 104/163 (63%), Gaps = 6/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGNKS 127
           ER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 128 DLNHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTI 169
           DL + R VA + AQ     K  + + ETSA EA+NVE+AFQTI
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 66/161 (40%), Positives = 103/161 (63%), Gaps = 6/161 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           LFKI+L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKS 127
           ER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ GNK+
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKT 130
Query: 128 DLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           D+   R V+ E+AQ   +  G   + ETSA ++ NV  AF+
Sbjct: 131 DIKE-RQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFE 170

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 66/161 (40%), Positives = 102/161 (63%), Gaps = 6/161 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           LFK++L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKS 127
           ER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ GNK 
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126
Query: 128 DLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           D++  R V+ E+AQ      G   + ETSA +A NV  AF+
Sbjct: 127 DISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFE 166

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 67/163 (41%), Positives = 103/163 (63%), Gaps = 6/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGNKS 127
           ER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 128 DLNHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTI 169
           D  + R VA + AQ     K  + + ETSA EA+NVE+AFQTI
Sbjct: 128 DFEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>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 =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 66/161 (40%), Positives = 102/161 (63%), Gaps = 6/161 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           LFK++L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKS 127
           ER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ GNK 
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 128
Query: 128 DLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           D++  R V+ E+AQ      G   + ETSA +A NV  AF+
Sbjct: 129 DISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFE 168

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  129 bits (325), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 67/161 (41%), Positives = 102/161 (63%), Gaps = 6/161 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++L+GD GVGKS++++R+  N+F  ++  TIGVEF  R L+V+G+ V  QIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKS 127
           ER++++ + +YRGA   LL + +  RQ+F+N+  W +E   +AD     +   ++ GNK 
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 128 DLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           D    R V  E+AQ    + G   +LETSA +  NV  AF+
Sbjct: 127 DKED-RQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFE 166

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 67/163 (41%), Positives = 103/163 (63%), Gaps = 6/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAG 
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGNKS 127
           ER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 128 DLNHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTI 169
           DL + R VA + AQ     K  + + ETSA EA+NVE+AFQTI
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/156 (41%), Positives = 95/156 (60%)
Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y FK+VL+G+  VGK++++ R+  N+F  +  +T+G  F T+ L + GK V   IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+ A+   YYR + GA+LVYDIT   +F  V  W++ELR    + I + + GNK DL 
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
             R V+ ++A+  AE  G     TSA +   +E+ F
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  126 bits (316), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 65/159 (40%), Positives = 96/159 (60%), Gaps = 6/159 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +KIVL GD+ VGKS+ L R  +NEF     +T+GV+F  +TL V+G+    Q+WDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R+I  +Y+R A G LL+YD+T  ++F N+  W+  + D A   + IM+ GNK+D+   
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 133 ------RAVAAEDAQILAEKEGLSFLETSALEALNVEKA 165
                 + V     + LA   G  F ETSA +  N+ +A
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEA 187

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/156 (40%), Positives = 94/156 (60%)
Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y FK+VL+G+  VGK++++ R+  N+F  +  +T+   F T+ L + GK V   IWDTAG
Sbjct: 19  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 78
Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+ A+   YYR + GA+LVYDIT   +F  V  W++ELR    + I + + GNK DL 
Sbjct: 79  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 138
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
             R V+ ++A+  AE  G     TSA +   +E+ F
Sbjct: 139 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 174

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  125 bits (315), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/156 (40%), Positives = 94/156 (60%)
Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y FK+VL+G+  VGK++++ R+  N+F  +  +T+   F T+ L + GK V   IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+ A+   YYR + GA+LVYDIT   +F  V  W++ELR    + I + + GNK DL 
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
             R V+ ++A+  AE  G     TSA +   +E+ F
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 63/165 (38%), Positives = 104/165 (63%), Gaps = 7/165 (4%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAG 70
           + K++++GDSGVGK++++ R+  +++  + K+TIG +F T+ + V+G K    Q+WDTAG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN----IVIMMAGNK 126
           QER++++  A+YRGA   +LVYD+T   +F+N+  W  E   HA+ N       ++ GNK
Sbjct: 68  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 127
Query: 127 SDLNHLRAVAAE-DAQILAEKEG-LSFLETSALEALNVEKAFQTI 169
            D    + + +E  AQ LA+  G +    TSA  A+NV+ AF+ I
Sbjct: 128 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI 172

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  117 bits (292), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 61/163 (37%), Positives = 94/163 (57%), Gaps = 5/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           +FKI++IGDS VGK+ +  RF    F   +++TIGV+F  R + ++G+ +K Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 72  ERYR-AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDL 129
           ER+R ++   YYR     + VYD+T   +F ++  W+ E + H  +N I  ++ GNK DL
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 139
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALN---VEKAFQTI 169
                V  + AQ  A+   +   ETSA    +   VE  F T+
Sbjct: 140 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 182

>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 =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 61/163 (37%), Positives = 92/163 (56%), Gaps = 5/163 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           +FKI++IGDS VGK+ +  RF    F   +++TIGV+F  R + ++G+ +K Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 72  ERYR-AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDL 129
           ER+R ++   YYR     + VYD T   +F ++  W+ E + H  +N I  ++ GNK DL
Sbjct: 89  ERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 148
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALN---VEKAFQTI 169
                V  + AQ  A+       ETSA    +   VE  F T+
Sbjct: 149 RSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTL 191

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 61/154 (39%), Positives = 93/154 (60%), Gaps = 1/154 (0%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV  + V+  +WDTAGQE 
Sbjct: 7   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           + AIT AYYRGA   +LV+  T R++F+ ++ W RE       +I   +  NK DL    
Sbjct: 67  FDAITKAYYRGAQACVLVFSTTDRESFEAISSW-REKVVAEVGDIPTALVQNKIDLLDDS 125
Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
            +  E+A+ LA++  L F  TS  E LNV + F+
Sbjct: 126 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFK 159

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 67/203 (33%), Positives = 98/203 (48%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           +Y  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>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 =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 98/203 (48%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPCLAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 98/203 (48%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 98/203 (48%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 69/215 (32%), Positives = 101/215 (46%), Gaps = 24/215 (11%)
Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA     E    FK+VL+GD G GK+  + R    EF  +  +T+GVE            
Sbjct: 4   MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 63
Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +K  +WDTAGQE++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPI 122
Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------- 169
           ++ GNK D+   R V A+ + +   K+ L + + SA    N EK F  +           
Sbjct: 123 VLCGNKVDIKD-RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLE 180
Query: 170 -----LLDIYHIISKKALAAQ-----EAASSTGLP 194
                 L    ++   ALAAQ     E A +T LP
Sbjct: 181 FVAMPALAPPEVVMDPALAAQYEHDLEVAQTTALP 215

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score =  102 bits (254), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 98/203 (48%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 121
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+   +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 122 RKVKAKSI-VFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 180
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 181 VMDPALAAQYEHDLEVAQTTALP 203

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score =  102 bits (254), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 97/203 (47%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +   T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 66/203 (32%), Positives = 97/203 (47%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++ +D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAXPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VXDPALAAQYEHDLEVAQTTALP 210

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score =  101 bits (251), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 62/199 (31%), Positives = 94/199 (47%), Gaps = 40/199 (20%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK------------- 59
           +K VL+G+S VGKS+I+ R T++ F   + +TIG  F T  + +                
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67
Query: 60  ------------------------TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT 95
                                    +K  IWDTAGQERY +I   YYRGA  A++V+DI+
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDIS 127
Query: 96  KRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETS 155
              T D    W+ +L+    SN +I++  NK D N  + V   + Q  A+   L F++TS
Sbjct: 128 NSNTLDRAKTWVNQLK--ISSNYIIILVANKIDKNKFQ-VDILEVQKYAQDNNLLFIQTS 184
Query: 156 ALEALNVEKAFQTILLDIY 174
           A    N++  F  +  +IY
Sbjct: 185 AKTGTNIKNIFYMLAEEIY 203

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +   T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+   +   K+ L + + SA    N EK F
Sbjct: 129 RKVKAKSI-VFHRKKNLQYYDISAKSNYNFEKPF 161

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 83/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+   +   K+ L + + SA    N EK F
Sbjct: 129 RKVKAKSI-VFHRKKNLQYYDISAKSNYNFEKPF 161

>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 (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 96/164 (58%), Gaps = 4/164 (2%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 76
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDL 129
           E Y AI   Y+R   G L V+ IT+ ++F   T   RE  LR   D N+  ++ GNKSDL
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESF-AATADFREQILRVKEDENVPFLLVGNKSDL 135
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I
Sbjct: 136 EDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 96/164 (58%), Gaps = 4/164 (2%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQ
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDL 129
           E Y AI   Y+R   G L V+ IT+ ++F   T   RE  LR   D N+  ++ GNKSDL
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESF-AATADFREQILRVKEDENVPFLLVGNKSDL 123
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I
Sbjct: 124 EDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>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 (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 96/164 (58%), Gaps = 4/164 (2%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 72
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDL 129
           E Y AI   Y+R   G L V+ IT+ ++F   T   RE  LR   D N+  ++ GNKSDL
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESF-AATADFREQILRVKEDENVPFLLVGNKSDL 131
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I
Sbjct: 132 EDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 175

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 65/203 (32%), Positives = 97/203 (47%), Gaps = 24/203 (11%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I++ GNK D+   
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD- 128
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------------LLDIYHI 176
           R V A+ + +   K+ L + + SA    N EK F  +                 L    +
Sbjct: 129 RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEV 187
Query: 177 ISKKALAAQ-----EAASSTGLP 194
           +   ALAAQ     E A +T LP
Sbjct: 188 VMDPALAAQYEHDLEVAQTTALP 210

>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 = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/164 (35%), Positives = 96/164 (58%), Gaps = 4/164 (2%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 62
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDL 129
           E Y AI   Y+R   G L V+ IT+ ++F   T   RE  LR   D N+  ++ GNKSDL
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESF-AATADFREQILRVKEDENVPFLLVGNKSDL 121
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+A+  A++  ++++ETSA    NV+K F  ++ +I
Sbjct: 122 EDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 68/215 (31%), Positives = 100/215 (46%), Gaps = 24/215 (11%)
Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA     E    FK+VL+GD G GK+  + R    E   +  +T+GVE            
Sbjct: 4   MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGP 63
Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +K  +WDTAGQE++  +   YY  A  A++++D+T R T+ NV  W R+L      NI I
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPI 122
Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI----------- 169
           ++ GNK D+   R V A+ + +   K+ L + + SA    N EK F  +           
Sbjct: 123 VLCGNKVDIKD-RKVKAK-SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLE 180
Query: 170 -----LLDIYHIISKKALAAQ-----EAASSTGLP 194
                 L    ++   ALAAQ     E A +T LP
Sbjct: 181 FVAMPALAPPEVVMDPALAAQYEHDLEVAQTTALP 215

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 130
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+   +   K+ L + + SA    N EK F
Sbjct: 131 RKVKAKSI-VFHRKKNLQYYDISAKSNYNFEKPF 163

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 124
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+   +   K+ L + + SA    N EK F
Sbjct: 125 RKVKAKSI-VFHRKKNLQYYDISAKSNYNFEKPF 157

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 97/165 (58%), Gaps = 5/165 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 65
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSN-IVIMMAGNKSD 128
           E Y AI   Y+R   G LLV+ IT+ ++F   T   RE  LR  A+ + I +++ GNKSD
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESF-TATAEFREQILRVKAEEDKIPLLVVGNKSD 124
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           L   R V  E+A+  AE+ G+ ++ETSA    NV+K F  ++ +I
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 = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 97/165 (58%), Gaps = 5/165 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 61
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSN-IVIMMAGNKSD 128
           E Y AI   Y+R   G LLV+ IT+ ++F   T   RE  LR  A+ + I +++ GNKSD
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESF-TATAEFREQILRVKAEEDKIPLLVVGNKSD 120
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           L   R V  E+A+  AE+ G+ ++ETSA    NV+K F  ++ +I
Sbjct: 121 LEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 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 = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 59/164 (35%), Positives = 95/164 (57%), Gaps = 4/164 (2%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAG 
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDL 129
           E Y AI   Y+R   G L V+ IT+ ++F   T   RE  LR   D N+  ++ GNKSDL
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESF-AATADFREQILRVKEDENVPFLLVGNKSDL 123
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I
Sbjct: 124 EDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 97.1 bits (240), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 55/168 (32%), Positives = 89/168 (52%), Gaps = 4/168 (2%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-TVKAQIWDTAGQ 71
            KIV++GD   GK+++ + F +  F  + K TIG++F  R + + G   V  QIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNKSD 128
                +   Y  GA G LLVYDIT  Q+F+N+  W   ++++ + +++  ++ + GNK D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126
Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
           L H+R +  E      ++ G S    SA    +V   FQ +  +I  I
Sbjct: 127 LEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI 174

>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 = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +TIGVE    +       +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 130
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+       K+ L + + SA    N EK F
Sbjct: 131 RKVKAKTIT-FHRKKNLQYYDISAKSNYNFEKPF 163

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +TIGVE    +       +K  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 122
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+       K+ L + + SA    N EK F
Sbjct: 123 RKVKAKTIT-FHRKKNLQYYDISAKSNYNFEKPF 155

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 82/154 (53%), Gaps = 3/154 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +TIGVE    +       +K  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 123
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
           R V A+       K+ L + + SA    N EK F
Sbjct: 124 RKVKAKTIT-FHRKKNLQYYDISAKSNYNFEKPF 156

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 92/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++  +  +++   DS ++ +++ GNKSDL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS 123
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V  + AQ LA   G+ F+ETSA     V+ AF T++ +I
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 93.6 bits (231), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 93.6 bits (231), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAG 122
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I
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 = 93.2 bits (230), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 4   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 50/155 (32%), Positives = 81/155 (52%), Gaps = 1/155 (0%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG-VEFATRTLQVEGKTVKAQIWDTAGQ 71
           +KI LIGD GVGK+  ++R     F     +T+G V      L  +G  +K  +WDTAGQ
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           E+   +   YY GA GA+L +D+T R T  N+ RW++E +    +   I++  NK D+ +
Sbjct: 72  EKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF 166
            + ++ +    + + +   + E SA  A N    F
Sbjct: 132 RQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPF 166

>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 = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 4   YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 55/162 (33%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++  +  +++   DS ++ +++ GNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS 123
Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V  + AQ LA   G+ F+ETSA     V+ AF T++ +I
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 60/168 (35%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD G GK+++L  F    F  ES +    E     LQV+GK V   IWDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAF-PESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDD 94
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +   +Y  A   LL +D+T   +FDN+  RW  E+ +H    + I++ G K+DL   
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRKD 153
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
                    N L  V     Q +A   G +++LE SA    NV   FQ
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQ 201

>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 = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/169 (29%), Positives = 86/169 (50%), Gaps = 12/169 (7%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
             K V +GD  VGK+ +L  +T N+F  +   T+   F+   + V+G+ V   +WDTAGQ
Sbjct: 9   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQ 67
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLN 130
           E Y  +    YRGA   +L + +  + +++NV  +W+ ELR  A  N+ I++ G K DL 
Sbjct: 68  EDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLR 126
Query: 131 HLRAVAAEDAQILAEKEG---------LSFLETSALEALNVEKAFQTIL 170
             +   A+   ++   +G          +++E S+    NV+  F T +
Sbjct: 127 DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAI 175

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 78/150 (52%), Gaps = 10/150 (6%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
             K V +GD  VGK+ +L  +T N F  +   T+   F+   + V+G TV   +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQ 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLN 130
           E Y  +    YRGA   LL + +  + +++N+  +WL EL+ +A   I I++ G K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYA-PGIPIVLVGTKLDLR 123
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEAL 160
                  +D Q L +  G + + T+  E L
Sbjct: 124 -------DDKQFLKDHPGAASITTAQGEEL 146

>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 = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 55/164 (33%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  E   TI   +  + ++V+ +    +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G  LVY IT + TF+++   LRE  LR     ++ +++ GNK DL 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQD-LREQILRVKDTEDVPMILVGNKCDLE 121
Query: 131 HLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTILLDI 173
             R V  E  Q LA +    +FLE+SA   +NV + F  ++  I
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 54/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI   +  + ++V+ +    +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDAQQCMLEILDTAGTE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G  LVY IT + TF+++   LRE  LR     ++ +++ GNK DL 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQD-LREQILRVKDTDDVPMILVGNKCDLE 121
Query: 131 HLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDI 173
             R V  E  Q LA +    +FLE+SA   +NV + F  ++  I
Sbjct: 122 DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 83/160 (51%), Gaps = 2/160 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G   VGKS++  +F   +F   +  TI   F T+ + V G+    Q+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHL 132
           Y      Y     G +LVY +T  ++F+ +     +L D      I IM+ GNK DL+  
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME 124
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           R ++ E+ + LAE    +FLE+SA E       F+ I+L+
Sbjct: 125 RVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 164

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 54/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI   +  + ++V+ +    +I DTAG E
Sbjct: 6   YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDAQQCMLEILDTAGTE 64
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G  LVY IT + TF+++   LRE  LR     ++ +++ GNK DL 
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQD-LREQILRVKDTDDVPMILVGNKCDLE 123
Query: 131 HLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDI 173
             R V  E  Q LA +    +FLE+SA   +NV + F  ++  I
Sbjct: 124 DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 167

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 82/160 (51%), Gaps = 2/160 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G   VGKS++  +F   +F      TI   F T+ + V G+    Q+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHL 132
           Y      Y     G +LVY +T  ++F+ +     +L D      I IM+ GNK DL+  
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           R ++ E+ + LAE    +FLE+SA E       F+ I+L+
Sbjct: 127 RVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>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 = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 46/147 (31%), Positives = 83/147 (56%), Gaps = 2/147 (1%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F ++ F  +   TI   + T+   ++ +  +  I DTAGQE + A+   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSY-TKQCVIDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G LLV+ +T R +F+ + ++ R+ LR        +++ GNK+DL+H R V  E+ Q L
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 144 AEKEGLSFLETSALEALNVEKAFQTIL 170
           A +  ++++E SA   +NV++AF  ++
Sbjct: 137 ARQLKVTYMEASAKIRMNVDQAFHELV 163

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 82/160 (51%), Gaps = 2/160 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G   VGKS++  +F   +F      TI   F T+ + V G+    Q+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHL 132
           Y      Y     G +LVY +T  ++F+ +     +L D      I IM+ GNK DL+  
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME 126
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           R ++ E+ + LAE    +FLE+SA E       F+ I+L+
Sbjct: 127 RVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 80.5 bits (197), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 82/160 (51%), Gaps = 2/160 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KI ++G   VGKS++  +F   +F      TI   F T+ + V G+    Q+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 61
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHL 132
           Y      Y     G +LVY +T  ++F+ +     +L D      I IM+ GNK DL+  
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME 121
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           R ++ E+ + LAE    +FLE+SA E       F+ I+L+
Sbjct: 122 RVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 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 = 80.5 bits (197), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNKSDL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 76/150 (50%), Gaps = 10/150 (6%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
             K V +GD  VGK+ +L  +T N F  +   T+   F+   + V+G TV   +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQ 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLN 130
           E Y  +    YRGA   +L + +  + +++NV  +W+ ELR +A   + I++ G K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLR 123
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEAL 160
                  +D Q   +  G   + T+  E L
Sbjct: 124 -------DDKQFFIDHPGAVPITTNQGEEL 146

>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 = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 54/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI   +  + ++V+ +    +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLN 130
           ++ A+   Y +   G  LVY IT + TF+++   LRE  LR     ++ +++ GNK DL 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQD-LREQILRVKDTEDVPMILVGNKCDLE 121
Query: 131 HLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTILLDI 173
             R V  E  Q LA +    +FLE+SA   +NV + F  ++  I
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++  +  +++   DS ++ +++ GNKSDL   R V  + AQ L
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ F+ETSA     V+ AF T++ +I
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 = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++  +  +++   DS ++ +++ GNKSDL   R V  + AQ L
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ F+ETSA     V+ AF T++ +I
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 87/167 (52%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K VL+GD  VGK++++  +T N +  E   T    F+   + V+G+ V+ Q+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSA-VVSVDGRPVRLQLCDTAGQDE 80
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH- 131
           +  +    Y      LL + +    +F NV+ +W+ E+R H     +I++ G +SDL   
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILV-GTQSDLRED 139
Query: 132 -----------LRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAF 166
                       + V  E A++LAE+ +  S++E SAL   N+++ F
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>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 = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 140
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 141 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 170

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 138
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
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 = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 138
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   +I   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 139
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 140 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 169

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/150 (31%), Positives = 75/150 (50%), Gaps = 10/150 (6%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
             K V +GD  VGK+ +L  +T N F  +   T+   F+   + V G TV   +WDTAGQ
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLGLWDTAGQ 66
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLN 130
           E Y  +    YRGA   +L + +  + +++NV+ +W+ EL+ +A   + I++ G K DL 
Sbjct: 67  EDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLR 125
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEAL 160
                  +D Q   +  G   + T   E L
Sbjct: 126 -------DDKQFFIDHPGAVPITTVQGEEL 148

>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 = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GN+ DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   +I   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
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 = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/147 (34%), Positives = 79/147 (53%), Gaps = 3/147 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTIL 170
           A   G+ ++ETSA     VE AF T++
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DT GQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           K+ +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  +   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 81/157 (51%), Gaps = 3/157 (1%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F ++  +  +++   DS+ V M + GNK DL   R V  + A  L
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL-PTRTVDTKQAHEL 151
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           A+  G+ F+ETSA     VE AF T++ +I     KK
Sbjct: 152 AKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKK 188

>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 = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  +   TI   +  + + ++G+T    I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DT GQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG+E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
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 = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGEICLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 49/145 (33%), Positives = 78/145 (53%), Gaps = 5/145 (3%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+ + G +GVGKS ++ RF    F  E   T+   +  +   ++ + V  +I DTAGQE 
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQED 88
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH--ADSNIVIMMAGNKSDLNH 131
                  + R   G +LVYDIT R +F+ V   L+ + D      N+ +++ GNK+DL+H
Sbjct: 89  -TIQREGHMRWGEGFVLVYDITDRGSFEEVLP-LKNILDEIKKPKNVTLILVGNKADLDH 146
Query: 132 LRAVAAEDAQILAEKEGLSFLETSA 156
            R V+ E+ + LA +   +F E SA
Sbjct: 147 SRQVSTEEGEKLATELACAFYECSA 171

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++  +  +++   DS ++ +++ GNK DL   R V  + AQ L
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDL 151
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ F+ETSA     V+ AF T++ +I
Sbjct: 152 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 181

>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 = 46/147 (31%), Positives = 76/147 (51%), Gaps = 2/147 (1%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F ++ F  +   TI   + T+   V+G   +  I DTAGQE + A+   Y R 
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G LLV+ I  RQ+F+ V +   + LR     +  +++ GNK+DL   R V   +A   
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAF 140
Query: 144 AEKEGLSFLETSALEALNVEKAFQTIL 170
                +++ E SA   LNV++AF+ ++
Sbjct: 141 GASHHVAYFEASAKLRLNVDEAFEQLV 167

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTA QE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTA QE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 138
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 44/161 (27%), Positives = 85/161 (52%), Gaps = 2/161 (1%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++G   VGK+++  +F   EF      T+   + ++ + +        + DTAGQ+ 
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDE 84
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHL 132
           Y  +  ++  G  G +LVY +T   +F  +    ++L + H  + + +++ GNK+DL+  
Sbjct: 85  YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPE 144
Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           R V A + + LAE  G +F+E+SA E    +  F  ++ +I
Sbjct: 145 REVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>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 = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGLEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETXLLDILDTAGGEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE   A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEASAMRDQYMRT 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAEDAQIL 143
             G L V+ I   ++F+++ ++  +++   DS+ V M + GNK DL   R V +  AQ L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 144 AEKEGLSFLETSALEALNVEKAFQTILLDI 173
           A   G+ ++ETSA     VE AF T++ +I
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 79/168 (47%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y     +L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 79/168 (47%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y     +L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 123
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 124 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 79/168 (47%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 66
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y     +L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 125
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 126 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 173

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 85/169 (50%), Gaps = 16/169 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F+++EF      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 85
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    + +N+  +W+ E++ H   N+ I++  NK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVK-HFCPNVPIILVANKKDLRSD 144
Query: 130 NHLR---------AVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQT 168
            H+R          V  +D + +A + +   +LE SA     V + F+T
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFET 193

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 79/168 (47%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y     +L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 79/148 (53%), Gaps = 3/148 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F +  F  E   TI   +   T +++ +     + DTAGQE + A+   Y R 
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L+VY +T + +F++V R+ +  LR     +  +++  NK DL HLR V  +  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 144 AEKEGLSFLETSALE-ALNVEKAFQTIL 170
           A K  + ++ETSA +  LNV+K F  ++
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLV 177

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 52/183 (28%), Positives = 90/183 (49%), Gaps = 9/183 (4%)
Query: 14  KIVLIGDSGVGKSNILSRFTR--NEFCLESKSTIGVEFATRTLQVEGKTVKAQIW--DTA 69
           K+ ++G++ VGKS ++S FT   ++F  +   T GVE     + +   TV  +++  DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNK 126
           G + Y+   S Y+ G   A+LV+D++  ++F++   W   L+  R   +  +  ++  NK
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANK 141
Query: 127 SDLNHLR-AVAAEDAQILAEKEGLSFLETSA-LEALNVEKAFQTILLDIYHIISKKALAA 184
           +DL   R  V  + AQ  A    L F + SA     + +  F +I    Y     K  A 
Sbjct: 142 TDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKVAAF 201
Query: 185 QEA 187
           Q+A
Sbjct: 202 QDA 204

>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 = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 92/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 178
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 179 AALQARRGKKKSG 191

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 92/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 68
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 127
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 179
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 180 AALQARRGKKKSG 192

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 69
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 128
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 129 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 176

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 92/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 176
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 177 AALQARRGKKKSG 189

>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 = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 125
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>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 = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 78/168 (46%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>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 = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 92/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 178
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 179 AALQARRGKKKSG 191

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 79/148 (53%), Gaps = 3/148 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F +  F  E   TI   +   T +++ +     + DTAGQE + A+   Y R 
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSYRKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L+VY +T + +F++V R+ +  LR     +  +++  NK DL HLR V  +  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 144 AEKEGLSFLETSALE-ALNVEKAFQTIL 170
           A K  + ++ETSA +  LNV+K F  ++
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLV 177

>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 = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 78/168 (46%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 73
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 74  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 132
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 133 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 179

>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 = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 125
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 24  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 82
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 83  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 141
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 142 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 188

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQED 85
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFXPNVPIILVGNKKDLRQD 144
Query: 130 NHLR---------AVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQ 167
            H R          V +E+ + +A +     +LE SA     V + F+
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 90
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 149
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 123 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 79/148 (53%), Gaps = 3/148 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F +  F  +   TI   +   T +++ +     + DTAGQE + A+   Y R 
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 84
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L+VY +T + +F++V R+ +  LR     +  +++  NK DL HLR V  +  + +
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 144
Query: 144 AEKEGLSFLETSALE-ALNVEKAFQTIL 170
           A K  + ++ETSA +  LNV+K F  ++
Sbjct: 145 ATKYNIPYIETSAKDPPLNVDKTFHDLV 172

>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 = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 78/168 (46%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 69
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 128
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 129 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 176

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 72.0 bits (175), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQED 85
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRQD 144
Query: 130 NHLR---------AVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQ 167
            H R          V +E+ + +A +     +LE SA     V + F+
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 79/148 (53%), Gaps = 3/148 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F +  F  +   TI   +   T +++ +     + DTAGQE + A+   Y R 
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQIL 143
             G L+VY +T + +F++V R+ +  LR     +  +++  NK DL HLR V  +  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 144 AEKEGLSFLETSALE-ALNVEKAFQTIL 170
           A K  + ++ETSA +  LNV+K F  ++
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLV 177

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 41/134 (30%), Positives = 70/134 (52%), Gaps = 3/134 (2%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL 132
           Y       Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL + 
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 133 RAVAAEDAQILAEK 146
              A E A++  E 
Sbjct: 125 EHTARELAKMKQEP 138

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   +  I++ G K DL   
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A + G + +LE SAL    ++  F
Sbjct: 123 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 169

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 46/177 (25%), Positives = 89/177 (50%), Gaps = 23/177 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+  E  T + +++ + ++  +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V  +W  E+++    N  +++ G KSDL   
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 126
Query: 130 --------NHLRAVAAED--AQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
                   NH +   + D  A +  +    +++E SAL++ N  +       DI+H+
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR-------DIFHV 176

>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 = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/177 (25%), Positives = 89/177 (50%), Gaps = 23/177 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+  E  T + +++ + ++  +WDT+G   
Sbjct: 30  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 88
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V  +W  E+++    N  +++ G KSDL   
Sbjct: 89  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 147
Query: 130 --------NHLRAVAAED--AQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
                   NH +   + D  A +  +    +++E SAL++ N  +       DI+H+
Sbjct: 148 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR-------DIFHV 197

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 64
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   +  I++ G K DL   
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDLRDD 123
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A + G + +LE SAL    ++  F
Sbjct: 124 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 64
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   +  I++ G K DL   
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDLRDD 123
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A + G + +LE SAL    ++  F
Sbjct: 124 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N    E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 89
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 148
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+ K V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +++NV  +W  E+R H  S  +I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILV-GTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAF 166
                       L  +       LA E + + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 169

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/177 (25%), Positives = 89/177 (50%), Gaps = 23/177 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+  E  T + +++ + ++  +WDT+G   
Sbjct: 25  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 83
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V  +W  E+++    N  +++ G KSDL   
Sbjct: 84  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 142
Query: 130 --------NHLRAVAAED--AQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
                   NH +   + D  A +  +    +++E SAL++ N  +       DI+H+
Sbjct: 143 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR-------DIFHV 192

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAG E 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLED 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 67  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 125
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 126 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 172

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 121
Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                       L  +       +A++ G + +LE SAL    ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 54/187 (28%), Positives = 80/187 (42%), Gaps = 35/187 (18%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 73  RYRAITSAYYRGAVGALLVYDITKR-------------------QTFDNV-TRWLRELRD 112
            Y  +    Y   VG     DIT R                    +F+NV  +W  E+R 
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRH 124
Query: 113 HADSNIVIMMAGNKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEA 159
           H   N  I++ G K DL              L  +       +A++ G + +LE SAL  
Sbjct: 125 HC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 183
Query: 160 LNVEKAF 166
             ++  F
Sbjct: 184 RGLKTVF 190

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 77/167 (46%), Gaps = 16/167 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V   +WDTAG E 
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLED 90
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 149
Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
                      L  +       +A++ G + +LE SAL    ++  F
Sbjct: 150 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/160 (31%), Positives = 85/160 (53%), Gaps = 6/160 (3%)
Query: 12  LFKIVLIGDSGVGKSNILSRFT-RNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           L+++VL+GD GVGK+++ S F  + E  L  +  +G +   RTL V+G+     + DT  
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLHEQ--LGEDVYERTLTVDGEDTTLVVVDTWE 61
Query: 71  QERYRAITS--AYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKS 127
            E+     S  +  +G    ++VY I  R +F++ +    +LR  H   ++ I++ GNK+
Sbjct: 62  AEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKA 121
Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
           DL   R V+ E+ +  A      F+ETSA    NV + F+
Sbjct: 122 DLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE 161

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 176
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 177 AALQARRGKKKSG 189

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 24/193 (12%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISK 179
            H R          V  E+ + +A + G   ++E SA     V + F+        + ++
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE--------MATR 176
Query: 180 KALAAQEAASSTG 192
            AL A+     +G
Sbjct: 177 AALQARRGKKKSG 189

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 48/161 (29%), Positives = 81/161 (50%), Gaps = 5/161 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++ + G  GVGKS+++ RF +  F  ES      +   + +  +      QI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTF-RESYIPTVEDTYRQVISCDKSICTLQITDTTGSH 62
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDN---VTRWLRELRDHADSNIVIMMAGNKSDL 129
           ++ A+           +LVY IT RQ+ +    +   + E++   +S I IM+ GNK D 
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVES-IPIMLVGNKCDE 121
Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           +  R V + +A+ LA     +F+ETSA    NV++ FQ +L
Sbjct: 122 SPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 162

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+ K V   +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 68
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +++NV  +W  E+R H  S  +I++ G K DL  
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILV-GTKLDLRD 127
Query: 130 ----------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAF 166
                       L  +       LA E + + +LE SAL    ++  F
Sbjct: 128 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 175

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+ K V   +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 69
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +++NV  +W  E+R H  S  +I++ G K DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILV-GTKLDLRD 128
Query: 130 ----------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAF 166
                       L  +       LA E + + +LE SAL    ++  F
Sbjct: 129 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 176

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 84/159 (52%), Gaps = 6/159 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            KIV++GD  VGK+ +L  F++ E       T+   F +  ++ + +     +WDTAGQE
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQE 82
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH 131
            Y  +    Y  +   LL + +  R +FDN+ T+W  E++ + D+   +++ G K DL  
Sbjct: 83  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLV-GLKVDLRK 141
Query: 132 LRA--VAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
             +  V  ++   L +K G ++++E S++  + + + F+
Sbjct: 142 DGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFE 180

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 84/159 (52%), Gaps = 6/159 (3%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            KIV++GD  VGK+ +L  F++ E       T+   F +  ++ + +     +WDTAGQE
Sbjct: 23  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQE 81
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y  +   LL + +  R +FDN+ T+W  E++ + D+   +++ G K DL  
Sbjct: 82  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLV-GLKVDLRK 140
Query: 130 NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           +    V  ++   L +K G ++++E S++  + + + F+
Sbjct: 141 DGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFE 179

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRQD 124
Query: 130 NHLR---------AVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQ 167
            H R          V +E+ + +A +     +LE SA     V + F+
Sbjct: 125 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 172

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 50/179 (27%), Positives = 80/179 (44%), Gaps = 16/179 (8%)
Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           A  +D     L K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V
Sbjct: 145 AENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPV 203
Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVI 120
              +WDTAG E Y  +    Y      L+ + +    +F +V  +W  E+R H   N  I
Sbjct: 204 NLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPI 262
Query: 121 MMAGNKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
           ++ G K DL              L  +       +A++ G + +LE SAL    ++  F
Sbjct: 263 ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 50/179 (27%), Positives = 80/179 (44%), Gaps = 16/179 (8%)
Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           A  +D     L K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V
Sbjct: 145 AENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPV 203
Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVI 120
              +WDTAG E Y  +    Y      L+ + +    +F +V  +W  E+R H   N  I
Sbjct: 204 NLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPI 262
Query: 121 MMAGNKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
           ++ G K DL              L  +       +A++ G + +LE SAL    ++  F
Sbjct: 263 ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 50/179 (27%), Positives = 80/179 (44%), Gaps = 16/179 (8%)
Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           A  +D     L K V++GD  VGK+ +L  +T N F  E   T+   ++   + V+GK V
Sbjct: 145 AENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPV 203
Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVI 120
              +WDTAG E Y  +    Y      L+ + +    +F +V  +W  E+R H   N  I
Sbjct: 204 NLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPI 262
Query: 121 MMAGNKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAF 166
           ++ G K DL              L  +       +A++ G + +LE SAL    ++  F
Sbjct: 263 ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 86/168 (51%), Gaps = 17/168 (10%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTI-GVEFATRTLQVEGKT---VKAQIWDT 68
           +++VLIG+ GVGKS + + F      ++S   + G +   RTL V+G++   +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 69  AGQERY-----RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMM 122
            G+  +       +  AY       L+VY IT R +F+  +    +LR    + +I I++
Sbjct: 67  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+
Sbjct: 120 VGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIV 167

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 17/168 (10%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTI-GVEFATRTLQVEGKT---VKAQIWDT 68
           +++VLIG+ GVGKS + + F      ++S   + G +   RTL V+G++   +   +W+ 
Sbjct: 38  YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWEN 97
Query: 69  AGQERY-----RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMM 122
            G+  +       +  AY       L+VY IT R +F+  +    +LR      +I I++
Sbjct: 98  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 150
Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+
Sbjct: 151 VGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIV 198

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 81/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGLED 68
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + I    + +N+  +W  E++ H   N+ I++ GNK DL   
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 127
Query: 130 NHLR---------AVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
            H R          V  E+ + +A + G   ++E SA     V + F+
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/176 (26%), Positives = 84/176 (47%), Gaps = 16/176 (9%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           + K V++GD  VGK+ +L  +  + F  E   T+   +A  ++ V GK     ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTVGGKQYLLGLYDTAGQ 76
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSD-- 128
           E Y  +    Y      L+ + +    +F NV   W+ EL+++A  N+  ++ G + D  
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLR 135
Query: 129 --------LNHL--RAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDI 173
                   LN +  + +  E  Q LA++ G   ++E SAL    ++  F   ++ I
Sbjct: 136 DDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 191

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 73
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 74  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 132
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 133 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 184

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 67  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 125
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 126 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 177

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAIL 174

>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 = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAIL 174

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 124
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 176

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 126
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 178

>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 = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 64
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 65  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 123
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 124 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 175

>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 = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 65
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 124
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 176

>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 = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 66
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 67  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 125
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 126 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 177

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 12  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 70
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 71  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 129
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 130 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 181

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 17/168 (10%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKT---VKAQIWDT 68
           +++VLIG+ GVGKS + + F      ++S    +G +   RTL V+G++   +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 69  AGQERY-----RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMM 122
            G+  +       +  AY       L+VY IT R +F+  +    +LR      +I I++
Sbjct: 67  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIV 167

>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 = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 17/168 (10%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKT---VKAQIWDT 68
           +++VLIG+ GVGKS + + F      ++S    +G +   RTL V+G++   +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 69  AGQERY-----RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMM 122
            G+  +       +  AY       L+VY IT R +F+  +    +LR      +I I++
Sbjct: 67  KGENEWLHDHXMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIV 167

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>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 = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 12  KCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 70
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 71  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 129
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 130 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 181

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     + DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E    +   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 63/117 (53%), Gaps = 3/117 (2%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD   GK+ +L    ++ +  E+      E  T  L+ E + V+  +WDT+G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 71
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDL 129
           Y  +    Y  +   LL +DI++ +T D+ + +W  E+ D+  S  V+++ G K+DL
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLI-GCKTDL 127

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+   E   T+   +A  T+ + G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 63/117 (53%), Gaps = 3/117 (2%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD   GK+ +L    ++ +  E+      E  T  L+ E + V+  +WDT+G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 70
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDL 129
           Y  +    Y  +   LL +DI++ +T D+ + +W  E+ D+  S  V+++ G K+DL
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLI-GCKTDL 126

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 63/117 (53%), Gaps = 3/117 (2%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+GD   GK+ +L    ++ +  E+      E  T  L+ E + V+  +WDT+G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 87
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDL 129
           Y  +    Y  +   LL +DI++ +T D+ + +W  E+ D+  S  V+++ G K+DL
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLI-GCKTDL 143

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLED 63
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 122
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174

>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 = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 80/172 (46%), Gaps = 16/172 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N+F  E   T+   +A  T+ + G+     ++DTAG E 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLED 67
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    +F+NV  +W+ E+  H       ++ G + DL   
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 126
Query: 130 ---------NHLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILL 171
                    N  + +  E A+ LA + + + ++E SAL    ++  F   +L
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 178

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 79/148 (53%), Gaps = 4/148 (2%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS +  +F    F  +   TI  +F  + ++V+      +I DTAG E++ ++   Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 85  AVGALLVYDITKRQTFDNVTRWLRE--LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI 142
             G +LVY +  +Q+F ++ + +R+  +R      + +++ GNK DL   R V++ + + 
Sbjct: 75  GQGFILVYSLVNQQSFQDI-KPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRA 133
Query: 143 LAEKEGLSFLETSALEALNVEKAFQTIL 170
           LAE+ G  F+ETSA     V++ F  I+
Sbjct: 134 LAEEWGCPFMETSAKSKTMVDELFAEIV 161

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L   ++ +F      T+  E     ++V+G+ V+  +WDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTV-FENYVADVEVDGRRVELALWDTAGQED 70
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ + I    + +NV  +W+ E+  H    + I++ G K DL   
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVL-HFCQGVPIILVGCKVDLRND 129
Query: 130 ----NHLR-----AVAAEDAQILAEKEGLS-FLETSALEALNVEKAFQ 167
                 LR      V +++ Q +A++ G + + E SA     V + F+
Sbjct: 130 PQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFE 177

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 83/163 (50%), Gaps = 3/163 (1%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           ++K++L+G  GVGKS +   F   E   E+++  G  +  R++ V+G+     ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTY-DRSIVVDGEEASLMVYDIWEQ 59
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDLN 130
           +  R +           ++VY +T + +F+  +    +LR    ++ + I++ GNKSDL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V+ ++ +  A      F+ETSA    NV+  F+ ++  I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 83/163 (50%), Gaps = 3/163 (1%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           ++K++L+G  GVGKS +   F   E   E+++  G  +  R++ V+G+     ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTY-DRSIVVDGEEASLMVYDIWEQ 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDLN 130
           +  R +           ++VY +T + +F+  +    +LR    ++ + I++ GNKSDL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V+ ++ +  A      F+ETSA    NV+  F+ ++  I
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 83/163 (50%), Gaps = 3/163 (1%)
Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           ++K++L+G  GVGKS +   F   E   E+++  G  +  R++ V+G+     ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTY-DRSIVVDGEEASLMVYDIWEQ 64
Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDLN 130
           +  R +           ++VY +T + +F+  +    +LR    ++ + I++ GNKSDL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V+ ++ +  A      F+ETSA    NV+  F+ ++  I
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>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 = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 56/123 (45%), Gaps = 16/123 (13%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ+
Sbjct: 323 MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 377
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL------RELRDHADSNIVIMMAGNK 126
           + R +   YY G  G + V D   R   D   + L      RE+RD      +I++  NK
Sbjct: 378 KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRD-----AIILIFANK 432
Query: 127 SDL 129
            DL
Sbjct: 433 QDL 435

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 47/171 (27%), Positives = 78/171 (45%), Gaps = 12/171 (7%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA---QIW 66
           D +FK++L+G+SGVGKS +   F   +     +     +   R + V+ + V      IW
Sbjct: 21  DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIW 80
Query: 67  ---DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMM 122
              D  G  R   + +         L+V+ +T R++F  V   L  LR      ++ +++
Sbjct: 81  EQGDAGGWLRDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 135
Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            GNKSDL   R V+ E+ + LA       +ETSA    N  + F+  +  I
Sbjct: 136 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 67
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 128 --AMKPHEIQ---EKLGLT 141

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ+
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 68
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 69  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 128
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 129 --AMKPHEIQ---EKLGLT 142

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 55
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 115
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 116 --AMKPHEIQ---EKLGLT 129

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 55
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 115
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 116 --AMKPHEIQ---EKLGLT 129

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 61/138 (44%), Gaps = 11/138 (7%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+ +G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  GQ++
Sbjct: 2   RILXLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQDK 56
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNHL 132
            R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL   
Sbjct: 57  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLPD- 115
Query: 133 RAVAAEDAQILAEKEGLS 150
               A     + EK GL+
Sbjct: 116 ----AXKPHEIQEKLGLT 129

>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 = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 61/138 (44%), Gaps = 11/138 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ +L +    E  + +  TIG    T    V+ K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGE-VITTIPTIGFNVET----VQYKNISFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           R R++   YYR   G + V D   R         + R L +    N V ++  NK DL  
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPE 132
Query: 132 LRAVAAEDAQILAEKEGL 149
                A  A  + EK GL
Sbjct: 133 -----AMSAAEITEKLGL 145

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 24/171 (14%)
Query: 10  DYLFKIVLIGDSGVGKSNILSRFT----RNEFCLESKSTIGVEFATRTLQVEGKTVKA-- 63
           D +FK++L+G+SGVGKS +   F      N   +E+      +   R + V+ + V    
Sbjct: 10  DGVFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSE----DTYERRIMVDKEEVTLIV 65
Query: 64  -QIW---DTAG--QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADS 116
             IW   D  G  Q+       A+       L+V+ +T R++F  V   L  LR      
Sbjct: 66  YDIWEQGDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHH 118
Query: 117 NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
           ++ +++ GNKSDL   R V+ E+ + LA       +ETSA    N  + F+
Sbjct: 119 DLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFE 169

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 37/130 (28%), Positives = 60/130 (46%), Gaps = 16/130 (12%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNICFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLR------ELRDHADSNIVIMMAGNK 126
           R R +   Y++   G + V D   R+    V   L+      ELRD      V+++  NK
Sbjct: 73  RIRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKMLLVDELRDA-----VLLLFANK 127
Query: 127 SDLNHLRAVA 136
            DL +  A++
Sbjct: 128 QDLPNAMAIS 137

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 80/167 (47%), Gaps = 20/167 (11%)
Query: 12  LFKIVLIGDSGVGKSNILSRF--TRNEFCLESKSTIGVEFATRTLQVEGKTVKA---QIW 66
           +FK++L+G+SGVGKS +   F   + +   E +++   +   R + V+ + V      IW
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENS--EDTYERRIMVDKEEVTLIVYDIW 59
Query: 67  ---DTAG--QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVI 120
              D  G  Q+       A+       L+V+ +T R++F  V   L  LR      ++ +
Sbjct: 60  EQGDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV 112
Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ 167
           ++ GNKSDL   R V+ E+ + LA       +ETSA    N  + F+
Sbjct: 113 ILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFE 159

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 60/138 (43%), Gaps = 11/138 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ +L +    E  + +  TIG    T    V+ K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGE-VITTIPTIGFNVET----VQYKNISFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           R R++   YYR   G + V D   R         + R L +    N   ++  NK DL  
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 132
Query: 132 LRAVAAEDAQILAEKEGL 149
                A  A  + EK GL
Sbjct: 133 -----AMSAAEITEKLGL 145

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 60/138 (43%), Gaps = 11/138 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ +L +    E  + +  TIG    T    V+ K +   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGE-VITTIPTIGFNVET----VQYKNISFTVWDVGGQD 55
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           R R++   YYR   G + V D   R         + R L +    N   ++  NK DL  
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 115
Query: 132 LRAVAAEDAQILAEKEGL 149
                A  A  + EK GL
Sbjct: 116 -----AMSAAEITEKLGL 128

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  G +
Sbjct: 3   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 57
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 58  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 117
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 118 --AMKPHEIQ---EKLGLT 131

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  G +
Sbjct: 4   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 58
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 59  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 118
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 119 --AMKPHEIQ---EKLGLT 132

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 11/139 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +  + +  T+G    T T     K VK  +WD  G +
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 68
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L R + D    + +I++  NK DL  
Sbjct: 69  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 128
Query: 132 LRAVAAEDAQILAEKEGLS 150
             A+   + Q   EK GL+
Sbjct: 129 --AMKPHEIQ---EKLGLT 142

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 38/149 (25%), Positives = 74/149 (49%), Gaps = 6/149 (4%)
Query: 25  KSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG 84
           KS+++ RF +  F      TI   +  + +  +      QI DT G  ++ A+       
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 85  AVGALLVYDITKRQTFDN---VTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ 141
               +LV+ +T +Q+ +    + + + +++   + +I +M+ GNK D    R V   +AQ
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVE-DIPVMLVGNKCDETQ-REVDTREAQ 137
Query: 142 ILAEKEGLSFLETSALEALNVEKAFQTIL 170
            +A++   +F+ETSA    NV++ FQ +L
Sbjct: 138 AVAQEWKCAFMETSAKMNYNVKELFQELL 166

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 36/135 (26%), Positives = 61/135 (45%), Gaps = 11/135 (8%)
Query: 1   MAYKVDHEYDYLF-----KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ 55
           M   V   ++ LF     +I+++G    GK+ IL +    E  + +  TIG    T    
Sbjct: 1   MGLYVSRLFNRLFQKKDVRILMVGLDAAGKTTILYKVKLGE-VVTTIPTIGFNVET---- 55
Query: 56  VEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHA 114
           VE + +   +WD  GQ++ R +   YY    G + V D   R+  D+    L R + +  
Sbjct: 56  VEFRNISFTVWDVGGQDKIRPLWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEE 115
Query: 115 DSNIVIMMAGNKSDL 129
             + +I++  NK DL
Sbjct: 116 LKDAIILVFANKQDL 130

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/142 (27%), Positives = 64/142 (45%), Gaps = 10/142 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ L+G    GK+  ++     +F  +   T+G  F  R  +V    V  +IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVG--FNMR--KVTKGNVTIKIWDIGGQP 78
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
           R+R++   Y RG    + + D   R+  +     L  L D      I +++ GNK DL +
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPN 138
Query: 132 LRAVAAEDAQILAEKEGLSFLE 153
                A D + L EK  LS ++
Sbjct: 139 -----ALDEKQLIEKMNLSAIQ 155

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 69/148 (46%), Gaps = 21/148 (14%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNICFTVWDVGGQD 84
Query: 73  RYRAITSAYYRGAVGALLVYDITKR----QTFDNVTRWLR--ELRDHADSNIVIMMAGNK 126
           + R +   Y++   G + V D   R    ++ D + + L+  ELRD      V+++  NK
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRD-----AVLLVFANK 139
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLET 154
            D+ +   V+      L +K GL  L +
Sbjct: 140 QDMPNAMPVSE-----LTDKLGLQHLRS 162

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 67/146 (45%), Gaps = 21/146 (14%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGE-IVTTIPTIGFNVET----VEYKNISFTVWDVGGQD 75
Query: 73  RYRAITSAYYRGAVGALLVYDITKR----QTFDNVTRWLR--ELRDHADSNIVIMMAGNK 126
           + R +   Y++   G + V D   R    +  D + R L   ELRD      V+++  NK
Sbjct: 76  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRD-----AVLLVFANK 130
Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFL 152
            DL +     A +A  + +K GL  L
Sbjct: 131 QDLPN-----AMNAAEITDKLGLHSL 151

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 65/141 (46%), Gaps = 11/141 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGE-IVTTIPTIGFNVET----VEYKNISFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   Y++   G + V D   R+  +     L R L +    + V+++  NK DL +
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 132
Query: 132 LRAVAAEDAQILAEKEGLSFL 152
                A +A  + +K GL  L
Sbjct: 133 -----AMNAAEITDKLGLHSL 148

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 65/141 (46%), Gaps = 11/141 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 55
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   Y++   G + V D   R+  +     L R L +    + V+++  NK DL +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115
Query: 132 LRAVAAEDAQILAEKEGLSFL 152
                A +A  + +K GL  L
Sbjct: 116 -----AMNAAEITDKLGLHSL 131

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 65/141 (46%), Gaps = 11/141 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 17  MRILMVGLDAAGKTTILYKLKLGE-IVTTIPTIGFNVET----VEYKNISFTVWDVGGQD 71
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   Y++   G + V D   R+  +     L R L +    + V+++  NK DL +
Sbjct: 72  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 131
Query: 132 LRAVAAEDAQILAEKEGLSFL 152
                A +A  + +K GL  L
Sbjct: 132 -----AMNAAEITDKLGLHSL 147

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 65/141 (46%), Gaps = 11/141 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 220
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   Y++   G + V D   R+  +     L R L +    + V+++  NK DL +
Sbjct: 221 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 280
Query: 132 LRAVAAEDAQILAEKEGLSFL 152
                A +A  + +K GL  L
Sbjct: 281 -----AMNAAEITDKLGLHSL 296

>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 = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 35/145 (24%), Positives = 68/145 (46%), Gaps = 8/145 (5%)
Query: 14  KIVLIGDSGVGKSNILSRF--TRNEFCLESKSTIGVEFATRTLQVEGKTVK---AQIWDT 68
           K+ ++G++G GK+ +L +   T+        +T+G++     +Q+  K  +     +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAG--N 125
           AG+E + +    +       L VYD++K Q   D    WL  ++  A S+ VI++    +
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVILVGTHLD 121
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLS 150
            SD    +A  ++  + L  K G  
Sbjct: 122 VSDEKQRKACXSKITKELLNKRGFP 146

>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 = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 35/145 (24%), Positives = 68/145 (46%), Gaps = 8/145 (5%)
Query: 14  KIVLIGDSGVGKSNILSRF--TRNEFCLESKSTIGVEFATRTLQVEGKTVK---AQIWDT 68
           K+ ++G++G GK+ +L +   T+        +T+G++     +Q+  K  +     +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAG--N 125
           AG+E + +    +       L VYD++K Q   D    WL  ++  A S+ VI++    +
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVILVGTHLD 123
Query: 126 KSDLNHLRAVAAEDAQILAEKEGLS 150
            SD    +A  ++  + L  K G  
Sbjct: 124 VSDEKQRKACXSKITKELLNKRGFP 148

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 37/142 (26%), Positives = 63/142 (44%), Gaps = 10/142 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ L+G    GK+  ++     +F  +   T+G  F  R +     T+K  +WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIK--LWDIGGQP 78
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
           R+R++   Y RG    + + D   ++  +     L  L D      I +++ GNK DL  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP- 137
Query: 132 LRAVAAEDAQILAEKEGLSFLE 153
                A D + L EK  LS ++
Sbjct: 138 ----GALDEKELIEKMNLSAIQ 155

>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 = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/138 (24%), Positives = 62/138 (44%), Gaps = 11/138 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK++IL +    E  + +  TIG    T    VE K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
           + R +   YY+     + V D   R         L ++ +  +  N ++++  NK DL  
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQ 132
Query: 132 LRAVAAEDAQILAEKEGL 149
             +++      + EK GL
Sbjct: 133 AMSISE-----VTEKLGL 145

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 37/142 (26%), Positives = 63/142 (44%), Gaps = 10/142 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ L+G    GK+  ++     +F  +   T+G  F  R +     T+K  +WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIK--LWDIGGQP 87
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
           R+R++   Y RG    + + D   ++  +     L  L D      I +++ GNK DL  
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP- 146
Query: 132 LRAVAAEDAQILAEKEGLSFLE 153
                A D + L EK  LS ++
Sbjct: 147 ----GALDEKELIEKMNLSAIQ 164

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 53/122 (43%), Gaps = 16/122 (13%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ IL R    E  + +K TIG  F   TL    K +K  +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGE-VVTTKPTIG--FNVETLSY--KNLKLNVWDLGGQT 73
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL------RELRDHADSNIVIMMAGNK 126
             R     YY      + V D T +      ++ L       EL+D A     +++  NK
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA-----LLVFANK 128
Query: 127 SD 128
            D
Sbjct: 129 QD 130

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 7/131 (5%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++G    GK+ IL +F+ NE  + +  TIG    +   ++     +  +WD  GQE 
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG----SNVEEIVINNTRFLMWDIGGQES 77
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHL 132
            R+  + YY      ++V D T R+        L ++  H D     +++  NK D+   
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 137
Query: 133 RAVAAEDAQIL 143
             V AE +Q L
Sbjct: 138 MTV-AEISQFL 147

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 7/131 (5%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++G    GK+ IL +F+ NE  + +  TIG    +   ++     +  +WD  GQE 
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG----SNVEEIVINNTRFLMWDIGGQES 78
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHL 132
            R+  + YY      ++V D T R+        L ++  H D     +++  NK D+   
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 138
Query: 133 RAVAAEDAQIL 143
             V AE +Q L
Sbjct: 139 MTV-AEISQFL 148

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 7/131 (5%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++G    GK+ IL +F+ NE  + +  TIG    +   ++     +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG----SNVEEIVINNTRFLMWDIGGQES 72
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHL 132
            R+  + YY      ++V D T R+        L ++  H D     +++  NK D+   
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 133 RAVAAEDAQIL 143
             V AE +Q L
Sbjct: 133 MTV-AEISQFL 142

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 7/131 (5%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++G    GK+ IL +F+ NE  + +  TIG    +   ++     +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG----SNVEEIVINNTRFLMWDIGGQES 72
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHL 132
            R+  + YY      ++V D T R+        L ++  H D     +++  NK D+   
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 133 RAVAAEDAQIL 143
             V AE +Q L
Sbjct: 133 MTV-AEISQFL 142

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 37/141 (26%), Positives = 64/141 (45%), Gaps = 11/141 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    E  + +  TIG    T    VE K +   +WD  G +
Sbjct: 3   MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGLD 57
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           + R +   Y++   G + V D   R+  +     L R L +    + V+++  NK DL +
Sbjct: 58  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 117
Query: 132 LRAVAAEDAQILAEKEGLSFL 152
                A +A  + +K GL  L
Sbjct: 118 -----AMNAAEITDKLGLHSL 133

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 6/117 (5%)
Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++++G    GK+ IL +F  NE  + +  TIG    +   ++  K     +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFLMNEV-VHTSPTIG----SNVEEIVVKNTHFLMWDIGGQES 72
Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
            R+  + YY      +LV D   R+        L  +  H D     +++  NK D+
Sbjct: 73  LRSSWNTYYSNTEFIILVVDSIDRERLAITKEELYRMLAHEDLRKAAVLIFANKQDM 129

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/135 (27%), Positives = 61/135 (45%), Gaps = 12/135 (8%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +++++G    GK+ IL +F   +    S  T+G  F  +TL+  G   K  IWD  GQ+
Sbjct: 17  LRLLMLGLDNAGKTTILKKFNGEDIDTIS-PTLG--FNIKTLEHRG--FKLNIWDVGGQK 71
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDL-- 129
             R+    Y+    G + V D   RQ   +  R L+ L  +   +   +++  NK DL  
Sbjct: 72  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 131
Query: 130 ----NHLRAVAAEDA 140
               N +R V   D+
Sbjct: 132 ALSSNAIREVLELDS 146

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +++++G    GK+ IL +F   +    S  T+G  F  +TL+  G   K  IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTIS-PTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDL 129
             R+    Y+    G + V D   RQ   +  R L+ L  +   +   +++  NK DL
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +++++G    GK+ IL +F   +    S  T+G  F  +TL+  G   K  IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTIS-PTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDL 129
             R+    Y+    G + V D   RQ   +  R L+ L  +   +   +++  NK DL
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 36/138 (26%), Positives = 57/138 (41%), Gaps = 11/138 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ +L +    E  + +  TIG         V+   +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVEC----VQYCNISFTVWDVGGQD 72
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNH 131
           R R++   YY    G + V D   R         + R L +    N   ++  NK DL  
Sbjct: 73  RIRSLWRHYYCNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELCNAAWLVFANKQDLPE 132
Query: 132 LRAVAAEDAQILAEKEGL 149
                A  A  + EK GL
Sbjct: 133 -----AMSAAEITEKLGL 145

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 73/157 (46%), Gaps = 6/157 (3%)
Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           + ++G  G GKS +  +F    F  E    +   +++    V+ + V  ++ DTA  +  
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEE-TVDHQPVHLRVMDTADLDTP 82
Query: 75  RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS---NIVIMMAGNKSDLNH 131
           R     Y   A   L+VY +  RQ+FD+ + +L  L  HA     +I  ++ GNK D+  
Sbjct: 83  RN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ 141
Query: 132 LRAVAAEDAQILAEKEGLSFLETSA-LEALNVEKAFQ 167
            R V   +   LA + G  F E SA L+  +V+  F 
Sbjct: 142 YRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFH 178

>pdb|2BMJ|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 39/178 (21%), Positives = 80/178 (44%), Gaps = 13/178 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ ++GD+  GKS+++ RF    + +  K+    E   + + V+G+T    I + AG  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTE--SEQYKKEMLVDGQTHLVLIREEAG-- 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNKSDL 129
              A  + +   A   + V+ +    +F  V+R    L  LR      + + + G +  +
Sbjct: 64  ---APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120
Query: 130 NHLRAVAAEDAQ---ILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           +        DA+   + A+ +  S+ ET A   LNV++ FQ +   +  +  ++ L A
Sbjct: 121 SASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQLLA 178

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +I+++G  G GK+ IL R    E  + +  TIG    T T     K +K Q+WD  GQ 
Sbjct: 3  MRILILGLDGAGKTTILYRLQVGE-VVTTIPTIGFNVETVTY----KNLKFQVWDLGGQT 57
Query: 73 RYRAITSAYYRGAVGALLVYDITKR 97
            R     YY      + V D   R
Sbjct: 58 SIRPYWRCYYSNTDAVIYVVDSCDR 82

>pdb|2IWR|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 39/178 (21%), Positives = 80/178 (44%), Gaps = 13/178 (7%)
Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ ++GD+  GKS+++ RF    + +  K+    E   + + V+G+T    I + AG  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTE--SEQYKKEMLVDGQTHLVLIREEAG-- 63
Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAGNKSDL 129
              A  + +   A   + V+ +    +F  V+R    L  LR      + + + G +  +
Sbjct: 64  ---APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120
Query: 130 NHLRAVAAEDAQ---ILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           +        DA+   + A+ +  S+ ET A   LNV++ FQ +   +  +  ++ L A
Sbjct: 121 SASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQLLA 178

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	217
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-121
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-120
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-120
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-117
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-117
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-117
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-116
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-116
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-116
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-115
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-115
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-115
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-114
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-114
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-113
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-112
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-112
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-112
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-112
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-111
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-111
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-111
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-111
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-111
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-111
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-111
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-110
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-110
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-110
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-109
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-109
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-108
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-108
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	1e-108
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-108
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-107
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-107
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-107
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-106
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-104
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-103
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	5e-99
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	2e-93
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	9e-87
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-85
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	5e-83
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	3e-80
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-79
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-78
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	3e-78
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-77
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	7e-76
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-75
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	8e-75
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-74
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-73
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	4e-70
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-69
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-69
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-68
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-68
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-67
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-66
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-65
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	3e-65
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-64
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	3e-64
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	3e-60
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-58
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-58
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	9e-46
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-42
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	1e-40
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-40
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-39
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-39
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-39
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	4e-39
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	7e-37
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	8e-37
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	2e-36
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	6e-36
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-35
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	4e-34
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	3e-23
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	4e-21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	7e-14
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	9e-14
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	1e-13
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	9e-13
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	1e-12
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
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	3e-12
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-12
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	6e-12
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	8e-12
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	1e-11
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	3e-11
2fh5_B	214	SR-beta, signal recognition particle receptor beta	2e-09
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-09
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	4e-09
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-08
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-08
1nrj_B	218	SR-beta, signal recognition particle receptor beta	2e-08
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	2e-07
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	3e-07

>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 =  342 bits (880), Expect = e-121
 Identities = 122/221 (55%), Positives = 161/221 (72%), Gaps = 8/221 (3%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           +    ++YD LFKIVLIGDSGVGKSN+LSRFT+NEF ++SKSTIGVEFATRTL++EGK +
Sbjct: 3   SEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRI 62

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM 121
           KAQIWDTAGQERYRAITSAYYRGAVGAL+VYDI+K  +++N   WL ELR++AD N+ + 
Sbjct: 63  KAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVG 122

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKA 181
           + GNKSDL HLRAV  E+++  A++  L F ETSAL + NV+KAF+ ++  IY  +SK  
Sbjct: 123 LIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQ 182

Query: 182 LAAQEAASS-----TGLPQGTTINVANLSGNVK---GKACC 214
           +   +++++        P G TI++       K   G  CC
Sbjct: 183 MDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNCC 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 =  338 bits (870), Expect = e-120
 Identities = 137/193 (70%), Positives = 162/193 (83%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR ITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GNKSD
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQEAA 188
           L HLRAV  ++A+  AEK  LSF+ETSAL++ NVE+AF+ IL +IY I+S+K +A + A 
Sbjct: 122 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAH 181

Query: 189 SSTGLPQGTTINV 201
             +       I+V
Sbjct: 182 DESPGNNVVDISV 194

>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 =  337 bits (867), Expect = e-120
 Identities = 91/210 (43%), Positives = 136/210 (64%), Gaps = 4/210 (1%)

Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           ++ EYDYLFK++LIG+SGVGKS +L RF+ + +  +  STIGV+F  +T++++GKTVK Q
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R ITS+YYRG+ G ++VYD+T +++F+ V  WL+E+  +A S ++ ++ G
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 120

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           NK DL   R V  + A+  A+   + FLETSAL++ NVE AF T+   I   +S++ L  
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 180

Query: 185 QEAASSTGLPQGTTINVANLSGNVKGKACC 214
                         +N+   S    G  CC
Sbjct: 181 TTQKKE----DKGNVNLKGQSLTNTGGCCC 206

>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 =  331 bits (850), Expect = e-117
 Identities = 88/182 (48%), Positives = 119/182 (65%)

Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           +   YD+LFK ++IG++G GKS +L +F   +F  +S  TIGVEF ++ + V GK VK Q
Sbjct: 3   MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQ 62

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQER+R++T +YYRGA GALLVYDIT R+T++ +T WL + R  A  NIVI++ G
Sbjct: 63  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 122

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
           NK DL+  R V   +A   A++  L FLETSAL   NVE+AF      I + I    L  
Sbjct: 123 NKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDP 182

Query: 185 QE 186
           + 
Sbjct: 183 ER 184

>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 =  330 bits (849), Expect = e-117
 Identities = 110/180 (61%), Positives = 146/180 (81%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           +  +   +Y+++FK+VLIG+SGVGK+N+LSRFTRNEF  +S++TIGVEF+TRT+ +    
Sbjct: 14  LVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAA 73

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VKAQIWDTAG ERYRAITSAYYRGAVGALLV+D+TK QT+  V RWL+EL DHA++ IV+
Sbjct: 74  VKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVV 133

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+ GNKSDL+  R V  E+A++ AE  GL FLETSAL++ NVE AF+T+L +I+  +SK+
Sbjct: 134 MLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>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 =  330 bits (849), Expect = e-117
 Identities = 88/182 (48%), Positives = 119/182 (65%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           +  +     D+LFK ++IG +G GKS +L +F  N+F  +S  TIGVEF +R + V GKT
Sbjct: 14  LVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKT 73

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VK QIWDTAGQER+R++T +YYRGA GALLVYDIT R+T++++  WL + R  A  NIV+
Sbjct: 74  VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVV 133

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           ++ GNK DL+  R V   +A   A++  L FLETSAL   NVE+AF      I + I   
Sbjct: 134 ILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSG 193

Query: 181 AL 182
            L
Sbjct: 194 EL 195

>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 =  329 bits (847), Expect = e-116
 Identities = 75/198 (37%), Positives = 121/198 (61%), Gaps = 2/198 (1%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
            H +DY+FKI++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QI
Sbjct: 2   SHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQI 61

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAG ERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GN
Sbjct: 62  WDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGN 121

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K D+   R V++E  + LA+  G  F E SA + +NV++ F+ ++  I   +S+    A 
Sbjct: 122 KCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTAD 181

Query: 186 EAASSTGLPQGTTINVAN 203
            A +  G  QG  +    
Sbjct: 182 PAVT--GAKQGPQLTDQQ 197

>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 =  328 bits (843), Expect = e-116
 Identities = 135/169 (79%), Positives = 152/169 (89%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQI
Sbjct: 23  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAG ERYRAITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GN
Sbjct: 83  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           KSDL HLRAV  ++A+  AEK GLSF+ETSAL++ NVE AFQTIL +IY
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>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 =  327 bits (840), Expect = e-116
 Identities = 91/175 (52%), Positives = 119/175 (68%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
              YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++GK +K QIWD
Sbjct: 17  RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWD 76

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQE +R+IT +YYRGA GALLVYDIT+R+TF+++T WL + R H+ SN+VIM+ GNKS
Sbjct: 77  TAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKS 136

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL 182
           DL   R V  E+ +  A + GL F+ETSA  A NVE+AF     +IY  I +   
Sbjct: 137 DLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGLF 191

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  326 bits (838), Expect = e-115
 Identities = 89/185 (48%), Positives = 127/185 (68%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           + EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QI
Sbjct: 10  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GN
Sbjct: 70  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 129

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I   +   A A  
Sbjct: 130 KCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGG 189

Query: 186 EAASS 190
              S+
Sbjct: 190 AEKSN 194

>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 =  324 bits (834), Expect = e-115
 Identities = 86/175 (49%), Positives = 118/175 (67%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
            +    + Y Y+FK ++IGD GVGKS +L +FT  +F  +   TIGVEF TR ++V G+ 
Sbjct: 4   GSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK 63

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +K QIWDTAGQER+RA+T +YYRGA GAL+VYDIT+R T+++++ WL + R+  + N VI
Sbjct: 64  IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVI 123

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
           ++ GNK+DL   R V  E+A+  AE+ GL FLE SA    NVE AF      IY 
Sbjct: 124 ILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>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 =  325 bits (836), Expect = e-115
 Identities = 76/182 (41%), Positives = 117/182 (64%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             +YD+LFKIVLIG++GVGK+ ++ RFT+  F     +TIGV+F  +T+++ G+ VK QI
Sbjct: 20  MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQI 79

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R+IT +YYR A   +L YDIT  ++F  +  WLRE+  +A + ++ ++ GN
Sbjct: 80  WDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGN 139

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K DL   R V+ + A+  +E + + +LETSA E+ NVEK F  +   +     +  L   
Sbjct: 140 KIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNN 199

Query: 186 EA 187
            +
Sbjct: 200 VS 201

>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 =  322 bits (829), Expect = e-114
 Identities = 75/173 (43%), Positives = 112/173 (64%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
                 K+VL+GD G GKS+++ RF +++F    +STIG  F ++TL V   TVK +IWD
Sbjct: 8   NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWD 67

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQERY ++   YYRGA  A++V+D+T + +F+   +W++EL+   + N+V+ +AGNKS
Sbjct: 68  TAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKS 127

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           DL   R V AEDAQ  A++ GL F+ETSA  A NV++ F  I   +  +   +
Sbjct: 128 DLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 =  322 bits (828), Expect = e-114
 Identities = 89/182 (48%), Positives = 124/182 (68%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
              YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT++++GK +K QI
Sbjct: 2   AKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 61

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R IT+AYYRGA+G +LVYDIT  ++FDN+  W+R + +HA +++  M+ GN
Sbjct: 62  WDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K D+N  R V+ E  + LA   G+ F+ETSA   +NVE AF T+  DI   + K   A  
Sbjct: 122 KCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATA 181

Query: 186 EA 187
             
Sbjct: 182 AG 183

>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 =  320 bits (823), Expect = e-113
 Identities = 74/175 (42%), Positives = 113/175 (64%)

Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQ 64
           V    DY+FK++LIG+S VGK++ L R+  + F     ST+G++F  +T+    K +K Q
Sbjct: 15  VPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQ 74

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           IWDTAGQERYR IT+AYYRGA+G LL+YDI  +++F  V  W  +++ ++  N  +++ G
Sbjct: 75  IWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVG 134

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
           NK DL   R V AED + LA+  G  F E SA E +NV++ F+ ++  I   +++
Sbjct: 135 NKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKMNE 189

>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 =  318 bits (817), Expect = e-112
 Identities = 79/176 (44%), Positives = 113/176 (64%), Gaps = 1/176 (0%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQ 64
              YD  FK++L+GDSGVGK+ +L RF    F   +  ST+G++F  + L V+G  VK Q
Sbjct: 4   VDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQ 63

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
           +WDTAGQER+R++T AYYR A   LL+YD+T + +FDN+  WL E+ ++A  ++ +M+ G
Sbjct: 64  MWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLG 123

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           NK D  H R V  ED + LA++ GL F+ETSA   LNV+ AF  I  ++     K 
Sbjct: 124 NKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKA 179

>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 =  319 bits (820), Expect = e-112
 Identities = 80/205 (39%), Positives = 122/205 (59%), Gaps = 1/205 (0%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
            +      YD + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK 
Sbjct: 9   ASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK 68

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           VK Q+WDTAGQER+R IT+AYYRGA+G +LVYD+T  +TF N+ +W + + +HA+    +
Sbjct: 69  VKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQL 128

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           ++ GNKSD+   R V A+  + LA++ G+ F+E+SA    NV + F T+   I   I   
Sbjct: 129 LLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 187

Query: 181 ALAAQEAASSTGLPQGTTINVANLS 205
            L          +   +    ++ S
Sbjct: 188 KLVGVGNGKEGNISINSGSGNSSKS 212

>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 =  318 bits (817), Expect = e-112
 Identities = 75/203 (36%), Positives = 121/203 (59%), Gaps = 11/203 (5%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK- 59
           +  +   +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +    + 
Sbjct: 14  LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQG 73

Query: 60  ---------TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL 110
                     V  Q+WDTAGQER+R++T+A++R A+G LL++D+T +Q+F NV  W+ +L
Sbjct: 74  PNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQL 133

Query: 111 RDHADS-NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           + +A   N  I++ GNK+DL   R V    A+ LA+K G+ + ETSA    NVEKA +T+
Sbjct: 134 QANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETL 193

Query: 170 LLDIYHIISKKALAAQEAASSTG 192
           L  I   + +     Q   +  G
Sbjct: 194 LDLIMKRMEQCVEKTQIPDTVNG 216

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  316 bits (813), Expect = e-112
 Identities = 81/180 (45%), Positives = 113/180 (62%), Gaps = 1/180 (0%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
             +YD+LFK+++IGDSGVGKS++L RF  N F     +TIGV+F  RT+++ G+ VK QI
Sbjct: 3   ARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI 62

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R ITS YYRG  G ++VYD+T  ++F NV RWL E+  + D ++  ++ GN
Sbjct: 63  WDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGN 121

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K+D    + V  EDA   A + G+   ETSA E +NVE+ F  I   +           Q
Sbjct: 122 KNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQQ 181

>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 =  316 bits (813), Expect = e-111
 Identities = 86/170 (50%), Positives = 122/170 (71%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           + EYDYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++++GKT+K QI
Sbjct: 27  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 86

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R ITS+YYRGA G ++VYD+T +++F+NV +WL+E+  +A  N+  ++ GN
Sbjct: 87  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 146

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
           K DL   + V    A+  A+  G+ FLETSA  A NVE++F T+  +I  
Sbjct: 147 KCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK 196

>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 =  317 bits (814), Expect = e-111
 Identities = 62/209 (29%), Positives = 118/209 (56%), Gaps = 9/209 (4%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
                  FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +TV+ Q+
Sbjct: 10  FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 69

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAG ER+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GN
Sbjct: 70  WDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 129

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K+DL   R V+ E+ +  A++  + F+ETSA    NV++ F+ +   +  + S +  + +
Sbjct: 130 KTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSRE 189

Query: 186 EAASSTGLPQGTTINVANLSGNVKGKACC 214
           +            I +         +  C
Sbjct: 190 D---------MIDIKLEKPQEQPVSEGGC 209

>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 =  316 bits (811), Expect = e-111
 Identities = 73/173 (42%), Positives = 113/173 (65%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
              +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    K VK QI
Sbjct: 17  QGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQI 76

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GN
Sbjct: 77  WDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGN 136

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIIS 178
           K D+   R V  E  Q+LAE+ G  F E SA E ++V +AF+ ++  I   +S
Sbjct: 137 KCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>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 =  314 bits (807), Expect = e-111
 Identities = 64/166 (38%), Positives = 97/166 (58%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
             Y FK+VL+G+  VGK++++ R+  N+F  +  +T+G  F T+ L + GK V   IWDT
Sbjct: 3   RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDT 62

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+ A+   YYR + GA+LVYDIT   +F  V  W++ELR    + I + + GNK D
Sbjct: 63  AGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKID 122

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V+ ++A+  AE  G     TSA +   +E+ F  +   + 
Sbjct: 123 LEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>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 =  315 bits (809), Expect = e-111
 Identities = 87/179 (48%), Positives = 122/179 (68%), Gaps = 1/179 (0%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D +YD+LFK+VL+GD+ VGK+ ++ RF    F     STIGV+F  +TL+++GK VK QI
Sbjct: 23  DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 82

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R IT +YYR A GA+L YDITKR +F +V  W+ ++R +A SNIV ++ GN
Sbjct: 83  WDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGN 142

Query: 126 KSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYHIISKKALA 183
           KSDL+ LR V+  +AQ LAE    L  +ETSA ++ NVE+AF  +  ++         +
Sbjct: 143 KSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHGGPLFS 201

>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 =  314 bits (807), Expect = e-111
 Identities = 73/190 (38%), Positives = 117/190 (61%), Gaps = 11/190 (5%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE---- 57
               D +YDYL K + +GDSGVGK+++L ++T  +F  +  +T+G++F  + +       
Sbjct: 1   GSMSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGP 60

Query: 58  ------GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR 111
                 G+ +  Q+WDTAG ER+R++T+A++R A+G LL++D+T  Q+F NV  W+ +L+
Sbjct: 61  DGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQ 120

Query: 112 DHADS-NIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            HA S N  I++ GNKSDL   RAV  E+A+ LAEK G+ + ETSA    N+  A + +L
Sbjct: 121 MHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLL 180

Query: 171 LDIYHIISKK 180
             I   + + 
Sbjct: 181 DLIMKRMERS 190

>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 =  314 bits (807), Expect = e-111
 Identities = 78/192 (40%), Positives = 110/192 (57%), Gaps = 2/192 (1%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           +  +D +     KI++IG+SGVGKS++L RFT + F  E  +TIGV+F  +T+ V+G   
Sbjct: 5   SSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKA 64

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVI 120
           K  IWDTAGQER+R +T +YYRGA G +LVYD+T+R TF  +  WL EL  +   N IV 
Sbjct: 65  KLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVN 124

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           M+ GNK D    R V   +    A K  + F+E SA     V+ AF+ ++  I       
Sbjct: 125 MLVGNKIDK-ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLW 183

Query: 181 ALAAQEAASSTG 192
               Q +  S+G
Sbjct: 184 ESENQNSGPSSG 195

>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 =  313 bits (805), Expect = e-110
 Identities = 56/176 (31%), Positives = 90/176 (51%), Gaps = 4/176 (2%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-TVKAQIWD 67
           +    KIV++GD   GK+++ + F +  F  + K TIG++F  R + + G   V  QIWD
Sbjct: 3   HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWD 62

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWL---RELRDHADSNIVIMMAG 124
             GQ     +   Y  GA G LLVYDIT  Q+F+N+  W    +++ + +++  ++ + G
Sbjct: 63  IGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVG 122

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           NK DL H+R +  E      ++ G S    SA    +V   FQ +  +I  I   K
Sbjct: 123 NKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>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 =  314 bits (806), Expect = e-110
 Identities = 68/170 (40%), Positives = 113/170 (66%), Gaps = 1/170 (0%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
               D+  ++++IG  GVGK++++ RFT + FC   KST+GV+F  +T+++ GK ++ QI
Sbjct: 20  PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQI 79

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+ +ITSAYYR A G +LVYDITK++TFD++ +W++ +  +A  +  +++ GN
Sbjct: 80  WDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGN 139

Query: 126 KSDLNHLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDIY 174
           K D    R +  +  +  A++  G+ F E SA +  NV++ F  ++ DI 
Sbjct: 140 KLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDIL 189

>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 =  312 bits (801), Expect = e-110
 Identities = 72/172 (41%), Positives = 108/172 (62%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
                K+ L+GD+GVGKS+I+ RF ++ F      TIG  F T+T+    +  K  IWDT
Sbjct: 20  AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDT 79

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+ ++   YYRG+  A++VYDITK+ +F  + +W++EL++H   NIV+ +AGNK D
Sbjct: 80  AGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCD 139

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           L+ +R V  +DA+  AE  G   +ETSA  A+N+E+ FQ I   I  +   +
Sbjct: 140 LSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 191

>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 =  311 bits (799), Expect = e-109
 Identities = 60/174 (34%), Positives = 112/174 (64%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           M+          FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +T
Sbjct: 3   MSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT 62

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           V+ Q+WDTAGQER+R++  +Y R +  A++VYDIT   +F   ++W+ ++R    S+++I
Sbjct: 63  VRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVII 122

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           M+ GNK+DL+  R V+ E+ +  A++  + F+ETSA    NV++ F+ +   + 
Sbjct: 123 MLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 176

>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 =  308 bits (792), Expect = e-109
 Identities = 73/162 (45%), Positives = 101/162 (62%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ L+GD+GVGKS+I+ RF  + F      TIG  F T+T+Q + +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+RA+   YYRG+  A++VYDITK +TF  +  W+RELR H   +IV+ +AGNK DL  +
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           R V   DA+  A+     F+ETSA  A+N+ + F  I   I 
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>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 =  306 bits (787), Expect = e-108
 Identities = 79/170 (46%), Positives = 114/170 (67%), Gaps = 1/170 (0%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK QIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL 129
           GQER+R IT+AYYRGA+G +LVYDIT  +TF N+ +W + + +HA+    +++ GNKSD+
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
              R V A+  + LA++ G+ F+E+SA    NV + F T+   I   I  
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>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 =  306 bits (786), Expect = e-108
 Identities = 59/166 (35%), Positives = 95/166 (57%), Gaps = 1/166 (0%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
            +   K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV  + V+  +WDT
Sbjct: 2   SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQE + AIT AYYRGA   +LV+  T R++F+ ++ W  ++      +I   +  NK D
Sbjct: 62  AGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKID 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L     +  E+A+ LA++  L F  TS  E LNV + F+ +     
Sbjct: 121 LLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL 166

>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 =  307 bits (789), Expect = e-108
 Identities = 67/212 (31%), Positives = 108/212 (50%), Gaps = 13/212 (6%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
               L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMA 123
           TAGQER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ 
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123

Query: 124 GNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALA 183
           GNK DL + +            K  + + ETSA EA+NVE+AFQTI  +     ++  L 
Sbjct: 124 GNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELY 183

Query: 184 AQEAASSTGLPQGTTINVANLSGNVKGKACCS 215
            +             I +            CS
Sbjct: 184 NE---------FPEPIKLDKNERAKASAESCS 206

>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 =  305 bits (785), Expect = e-108
 Identities = 74/164 (45%), Positives = 109/164 (66%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
             FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAG
Sbjct: 5   CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAG 64

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QERY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL 
Sbjct: 65  QERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA 124

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           + RAV  ++AQ  A+   L F+ETSA  ++NV + F  I   + 
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>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 =  306 bits (787), Expect = e-107
 Identities = 65/175 (37%), Positives = 99/175 (56%), Gaps = 6/175 (3%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
                  +KIVL GD+ VGKS+ L R  +NEF     +T+GV+F  +TL V+G+    Q+
Sbjct: 22  SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQL 81

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R+I  +Y+R A G LL+YD+T  ++F N+  W+  + D A   + IM+ GN
Sbjct: 82  WDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGN 141

Query: 126 KSDLNHL------RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           K+D+         + V     + LA   G  F ETSA +  N+ +A   +  ++ 
Sbjct: 142 KADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK 196

>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 =  306 bits (787), Expect = e-107
 Identities = 53/200 (26%), Positives = 88/200 (44%), Gaps = 6/200 (3%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE-FATRTLQVEGKT 60
                   +  +KI LIGD GVGK+  ++R     F     +T+G        L  +G  
Sbjct: 1   GPGSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNV 60

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +K  +WDTAGQE+   +   YY GA GA+L +D+T R T  N+ RW++E +    +   I
Sbjct: 61  IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPI 120

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY-----H 175
           ++  NK D+ + + ++ +    + + +   + E SA  A N    F  +           
Sbjct: 121 VVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLI 180

Query: 176 IISKKALAAQEAASSTGLPQ 195
            +S   L   E       P+
Sbjct: 181 FVSNVNLEPTEVNYDYHSPE 200

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  305 bits (784), Expect = e-107
 Identities = 52/195 (26%), Positives = 92/195 (47%), Gaps = 9/195 (4%)

Query: 5   VDHEYDYLFKIVLIGDSGVGKSNILSRFTR--NEFCLESKSTIGVEFATRTLQVEGKTVK 62
           +D       K+ ++G++ VGKS ++S FT   ++F  +   T GVE     + +   TV 
Sbjct: 13  IDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVS 72

Query: 63  AQIW--DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD---HADSN 117
            +++  DTAG + Y+   S Y+ G   A+LV+D++  ++F++   W   L+      +  
Sbjct: 73  VELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERP 132

Query: 118 IVIMMAGNKSDLNHLR-AVAAEDAQILAEKEGLSFLETSA-LEALNVEKAFQTILLDIYH 175
           +  ++  NK+DL   R  V  + AQ  A    L F + SA     + +  F +I    Y 
Sbjct: 133 LRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYR 192

Query: 176 IISKKALAAQEAASS 190
               K  A Q+A  +
Sbjct: 193 NYEDKVAAFQDACRN 207

>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 =  303 bits (778), Expect = e-106
 Identities = 61/179 (34%), Positives = 97/179 (54%), Gaps = 5/179 (2%)

Query: 2   AYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV 61
           +         +FKI++IGDS VGK+ +  RF    F   +++TIGV+F  R + ++G+ +
Sbjct: 10  SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERI 69

Query: 62  KAQIWDTAGQERYR-AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IV 119
           K Q+WDTAGQER+R ++   YYR     + VYD+T   +F ++  W+ E + H  +N I 
Sbjct: 70  KIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP 129

Query: 120 IMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL---EALNVEKAFQTILLDIYH 175
            ++ GNK DL     V  + AQ  A+   +   ETSA    +  +VE  F T+   +  
Sbjct: 130 RILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS 188

>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 =  297 bits (762), Expect = e-104
 Identities = 66/172 (38%), Positives = 104/172 (60%), Gaps = 6/172 (3%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
               LFK++L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWD
Sbjct: 3   GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMA 123
           TAGQER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ 
Sbjct: 63  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 122

Query: 124 GNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIY 174
           GNK D++  R V+ E+AQ      G   + ETSA +A NV  AF+  +  + 
Sbjct: 123 GNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 173

>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 =  296 bits (759), Expect = e-103
 Identities = 58/217 (26%), Positives = 94/217 (43%), Gaps = 8/217 (3%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA     E    FK+VL+GD G GK+  + R    EF  +  +T+GVE            
Sbjct: 4   MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 63

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
           +K  +WDTAGQE++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPI 122

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           ++ GNK D+   +      + +   K+ L + + SA    N EK F  +   +    +  
Sbjct: 123 VLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL- 179

Query: 181 ALAAQEAASSTGLPQGTTINVANLSGNVKGKACCSNQ 217
               +  A     P    ++ A  +            
Sbjct: 180 ----EFVAMPALAPPEVVMDPALAAQYEHDLEVAQTT 212

>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 =  284 bits (728), Expect = 5e-99
 Identities = 62/174 (35%), Positives = 103/174 (59%), Gaps = 7/174 (4%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIW 66
               + K++++GDSGVGK++++ R+  +++  + K+TIG +F T+ + V+G K    Q+W
Sbjct: 4   RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVW 63

Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMM 122
           DTAGQER++++  A+YRGA   +LVYD+T   +F+N+  W  E   HA+         ++
Sbjct: 64  DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVI 123

Query: 123 AGNKSDLNHL-RAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIY 174
            GNK D     + V+ + AQ LA+  G +    TSA  A+NV+ AF+ I     
Sbjct: 124 LGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSAL 177

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  270 bits (693), Expect = 2e-93
 Identities = 64/207 (30%), Positives = 95/207 (45%), Gaps = 40/207 (19%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA---- 63
           E    +K VL+G+S VGKS+I+ R T++ F   + +TIG  F T  + +    +K     
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 64  ---------------------------------QIWDTAGQERYRAITSAYYRGAVGALL 90
                                             IWDTAGQERY +I   YYRGA  A++
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 91  VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS 150
           V+DI+   T D    W+ +L+    SN +I++  NK D N    V   + Q  A+   L 
Sbjct: 123 VFDISNSNTLDRAKTWVNQLK--ISSNYIIILVANKIDKNK-FQVDILEVQKYAQDNNLL 179

Query: 151 FLETSALEALNVEKAFQTILLDIYHII 177
           F++TSA    N++  F  +  +IY  I
Sbjct: 180 FIQTSAKTGTNIKNIFYMLAEEIYKNI 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 =  253 bits (649), Expect = 9e-87
 Identities = 43/173 (24%), Positives = 77/173 (44%), Gaps = 2/173 (1%)

Query: 4   KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA 63
               + D +FK++L+G+SGVGKS +   F   +     +     +   R + V+ + V  
Sbjct: 15  YFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTL 74

Query: 64  QIWDTAGQERYRA-ITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL-RDHADSNIVIM 121
            ++D   Q      +     +     L+V+ +T R++F  V   L  L       ++ ++
Sbjct: 75  VVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVI 134

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           + GNKSDL   R V+ E+ + LA       +ETSA    N  + F+  +  I 
Sbjct: 135 LVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIR 187

>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 =  249 bits (638), Expect = 1e-85
 Identities = 72/165 (43%), Positives = 100/165 (60%), Gaps = 3/165 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+VL+G++ VGKS+I+ RF  N+F    + TIG  F T+ + +   TVK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+ ++   YYR A  AL+VYD+TK Q+F     W++EL + A  +I+I + GNK D    
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 133 ---RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
              R VA E+ + LAE++GL F ETSA    NV   F  I   I 
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  243 bits (622), Expect = 5e-83
 Identities = 42/164 (25%), Positives = 75/164 (45%), Gaps = 2/164 (1%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           +FK++L+G+SGVGKS +   F   +     +     +   R + V+ + V   ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 72  ERYRA-ITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL-RDHADSNIVIMMAGNKSDL 129
                 +     +     L+V+ +T R++F  V   L  L       ++ +++ GNKSDL
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              R V+ E+ + LA       +ETSA    N  + F+  +  I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>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 =  237 bits (606), Expect = 3e-80
 Identities = 57/172 (33%), Positives = 95/172 (55%), Gaps = 2/172 (1%)

Query: 4   KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA 63
                   L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+ 
Sbjct: 10  GGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQI 68

Query: 64  QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMM 122
            I DTAGQE Y AI   Y+R   G L V+ IT+ ++F     +  + LR   D N+  ++
Sbjct: 69  DILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL 128

Query: 123 AGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            GNKSDL   R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I 
Sbjct: 129 VGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIR 180

>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 =  234 bits (600), Expect = 1e-79
 Identities = 48/166 (28%), Positives = 86/166 (51%), Gaps = 4/166 (2%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L+++VL+GD GVGK+++ S F   +   +    +G +   RTL V+G+     + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQE-RDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 72  ERYRAITS--AYYRGAVGALLVYDITKRQTFDNVTRWLREL-RDHADSNIVIMMAGNKSD 128
           E+     S  +  +G    ++VY I  R +F++ +    +L R H   ++ I++ GNK+D
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V+ E+ +  A      F+ETSA    NV + F+ ++  + 
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLR 168

>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 =  231 bits (591), Expect = 3e-78
 Identities = 56/164 (34%), Positives = 95/164 (57%), Gaps = 2/164 (1%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G+ V+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQ 62

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLN 130
           E Y AI   Y+R   G L V+ IT+ ++F     +  + LR   D N+  ++ GNKSDL 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
             R V+ E+A+  A++  ++++ETSA    NV+K F  ++ +I 
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR 166

>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 (594), Expect = 3e-78
 Identities = 59/177 (33%), Positives = 97/177 (54%), Gaps = 4/177 (2%)

Query: 1   MAYKV--DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG 58
           MA           L K++++G  GVGKS +  +F  +EF  + + T    +  + + ++G
Sbjct: 1   MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDG 59

Query: 59  KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSN 117
           + V+  I DTAGQE Y AI   Y+R   G L V+ IT+ ++F     +  + LR   D N
Sbjct: 60  EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDEN 119

Query: 118 IVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           +  ++ GNKSDL   R V+ E+A+  AE+  ++++ETSA    NV+K F  ++ +I 
Sbjct: 120 VPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIR 176

>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 =  231 bits (591), Expect = 1e-77
 Identities = 49/180 (27%), Positives = 88/180 (48%), Gaps = 7/180 (3%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKT---V 61
               +  +++VLIG+ GVGKS + + F      ++S    +G +   RTL V+G++   +
Sbjct: 31  SESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATII 90

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVI 120
              +W+  G+  +  +     +     L+VY IT R +F+  +    +LR    + +I I
Sbjct: 91  LLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI 148

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           ++ GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+  +      K
Sbjct: 149 ILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 208

>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 =  225 bits (576), Expect = 7e-76
 Identities = 52/167 (31%), Positives = 86/167 (51%), Gaps = 2/167 (1%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
                 K+V++G  GVGKS +  +F ++ F  +   TI   + T+   V+G   +  I D
Sbjct: 5   PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILD 63

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNK 126
           TAGQE + A+   Y R   G LLV+ I  RQ+F+ V +   + LR     +  +++ GNK
Sbjct: 64  TAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNK 123

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           +DL   R V   +A        +++ E SA   LNV++AF+ ++  +
Sbjct: 124 ADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 170

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  225 bits (575), Expect = 2e-75
 Identities = 43/173 (24%), Positives = 85/173 (49%), Gaps = 2/173 (1%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
                K+V++G   VGK+++  +F   EF      T+   + ++ + +        + DT
Sbjct: 21  LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDT 79

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKS 127
           AGQ+ Y  +  ++  G  G +LVY +T   +F  +    ++    H  + + +++ GNK+
Sbjct: 80  AGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKA 139

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           DL+  R V A + + LAE  G +F+E+SA E    +  F  ++ +I  + +  
Sbjct: 140 DLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSY 192

>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 =  223 bits (569), Expect = 8e-75
 Identities = 35/183 (19%), Positives = 79/183 (43%), Gaps = 11/183 (6%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEF--CLESKSTIGVEFATRTLQVEGK---TVKAQIWD 67
            K++++G++G GK+ +L +  + +        +T+G++     +Q+  K    +   +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAGNK 126
            AG+E + +    +       L VYD++K Q   D +  WL  ++  A  +  +++ G  
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTH 121

Query: 127 SDLN---HLRAVAAEDAQILAEKEGLSFL-ETSALEALNVEKAFQTILLDIYHIISKKAL 182
            D++     +A  ++  + L  K G   + +   + A     A   +   I +      +
Sbjct: 122 LDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKI 181

Query: 183 AAQ 185
             Q
Sbjct: 182 RDQ 184

>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 =  221 bits (567), Expect = 1e-74
 Identities = 43/163 (26%), Positives = 81/163 (49%), Gaps = 3/163 (1%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           ++K++L+G  GVGKS +   F   E   E+    G  +  R++ V+G+     ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAGHTY-DRSIVVDGEEASLMVYDIWEQ 59

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLN 130
           +  R +           ++VY +T + +F+  +    +LR    + ++ I++ GNKSDL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V+ ++ +  A      F+ETSA    NV+  F+ ++  I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>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 =  220 bits (562), Expect = 1e-73
 Identities = 49/177 (27%), Positives = 87/177 (49%), Gaps = 7/177 (3%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKT---VKAQ 64
               +++VLIG+ GVGKS + + F      ++S    +G +   RTL V+G++   +   
Sbjct: 3   GMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLD 62

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMA 123
           +W+  G+  +  +     +     L+VY IT R +F+  +    +LR    + +I I++ 
Sbjct: 63  MWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILV 120

Query: 124 GNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           GNKSDL   R V+  + +  A      F+ETSA    NV++ F+ I+  +      K
Sbjct: 121 GNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>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 =  210 bits (538), Expect = 4e-70
 Identities = 52/168 (30%), Positives = 92/168 (54%), Gaps = 3/168 (1%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           E    +K+V++GD GVGKS +  +F +  F  +   TI   +  +  +++ +     + D
Sbjct: 14  ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLD 72

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNK 126
           TAGQE + A+   Y R   G L+VY +T + +F++V R+ + +    D  +  +++  NK
Sbjct: 73  TAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANK 132

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEA-LNVEKAFQTILLDI 173
            DL HLR V  +  + +A K  + ++ETSA +  LNV+K F  ++  I
Sbjct: 133 VDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>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 =  209 bits (535), Expect = 1e-69
 Identities = 52/166 (31%), Positives = 81/166 (48%), Gaps = 2/166 (1%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
                KI ++G   VGKS++  +F   +F      TI   F T+ + V G+    Q+ DT
Sbjct: 3   QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKS 127
           AGQ+ Y      Y     G +LVY +T  ++F+ +     + L       I IM+ GNK 
Sbjct: 62  AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK 121

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL+  R ++ E+ + LAE    +FLE+SA E       F+ I+L+ 
Sbjct: 122 DLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 167

>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 =  209 bits (533), Expect = 4e-69
 Identities = 48/210 (22%), Positives = 93/210 (44%), Gaps = 18/210 (8%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           E    +++V+ G  GVGKS+++ RF +  F      TI   +  + +  +      QI D
Sbjct: 4   EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITD 62

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD--HADSNIVIMMAGN 125
           T G  ++ A+           +LV+ +T +Q+ + +    + +     +  +I +M+ GN
Sbjct: 63  TTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGN 122

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAAQ 185
           K D    R V   +AQ +A++   +F+ETSA    NV++ FQ +L        ++ ++  
Sbjct: 123 KCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLET----RRNMSLN 177

Query: 186 EAASSTGLPQGTTINVANLSGNVKGKACCS 215
                +G  + T           + K  C+
Sbjct: 178 IDGKRSGKQKRTD----------RVKGKCT 197

>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 =  205 bits (525), Expect = 3e-68
 Identities = 45/163 (27%), Positives = 79/163 (48%), Gaps = 3/163 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++ + G  GVGKS+++ RF +  F      T+   +  + +  +      QI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSH 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS--NIVIMMAGNKSDLN 130
           ++ A+           +LVY IT RQ+ + +     ++ +      +I IM+ GNK D +
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R V + +A+ LA     +F+ETSA    NV++ FQ +L   
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE 165

>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 =  205 bits (524), Expect = 4e-68
 Identities = 56/162 (34%), Positives = 93/162 (57%), Gaps = 3/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   DS ++ +++ GNKSDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA 122

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 =  204 bits (521), Expect = 1e-67
 Identities = 47/162 (29%), Positives = 87/162 (53%), Gaps = 2/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F    F  +   TI  +F  + ++V+      +I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
           ++ ++   Y +   G +LVY +  +Q+F ++     + +R      + +++ GNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V++ + + LAE+ G  F+ETSA     V++ F  I+  +
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>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 =  199 bits (509), Expect = 7e-66
 Identities = 51/163 (31%), Positives = 87/163 (53%), Gaps = 3/163 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI   +  + ++V+ +    +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
           ++ A+   Y +   G  LVY IT + TF+++     + LR     ++ +++ GNK DL  
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 132 LRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDI 173
            R V  E  Q LA +    +FLE+SA   +NV + F  ++  I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>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 =  199 bits (509), Expect = 1e-65
 Identities = 55/162 (33%), Positives = 90/162 (55%), Gaps = 3/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 80

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F ++  +  +++   DS ++ +++ GNK DL  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL-P 139

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V  + A  LA+  G+ F+ETSA     VE AF T++ +I
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREI 181

>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 =  198 bits (507), Expect = 3e-65
 Identities = 55/162 (33%), Positives = 91/162 (56%), Gaps = 3/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + + ++G+T    I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++  +  +++   DS ++ +++ GNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS 123

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R V  + AQ LA   G+ F+ETSA     V+ AF T++ +I
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>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 =  197 bits (502), Expect = 2e-64
 Identities = 49/167 (29%), Positives = 80/167 (47%), Gaps = 4/167 (2%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
                K+ + G +GVGKS ++ RF    F  E   T+   +      ++ + V  +I DT
Sbjct: 25  KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDT 83

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKS 127
           AGQE        + R   G +LVYDIT R +F+ V              N+ +++ GNK+
Sbjct: 84  AGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKA 142

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEA-LNVEKAFQTILLDI 173
           DL+H R V+ E+ + LA +   +F E SA     N+ + F  +  ++
Sbjct: 143 DLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 189

>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 =  196 bits (501), Expect = 3e-64
 Identities = 43/168 (25%), Positives = 72/168 (42%), Gaps = 6/168 (3%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
                + ++G  G GKS +  +F    F  E    +   + +    V+ + V  ++ DTA
Sbjct: 19  PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTA 77

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNK 126
             +  R     Y   A   L+VY +  RQ+FD+ + +L  L  HA     +I  ++ GNK
Sbjct: 78  DLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNK 136

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALE-ALNVEKAFQTILLDI 173
            D+   R V   +   LA + G  F E SA     +V+  F   + + 
Sbjct: 137 LDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREA 184

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  196 bits (499), Expect = 3e-60
 Identities = 36/183 (19%), Positives = 61/183 (33%), Gaps = 12/183 (6%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTL------ 54
            +      +    K+ LIGD   GK+++L +     F  +   T G+   T+        
Sbjct: 30  RSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGL 89

Query: 55  --QVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRD 112
               E K      WD  GQE   A    +   +   +L+ D     T  N   WLR +  
Sbjct: 90  ENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEK 146

Query: 113 HADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           +      +++  NK D N    +  +            F   S      VE   +++   
Sbjct: 147 YGG-KSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSA 205

Query: 173 IYH 175
           + H
Sbjct: 206 VLH 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 =  181 bits (462), Expect = 2e-58
 Identities = 31/165 (18%), Positives = 72/165 (43%), Gaps = 11/165 (6%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ ++G+   GKS ++ R+    + ++ +S  G  F  + + V+G++    I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTY-VQEESPEGGRF-KKEIVVDGQSYLLLIRDEGGPP 78

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLN- 130
             +     +       + V+ +    +F  V  +   L    ++  + +++ G +  ++ 
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 131 -HLRAVAAEDAQILAEKEGL-SFLETSALEALNVEKAFQTILLDI 173
            + R +    A+ L+      ++ ET A   LNVE+ FQ +   +
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 =  181 bits (461), Expect = 2e-58
 Identities = 39/179 (21%), Positives = 80/179 (44%), Gaps = 13/179 (7%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
             ++ ++GD+  GKS+++ RF    +    + T   ++  + + V+G+T    I + AG 
Sbjct: 7   ELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY-KKEMLVDGQTHLVLIREEAGA 64

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMMAG--NK 126
              +     +   A   + V+ +    +F  V+R    L  LR      + + + G  ++
Sbjct: 65  PDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDR 119

Query: 127 SDLNHLRAVAAEDAQIL-AEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALAA 184
              +  R V    A+ L A+ +  S+ ET A   LNV++ FQ +   +  +  ++ L A
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 =  149 bits (378), Expect = 9e-46
 Identities = 43/165 (26%), Positives = 82/165 (49%), Gaps = 6/165 (3%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
                 KIV++GD  VGK+ +L  F++ E       T+   F+   ++ + +     +WD
Sbjct: 19  NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWD 77

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNK 126
           TAGQE Y  +    Y  +   LL + +  R +FDN+ T+W  E++ + D     ++ G K
Sbjct: 78  TAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLK 136

Query: 127 SDL--NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
            DL  +    V  ++   L +K G ++++E S++  + + + F+ 
Sbjct: 137 VDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 181

>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 =  140 bits (355), Expect = 2e-42
 Identities = 48/168 (28%), Positives = 80/168 (47%), Gaps = 14/168 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V +GD  VGK+ +L  +T N F  +   T+   F+   + V G TV   +WDTAGQE
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSA-NVVVNGATVNLGLWDTAGQE 67

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    YRGA   +L + +  + +++NV  +W+ EL+ +A   + I++ G K DL  
Sbjct: 68  DYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRD 126

Query: 130 --------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                        +     + L +  G  +++E S+    NV+  F  
Sbjct: 127 DKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDA 174

>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 =  136 bits (344), Expect = 1e-40
 Identities = 45/173 (26%), Positives = 80/173 (46%), Gaps = 16/173 (9%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
               K+V++GD   GK+ +L  F++++F      T+  E     ++V+GK V+  +WDTA
Sbjct: 23  AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTA 81

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSD 128
           GQE Y  +    Y      L+ + I    + +N+  +W  E++     N+ I++ GNK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKD 140

Query: 129 L------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
           L                 V +E+ + +A +     +LE SA     V + F+ 
Sbjct: 141 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEM 193

>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 =  136 bits (344), Expect = 2e-40
 Identities = 57/170 (33%), Positives = 81/170 (47%), Gaps = 16/170 (9%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+VL+GD G GK+++L  F    F      T+   +    LQV+GK V   IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQD 93

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +   +Y  A   LL +D+T   +FDN+  RW  E+       + I++ G K+DL  
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRK 152

Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                     N L  V     Q +A   G +++LE SA    NV   FQ 
Sbjct: 153 DKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQE 202

>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 =  134 bits (338), Expect = 1e-39
 Identities = 51/166 (30%), Positives = 87/166 (52%), Gaps = 12/166 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V +GD  VGK+ +L  +T N+F  +   T+   F+   + V+G+ V   +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQE 68

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    YRGA   +L + +  + +++NV  +W+ ELR  A  N+ I++ G K DL  
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRD 127

Query: 130 ------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                 +H   + +   + L ++ G  +++E S+    NV+  F T
Sbjct: 128 DKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDT 173

>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 =  133 bits (336), Expect = 2e-39
 Identities = 49/170 (28%), Positives = 78/170 (45%), Gaps = 16/170 (9%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+  +  +  + V+GK V   +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y      L+ + +    +F+NV  +W  E+R H   N  I++ G K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 148

Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                       L  +       +A++ G + +LE SAL    ++  F  
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>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 =  133 bits (336), Expect = 2e-39
 Identities = 44/169 (26%), Positives = 80/169 (47%), Gaps = 16/169 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++GD   GK+ +L  F+++EF      T+   +    ++V+GK V+  +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGQED 85

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y      L+ + +    + +N+  +W+ E++     N+ I++  NK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSD 144

Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                         V  +D + +A +     +LE SA     V + F+T
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFET 193

>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 =  132 bits (335), Expect = 4e-39
 Identities = 43/178 (24%), Positives = 87/178 (48%), Gaps = 17/178 (9%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           D   +   KIV++GDS  GK+ +L  F ++ F      T+   +   + +++ + ++  +
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSL 80

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAG 124
           WDT+G   Y  +    Y  +   L+ +DI++ +T D+V  +W  E+++    N  +++ G
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVG 139

Query: 125 NKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALN-VEKAFQT 168
            KSDL            +    V+ +    +A++ G  +++E SAL++ N V   F  
Sbjct: 140 CKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 197

>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 =  126 bits (318), Expect = 7e-37
 Identities = 42/170 (24%), Positives = 85/170 (50%), Gaps = 17/170 (10%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+   +   + +++ + ++  +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y  +   L+ +DI++ +T D+V  +W  E+++    N  +++ G KSDL   
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 126

Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALN-VEKAFQT 168
                    +    V+ +    +A++ G  +++E SAL++ N V   F  
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 176

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  126 bits (319), Expect = 8e-37
 Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K VL+GD  VGK++++  +T N +  E   T   +  +  + V+G+ V+ Q+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDE 80

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           +  +    Y      LL + +    +F NV  +W+ E+R H      I++ G +SDL   
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLRED 139

Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                       + V  E A++LAE+    S++E SAL   N+++ F  
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDA 188

>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 =  125 bits (315), Expect = 2e-36
 Identities = 49/169 (28%), Positives = 79/169 (46%), Gaps = 16/169 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K V++GD  VGK+ +L  +T N F  E   T+  +  +  + V+GK V   +WDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL--- 129
           Y  +    Y     +L+ + +    +F+NV  +W  E+R H   N  I++ G K DL   
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 124

Query: 130 ---------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
                      L  +       +A++ G + +LE SAL    ++  F  
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 173

>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 =  124 bits (312), Expect = 6e-36
 Identities = 44/175 (25%), Positives = 79/175 (45%), Gaps = 16/175 (9%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
             + K V++GD  VGK+ +L  +  + F  E   T+  +    ++ V GK     ++DTA
Sbjct: 16  ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTA 74

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSD 128
           GQE Y  +    Y      L+ + +    +F NV   W+ EL+++A  N+  ++ G + D
Sbjct: 75  GQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQID 133

Query: 129 L------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTIL 170
           L               + +  E  Q LA++ G   ++E SAL    ++  F   +
Sbjct: 134 LRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAI 188

>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 =  124 bits (312), Expect = 1e-35
 Identities = 40/171 (23%), Positives = 78/171 (45%), Gaps = 17/171 (9%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+VL+GD   GK+ +L    ++ +      T+   +    L+ E + V+  +WDT+G  
Sbjct: 28  CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSP 86

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDL-- 129
            Y  +    Y  +   LL +DI++ +T D+   +W  E+ D+   +  +++ G K+DL  
Sbjct: 87  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRT 145

Query: 130 ----------NHLRAVAAEDAQILAEKEG-LSFLETSAL-EALNVEKAFQT 168
                          ++ E    +A++ G   +LE SA     ++   F+T
Sbjct: 146 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRT 196

>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 =  121 bits (304), Expect = 4e-34
 Identities = 44/220 (20%), Positives = 73/220 (33%), Gaps = 66/220 (30%)

Query: 19  GDSGVGKSNILSRFTR---NEFCLESKSTIG-VEFATRTL--------------QVEGKT 60
           G  G+GKS + +RF R   +EF L+  S +   +F  R +                +   
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 61  VKAQIW-------DTAGQERYRAITSAYYRGAV--------------------------- 86
            K  I        D   Q         Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 87  ----------GALLVYDITK--RQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNHLR 133
                     G LL  D+++   + FD+  +++  L +        I++   K D    R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            +       L+ K+ L  +ETSA   +NV+ AF T++  I
Sbjct: 215 YIRDAHTFALS-KKNLQVVETSARSNVNVDLAFSTLVQLI 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 = 94.3 bits (234), Expect = 3e-23
 Identities = 47/179 (26%), Positives = 76/179 (42%), Gaps = 16/179 (8%)

Query: 4   KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA 63
            +D     L K V++GD  VGK+ +L  +T N F          +  +  + V+GK V  
Sbjct: 147 NIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMVDGKPVNL 205

Query: 64  QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMM 122
            +WDTAG E Y  +    Y      L+ + +    +F +V  +W  E+R H   N  I++
Sbjct: 206 GLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIIL 264

Query: 123 AGNKSDL------------NHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQT 168
            G K DL              L  +       +A++ G + +LE SAL    ++  F  
Sbjct: 265 VGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>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 = 86.0 bits (213), Expect = 4e-21
 Identities = 37/186 (19%), Positives = 66/186 (35%), Gaps = 19/186 (10%)

Query: 13  FKIVLIGDSGVGKSNIL---SRFTRNEFCLESKS-------TIGVEFATRTL-QVEGKTV 61
           FKIV  G    GK+  L             E  S       T+  +F    + +V+G   
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADS-- 116
           +  ++   GQ  Y A      RG  G + V D    +   N          L ++  +  
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134

Query: 117 NIVIMMAGNKSDLNHLRAVAAED-AQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
           ++ I++  NK DL    A+  E    ++  +     LE  A E   V +  + +   +  
Sbjct: 135 DVPIVIQVNKRDLPD--ALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLA 192

Query: 176 IISKKA 181
            ++  +
Sbjct: 193 RVAGGS 198

>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 = 66.5 bits (162), Expect = 7e-14
 Identities = 34/179 (18%), Positives = 63/179 (35%), Gaps = 24/179 (13%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLES---KSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           +I+L+G    GKS+I           E+   +ST  +     +       V  QIWD  G
Sbjct: 22  RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISN---SSFVNFQIWDFPG 78

Query: 71  QERYRAITS---AYYRGAVGALLVYDITKRQT--FDNVTRWLRELRDHADSNIVIMMAGN 125
           Q  +   T      +RG    + V D           +   + +     + ++   +  +
Sbjct: 79  QMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIH 137

Query: 126 KSDL-----------NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           K D            +  +    + A    EK  LSF  TS  +  ++ +AF  ++  +
Sbjct: 138 KVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDH-SIFEAFSKVVQKL 195

>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 = 66.2 bits (162), Expect = 9e-14
 Identities = 39/175 (22%), Positives = 71/175 (40%), Gaps = 28/175 (16%)

Query: 9   YDYLF-----KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTV 61
           +  +F     +I+++G    GK+ IL +    E  + +  TIG  VE       VE K +
Sbjct: 21  FSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVE------TVEYKNI 73

Query: 62  KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVI 120
              +WD  GQ++ R +   Y++   G + V D   R+        L+++    +  + V+
Sbjct: 74  CFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVL 133

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFL--------ETSALEALNVEKAFQ 167
           ++  NK D+ +     A     L +K GL  L         T A +   +     
Sbjct: 134 LVFANKQDMPN-----AMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLD 183

>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 = 65.7 bits (161), Expect = 1e-13
 Identities = 39/164 (23%), Positives = 68/164 (41%), Gaps = 18/164 (10%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ L+G    GK+  ++     +F  +   T+G  F  R +      V  ++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQP 78

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
           R+R++   Y RG    + + D   ++  +     L  L D      I +++ GNK DL  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 138

Query: 132 LRAVAAEDAQILAEKEGLSFL--------ETSALEALNVEKAFQ 167
             A+  ++   L EK  LS +          S  E  N++   Q
Sbjct: 139 --ALDEKE---LIEKMNLSAIQDREICCYSISCKEKDNIDITLQ 177

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 63.4 bits (155), Expect = 9e-13
 Identities = 35/183 (19%), Positives = 74/183 (40%), Gaps = 27/183 (14%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            +++++G    GK++IL R    +  + +  T+G  +E       ++ K +  ++WD  G
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDV-VTTVPTVGVNLE------TLQYKNISFEVWDLGG 75

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           Q   R     Y+      + V D T R         L  L D  +    ++++  NK DL
Sbjct: 76  QTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDL 135

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQTILLDIYHIISKKA 181
               A +  +   +AE+ G+S         +++S+     + +        +   + ++ 
Sbjct: 136 PD--AASEAE---IAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDW----LVERLREQG 186

Query: 182 LAA 184
           L A
Sbjct: 187 LGA 189

>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 = 63.0 bits (154), Expect = 1e-12
 Identities = 36/166 (21%), Positives = 69/166 (41%), Gaps = 23/166 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            +I+++G  G GK+ IL R    E  + +K TIG  VE       +  K +K  +WD  G
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNVE------TLSYKNLKLNVWDLGG 71

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           Q   R     YY      + V D T +      ++ L  +    +  +  +++  NK D 
Sbjct: 72  QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ 131

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
               A++A +   ++++  L          + +SA++   + +   
Sbjct: 132 PG--ALSASE---VSKELNLVELKDRSWSIVASSAIKGEGITEGLD 172

>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 = 35/166 (21%), Positives = 68/166 (40%), Gaps = 23/166 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            K++++G    GK+ IL +F+ NE  + +  TIG  VE      ++     +  +WD  G
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE------EIVINNTRFLMWDIGG 69

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           QE  R+  + YY      ++V D T R+        L ++  H D     +++  NK D+
Sbjct: 70  QESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV 129

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
                +   +   +++   L+             AL    + +  +
Sbjct: 130 KE--CMTVAE---ISQFLKLTSIKDHQWHIQACCALTGEGLCQGLE 170

>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 = 39/166 (23%), Positives = 67/166 (40%), Gaps = 23/166 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            +I+++G  G GK+ IL R    E  + +  TIG  VE       V  K +K Q+WD  G
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEV-VTTIPTIGFNVE------TVTYKNLKFQVWDLGG 60

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
               R     YY      + V D   R         L  + +  +    ++++  NK D+
Sbjct: 61  LTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDM 120

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
               A+ + +   +A   GL           +TSA +   +++A +
Sbjct: 121 EQ--AMTSSE---MANSLGLPALKDRKWQIFKTSATKGTGLDEAME 161

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 63.5 bits (154), Expect = 3e-12
 Identities = 34/182 (18%), Positives = 72/182 (39%), Gaps = 25/182 (13%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESK---STIGVEFATRTLQVEGKTVKAQIWDTAG 70
           K++L+G SG GKS++ S    N    +++   +TI VE +          +   +WD  G
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRF---LGNMTLNLWDCGG 61

Query: 71  QERYRAIT-----SAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHADSNIVIMM 122
           Q+ +            ++     + V+D+   +   ++  +   L++LR ++  +  I +
Sbjct: 62  QDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-PDAKIFV 120

Query: 123 AGNKSDL--NHLRAVAAEDAQILAEKE-------GLSFLETSALEALNVEKAFQTILLDI 173
             +K DL     R    +       +         L    TS  +  ++ KA+  I+  +
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDE-SLYKAWSQIVCSL 179

Query: 174 YH 175
             
Sbjct: 180 IP 181

>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 = 61.4 bits (150), Expect = 3e-12
 Identities = 38/165 (23%), Positives = 68/165 (41%), Gaps = 23/165 (13%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAGQ 71
           +I+++G    GK+ IL +    E  + +  TIG  VE       VE K +   +WD  GQ
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVE------TVEYKNISFTVWDVGGQ 54

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLN 130
           ++ R +   Y++   G + V D   R+  +     L  +    +  + V+++  NK DL 
Sbjct: 55  DKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP 114

Query: 131 HLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
           +     A +A  + +K GL            T A     + +   
Sbjct: 115 N-----AMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLD 154

>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 = 61.1 bits (149), Expect = 6e-12
 Identities = 34/166 (20%), Positives = 63/166 (37%), Gaps = 23/166 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            +++++G    GK+ IL +F   +       T+G  ++       +E +  K  IWD  G
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIK------TLEHRGFKLNIWDVGG 71

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           Q+  R+    Y+    G + V D   RQ   +  R L+ L      +   +++  NK DL
Sbjct: 72  QKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
               A++      + E   L             SA+   ++     
Sbjct: 132 PG--ALSCNA---IQEALELDSIRSHHWRIQGCSAVTGEDLLPGID 172

>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 = 60.7 bits (148), Expect = 8e-12
 Identities = 35/166 (21%), Positives = 68/166 (40%), Gaps = 23/166 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            K++++G    GK+ IL +F+ NE  + +  TIG  VE      ++     +  +WD  G
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE------EIVINNTRFLMWDIGG 74

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           QE  R+  + YY      ++V D T R+        L ++  H D     +++  NK D+
Sbjct: 75  QESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV 134

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
                +   +   +++   L+             AL    + +  +
Sbjct: 135 KE--CMTVAE---ISQFLKLTSIKDHQWHIQACCALTGEGLCQGLE 175

>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 = 60.4 bits (147), Expect = 1e-11
 Identities = 32/169 (18%), Positives = 66/169 (39%), Gaps = 25/169 (14%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKS-TIG--VEFATRTLQVEGKTVKAQIWDTA 69
             ++ +G    GK+ I+++   +    ++   TIG  +E      + +  ++   ++D +
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFSIE------KFKSSSLSFTVFDMS 75

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH---ADSNIVIMMAGNK 126
           GQ RYR +   YY+     + V D + R         L  L +H       I I+   NK
Sbjct: 76  GQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANK 135

Query: 127 SDLNHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQ 167
            DL    AV +     +++   L            + A++   +++   
Sbjct: 136 MDLRD--AVTSVK---VSQLLCLENIKDKPWHICASDAIKGEGLQEGVD 179

>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 = 58.8 bits (143), Expect = 3e-11
 Identities = 37/172 (21%), Positives = 67/172 (38%), Gaps = 23/172 (13%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQIWDTAG 70
            +I+L+G    GK+ +L +    +       T G  ++       V+ +  K  +WD  G
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFNIK------SVQSQGFKLNVWDIGG 69

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL 129
           Q + R    +Y+      + V D   R+ F+   + L EL +    S + +++  NK DL
Sbjct: 70  QRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDL 129

Query: 130 NHLRAVAAEDAQILAEKEGLS--------FLETSALEALNVEKAFQTILLDI 173
               A  A +   +AE   L             SAL    V+     +  ++
Sbjct: 130 LT--AAPASE---IAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 54.7 bits (132), Expect = 2e-09
 Identities = 19/127 (14%), Positives = 48/127 (37%), Gaps = 19/127 (14%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
            ++ +G    GK+ +  R    ++  +++++I    A   +    +     + D  G E 
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQY-RDTQTSITDSSAIYKVN-NNRGNSLTLIDLPGHES 66

Query: 74  YRA-ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH----------ADSNIVIMM 122
            R  +   +   A   + V D    Q      R ++++ +             ++  +++
Sbjct: 67  LRFQLLDRFKSSARAVVFVVDSAAFQ------REVKDVAEFLYQVLIDSMALKNSPSLLI 120

Query: 123 AGNKSDL 129
           A NK D+
Sbjct: 121 ACNKQDI 127

>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 = 53.7 bits (130), Expect = 3e-09
 Identities = 28/138 (20%), Positives = 54/138 (39%), Gaps = 11/138 (7%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++ +G    GK+ +L     +      + T      +  L +    +K   +D  G  +
Sbjct: 25  KLLFLGLDNAGKTTLLHMLKNDRL-ATLQPTWH--PTSEELAI--GNIKFTTFDLGGHIQ 79

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHL 132
            R +   Y+    G + + D    + FD     L  L + A+  ++  ++ GNK D  + 
Sbjct: 80  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN- 138

Query: 133 RAVAAEDAQILAEKEGLS 150
            AV+  +   L    GL 
Sbjct: 139 -AVSEAE---LRSALGLL 152

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

 Score = 55.6 bits (133), Expect = 3e-09
 Identities = 33/205 (16%), Positives = 75/205 (36%), Gaps = 42/205 (20%)

Query: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE-FATRTLQVEGKTVKAQ 64
             E D++          +   + +S   R  + L SK    V+ F    L++  K + + 
Sbjct: 48  KEEIDHI----------IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97

Query: 65  IWDTAGQERYRA---ITSAY--YR----GAVGALLVYDITKRQTFDNVTRWLRELRDHAD 115
           I     +   R    +T  Y   R            Y++++ Q +  + + L ELR    
Sbjct: 98  I-----KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA-- 150

Query: 116 SNIVIM-MAGN-KSDLNHLRAVAAEDAQILAEKEG----LSFLETSALEALNVEKAFQTI 169
            N++I  + G+ K+ +           ++  + +     L+    ++ E + +E     +
Sbjct: 151 KNVLIDGVLGSGKTWVA---LDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-LE-----M 201

Query: 170 LLDIYHIISKKALAAQEAASSTGLP 194
           L  + + I     +  + +S+  L 
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLR 226

>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 = 29/143 (20%), Positives = 51/143 (35%), Gaps = 11/143 (7%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V +G    GK+ +L     +    +   T+     +  L +    +    +D  G  +
Sbjct: 27  KLVFLGLDNAGKTTLLHMLKDDRL-GQHVPTLH--PTSEELTI--AGMTFTTFDLGGHIQ 81

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHL 132
            R +   Y     G + + D    +        L  L      +N+ I++ GNK D    
Sbjct: 82  ARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE- 140

Query: 133 RAVAAEDAQILAEKEGLSFLETS 155
            A++ E    L E  GL    T 
Sbjct: 141 -AISEER---LREMFGLYGQTTG 159

>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 = 53.0 bits (127), Expect = 1e-08
 Identities = 31/126 (24%), Positives = 55/126 (43%), Gaps = 10/126 (7%)

Query: 7   HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIG--VEFATRTLQVEGKTVKAQ 64
                  +I+++G    GK+ IL +    E  + +  TIG  VE       VE K +   
Sbjct: 160 LFGKKEMRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVE------TVEYKNISFT 212

Query: 65  IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMA 123
           +WD  GQ++ R +   Y++   G + V D   R+  +     L  +    +  + V+++ 
Sbjct: 213 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVF 272

Query: 124 GNKSDL 129
            NK DL
Sbjct: 273 ANKQDL 278

>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 = 51.7 bits (124), Expect = 2e-08
 Identities = 20/125 (16%), Positives = 47/125 (37%), Gaps = 15/125 (12%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
            I++ G    GK+++L+  T +     +  +     +      +       + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSV-RPTVVSQE-PLSA----ADYDGSGVTLVDFPGHVK 103

Query: 74  YRAITSAYYRGAVGAL--LVYDI---TKRQTFDNVTRWLREL----RDHADSNIVIMMAG 124
            R   S Y +     +  L++ +      +       +L ++        ++ I I++A 
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 125 NKSDL 129
           NKS+L
Sbjct: 164 NKSEL 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 = 51.7 bits (124), Expect = 2e-08
 Identities = 22/124 (17%), Positives = 48/124 (38%), Gaps = 15/124 (12%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           I++ G    GK+++L+  T +     +  +            +G  V   + D  G  + 
Sbjct: 15  IIIAGPQNSGKTSLLTLLTTDSV-RPTVVSQE---PLSAADYDGSGV--TLVDFPGHVKL 68

Query: 75  RAITSAYYRGAVGAL--LVYDI---TKRQTFDNVTRWLREL----RDHADSNIVIMMAGN 125
           R   S Y +     +  L++ +      +       +L ++        ++ I I++A N
Sbjct: 69  RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN 128

Query: 126 KSDL 129
           KS+L
Sbjct: 129 KSEL 132

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 49.3 bits (117), Expect = 3e-07
 Identities = 33/185 (17%), Positives = 65/185 (35%), Gaps = 30/185 (16%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA----QIWDTAG 70
           ++L+G    GKS+I      N   ++   T+ +E    T     +         + +  G
Sbjct: 2   VLLMGVRRCGKSSICKVVFHN---MQPLDTLYLES---TSNPSLEHFSTLIDLAVMELPG 55

Query: 71  QERYRA---ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS---NIVIMMAG 124
           Q  Y      +   ++     + V D      + N    L  + ++A     +I I +  
Sbjct: 56  QLNYFEPSYDSERLFKSVGALVYVIDSQ--DEYINAITNLAMIIEYAYKVNPSINIEVLI 113

Query: 125 NKSDL--NHLRAVAAEDAQILAEKE---------GLSFLETSALEALNVEKAFQTILLDI 173
           +K D      +  A  D      +E          +SF  TS  +  ++ +AF  I+  +
Sbjct: 114 HKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDH-SIYEAFSRIVQKL 172

Query: 174 YHIIS 178
              +S
Sbjct: 173 IPELS 177

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	217
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	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
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	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
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	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
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	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
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	100.0
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.98
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.97
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.94
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.96
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.96
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.95
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.94
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.94
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.94
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.93
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.93
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.93
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.93
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.92
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.91
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.91
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.91
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.91
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.9
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.9
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.89
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.89
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.89
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.89
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.89
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.88
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.88
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.88
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.88
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.88
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.87
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.87
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.87
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.87
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.86
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.86
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.86
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.86
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.86
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.86
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.86
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.86
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.86
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.86
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.85
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.85
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.84
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.84
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.83
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.83
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.83
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.83
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.83
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.83
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.82
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.82
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.81
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.81
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.8
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.8
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.79
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.79
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.78
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.78
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.78
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.77
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.76
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.76
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.76
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.76
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.75
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.75
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.74
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.74
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.7
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.7
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.69
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.68
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.67
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.66
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.65
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.65
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.63
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.58
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.56
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.56
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.56
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.53
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.52
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.51
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.45
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.39
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.38
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.36
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.25
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.04
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.96
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.95
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.9
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.89
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.85
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.84
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.52
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.49
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.48
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.42
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.4
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.31
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.31
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.24
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.19
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.15
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.13
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	98.05
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.91
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.65
3cwq_A	209	Para family chromosome partitioning protein; alpha	97.49
2xxa_A	433	Signal recognition particle protein; protein trans	97.48
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.48
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.43
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.39
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.37
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.34
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.32
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.29
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.24
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.23
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.21
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.2
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.18
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.18
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.17
1via_A	175	Shikimate kinase; structural genomics, transferase	97.17
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.17
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.16
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.16
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.15
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.13
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.09
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.05
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.04
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.01
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.01
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.01
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.99
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.98
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.98
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.97
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.96
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.96
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.95
3co5_A	143	Putative two-component system transcriptional RES	96.95
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.95
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.94
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.93
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.93
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.92
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.92
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.91
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.91
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.91
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.91
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.9
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.9
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.89
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.88
1g6h_A	257	High-affinity branched-chain amino acid transport	96.88
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.87
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.87
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.87
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.86
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.86
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.86
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.85
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.85
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.84
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.84
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.83
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.83
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.83
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.83
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.83
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.82
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.81
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.81
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.8
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.8
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.8
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.79
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.79
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.79
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.79
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.78
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.78
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.78
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.76
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.76
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.76
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.75
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.73
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.73
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.73
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.73
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.72
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.7
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.7
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.69
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.69
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.69
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.69
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.68
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.68
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.68
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.67
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.65
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.65
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.64
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.64
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.64
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.63
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.6
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.59
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.59
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.59
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.59
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.58
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.57
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.56
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.56
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.56
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.55
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.55
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.55
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.55
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.55
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.54
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.52
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.51
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.5
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.5
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.49
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.49
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.49
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.49
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.49
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.49
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.48
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.48
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.48
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.45
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.45
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.45
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.45
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.44
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.44
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.44
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.43
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.43
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.4
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.4
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.39
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.39
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.37
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.36
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.33
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.31
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.31
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.3
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.3
2og2_A	359	Putative signal recognition particle receptor; nuc	96.29
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.29
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.29
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.29
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.29
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.28
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.27
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.25
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.25
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.23
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.22
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.21
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.21
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.21
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.19
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.17
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.16
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.15
3uc9_A	233	Increased recombination centers protein 6; rossman	96.15
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.14
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.14
3bos_A	242	Putative DNA replication factor; P-loop containing	96.14
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.13
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.13
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.12
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.1
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.1
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.09
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.08
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.07
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.06
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.04
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.03
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.03
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.01
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.95
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.93
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.92
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.92
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.89
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.87
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.86
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.85
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.85
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.85
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.83
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.82
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.82
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.78
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.78
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.77
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.77
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.75
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.74
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.73
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.73
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.71
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.7
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.68
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.65
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.64
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.61
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.61
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.6
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.57
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.57
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.56
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.54
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.51
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.51
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.5
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.49
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.48
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.47
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.44
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.43
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.42
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.39
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.38
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.38
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.37
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.36
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.35
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.34
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.34
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.31
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.31
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.28
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.27
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.26
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.26
2qgz_A	308	Helicase loader, putative primosome component; str	95.25
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.24
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.22
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.17
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.15
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.11
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.11
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.08
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.06
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	95.06
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.06
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.02
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.0
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.99
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.97
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	94.96
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.96
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.95

>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=9.7e-45  Score=272.11  Aligned_cols=169  Identities=34%  Similarity=0.664  Sum_probs=146.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      +-..+||+|+|.+|||||||+++|+.+.|...+.+|.+.++....+.+++..+++.||||+|++.|..++..++++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            34569999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++++|+.+..|+..+......++|++||+||+|+.+.+.+..+++..++..+++++++|||++|.||+++|+.
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~  169 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRR  169 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999998887778999999999999988899999999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          169 ILLDIYHII  177 (217)
Q Consensus       169 l~~~~~~~~  177 (217)
                      |++.+....
T Consensus       170 i~~~i~~~~  178 (216)
T 4dkx_A          170 VAAALPGME  178 (216)
T ss_dssp             HHHHC----
T ss_pred             HHHHHHhhh
Confidence            998876543

>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=1.6e-37  Score=231.70  Aligned_cols=176  Identities=49%  Similarity=0.834  Sum_probs=160.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            35678999999999999999999999999988888888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|+
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  163 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  163 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887766899999999999987777778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKKALA  183 (217)
Q Consensus       168 ~l~~~~~~~~~~~~~~  183 (217)
                      +|.+.+.+........
T Consensus       164 ~l~~~i~~~~~~~~~~  179 (206)
T 2bcg_Y          164 TMARQIKESMSQQNLN  179 (206)
T ss_dssp             HHHHHHHHHCCHHHHH
T ss_pred             HHHHHHHHHHhhcccc
Confidence            9999998876655544

>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-38  Score=237.75  Aligned_cols=184  Identities=63%  Similarity=0.987  Sum_probs=148.3

Q ss_pred             CCCCCCC-CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchh
Q 042687            1 MAYKVDH-EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITS   79 (217)
Q Consensus         1 m~~~~~~-~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   79 (217)
                      |+..... ..+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+..++.
T Consensus         1 Ms~~~~~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   80 (223)
T 3cpj_B            1 MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITS   80 (223)
T ss_dssp             ---------CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCG
T ss_pred             CCccccCCCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHH
Confidence            4444332 346789999999999999999999999999888888888888888888999889999999999999999999


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           80 AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      .+++.+|++|+|||++++.+++.+..|+..+......++|++||+||+|+...+.+..+++..++...+++++++||+++
T Consensus        81 ~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~  160 (223)
T 3cpj_B           81 AYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNS  160 (223)
T ss_dssp             GGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-C
T ss_pred             HHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCC
Confidence            99999999999999999999999999999998876668999999999999877777788899999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIYHIISKKALAA  184 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~~~~~~~~~~~  184 (217)
                      .|++++|++|++.+.+...+.....
T Consensus       161 ~gi~~l~~~l~~~i~~~~~~~~~~~  185 (223)
T 3cpj_B          161 ENVDKAFEELINTIYQKVSKHQMDL  185 (223)
T ss_dssp             CCHHHHHHHHHHHHTTCC-------
T ss_pred             CCHHHHHHHHHHHHHHHhhhcccCc
Confidence            9999999999999988877766655

>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=1.4e-36  Score=226.27  Aligned_cols=167  Identities=32%  Similarity=0.531  Sum_probs=149.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....++|+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   89 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   89 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEE
Confidence            34569999999999999999999999988777777766544 45667888888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |+|||+++++++..+..|+..+..... .++|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|+
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  169 (206)
T 2bov_A           90 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFF  169 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999999998877653 5799999999999987777888889999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          168 TILLDIYHI  176 (217)
Q Consensus       168 ~l~~~~~~~  176 (217)
                      +|++.+.+.
T Consensus       170 ~l~~~i~~~  178 (206)
T 2bov_A          170 DLMREIRAR  178 (206)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            999988764

>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=8.3e-36  Score=220.36  Aligned_cols=173  Identities=50%  Similarity=0.837  Sum_probs=158.6

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+..+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
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            45678999999999999999999999999988888888888888889999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+...+...++..++++++++||++|.|++++|+
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            99999999999999999999999888777899999999999988788888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKK  180 (217)
Q Consensus       168 ~l~~~~~~~~~~~  180 (217)
                      +|.+.+.+.....
T Consensus       172 ~l~~~i~~~~~~~  184 (196)
T 3tkl_A          172 TMAAEIKKRMGPG  184 (196)
T ss_dssp             HHHHHHHHHC---
T ss_pred             HHHHHHHHHhccc
Confidence            9999987765443

>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=4.4e-36  Score=223.20  Aligned_cols=173  Identities=43%  Similarity=0.740  Sum_probs=157.5

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ....+..+||+|+|.+|||||||+++|.++.+...+.+|.+.++....+.+++..+.+.+|||||++.+...+..+++.+
T Consensus        20 ~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   99 (201)
T 2ew1_A           20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSA   99 (201)
T ss_dssp             --CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcC
Confidence            34567889999999999999999999999999888888888888888888999999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      |++|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++
T Consensus       100 d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  179 (201)
T 2ew1_A          100 NALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKL  179 (201)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998877668999999999999877777788889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIIS  178 (217)
Q Consensus       166 ~~~l~~~~~~~~~  178 (217)
                      |++|.+.+.+...
T Consensus       180 ~~~l~~~i~~~~~  192 (201)
T 2ew1_A          180 FLDLACRLISEAR  192 (201)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998876543

>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=1.2e-35  Score=219.02  Aligned_cols=175  Identities=52%  Similarity=0.844  Sum_probs=155.2

Q ss_pred             CCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhh
Q 042687            3 YKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYY   82 (217)
Q Consensus         3 ~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   82 (217)
                      ........+.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++
T Consensus        12 ~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   91 (191)
T 2a5j_A           12 SGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYY   91 (191)
T ss_dssp             CCCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHH
T ss_pred             cccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHh
Confidence            34455667889999999999999999999999998888888888888888888999889999999999999999999999


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                      +.+|++|+|||++++++++.+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|+
T Consensus        92 ~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (191)
T 2a5j_A           92 RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNV  171 (191)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTH
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCH
Confidence            99999999999999999999999999998876668999999999999877777888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYHII  177 (217)
Q Consensus       163 ~~~~~~l~~~~~~~~  177 (217)
                      +++|++|.+.+.+..
T Consensus       172 ~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          172 EEAFINTAKEIYRKI  186 (191)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999887654

>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=5e-36  Score=223.47  Aligned_cols=171  Identities=40%  Similarity=0.679  Sum_probs=150.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .++.++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
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            45679999999999999999999999998888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC----CCCeEEEEEeCCCCccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKSDLNHLRAVAAEDAQILAE-KEGLSFLETSALEALNVE  163 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~gv~  163 (217)
                      |+|||++++.++..+..|+..+.....    .++|+++|+||+|+.. +....+++..++. ..+++++++||++|.|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  163 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVE  163 (207)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcc-cccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            999999999999999999988776543    4789999999999973 5566777888877 667899999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYHIISKK  180 (217)
Q Consensus       164 ~~~~~l~~~~~~~~~~~  180 (217)
                      ++|++|.+.+.+.....
T Consensus       164 ~l~~~l~~~~~~~~~~~  180 (207)
T 1vg8_A          164 QAFQTIARNALKQETEV  180 (207)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccc
Confidence            99999999987765443

>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=4.6e-36  Score=219.55  Aligned_cols=171  Identities=51%  Similarity=0.881  Sum_probs=127.1

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..++.++|+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (183)
T 2fu5_C            4 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   83 (183)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCE
Confidence            35678999999999999999999999988877777888888888888889988999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  163 (183)
T 2fu5_C           84 IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFF  163 (183)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887666899999999999987777778889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          168 TILLDIYHIIS  178 (217)
Q Consensus       168 ~l~~~~~~~~~  178 (217)
                      +|.+.+.+...
T Consensus       164 ~l~~~i~~~~~  174 (183)
T 2fu5_C          164 TLARDIKAKMD  174 (183)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99998876544

>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=8.5e-36  Score=221.67  Aligned_cols=171  Identities=50%  Similarity=0.834  Sum_probs=146.8

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      +.+.+..+||+|+|.+|||||||+++|.++.+...+.+|.+.++....+.+++..+.+.+||+||++.+..++..+++.+
T Consensus        23 ~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (201)
T 2hup_A           23 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSA  102 (201)
T ss_dssp             ---CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhC
Confidence            44567789999999999999999999999998877888888888888888899889999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVEK  164 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~~  164 (217)
                      |++|+|||++++++++.+..|+..+......++|++||+||+|+...+.+..+++..++...++ +++++||++|.|+++
T Consensus       103 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  182 (201)
T 2hup_A          103 NGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEE  182 (201)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHH
Confidence            9999999999999999999999998887766899999999999987777888889999999999 999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHI  176 (217)
Q Consensus       165 ~~~~l~~~~~~~  176 (217)
                      +|++|++.+.+.
T Consensus       183 l~~~l~~~i~~~  194 (201)
T 2hup_A          183 AFLRVATELIMR  194 (201)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.4e-35  Score=214.19  Aligned_cols=172  Identities=47%  Similarity=0.791  Sum_probs=155.0

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+
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            45688999999999999999999999999888888888888888888999998999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.++..+..|+..+..... ++|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|+
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFN  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHCT-TSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            9999999999999999999999887665 799999999999988777888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKK  180 (217)
Q Consensus       168 ~l~~~~~~~~~~~  180 (217)
                      +|.+.+.+...+.
T Consensus       164 ~l~~~~~~~~~~~  176 (181)
T 3tw8_B          164 CITELVLRAKKDN  176 (181)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhh
Confidence            9999887765544

>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=3e-35  Score=218.74  Aligned_cols=173  Identities=40%  Similarity=0.746  Sum_probs=157.5

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
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             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|+
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            99999999999999999999998887666899999999999987777778889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKK  180 (217)
Q Consensus       168 ~l~~~~~~~~~~~  180 (217)
                      +|.+.+.+.....
T Consensus       164 ~l~~~i~~~~~~~  176 (203)
T 1zbd_A          164 RLVDVICEKMSES  176 (203)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhh
Confidence            9999887765443

>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=1.7e-35  Score=216.93  Aligned_cols=171  Identities=51%  Similarity=0.821  Sum_probs=156.9

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+..+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            46788999999999999999999999999988888888888888888889988999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+...++..++...+++++++||++|.|++++|+
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  165 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV  165 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHH
Confidence            99999999999999999999988877666899999999999987677788889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          168 TILLDIYHIIS  178 (217)
Q Consensus       168 ~l~~~~~~~~~  178 (217)
                      +|.+.+.+...
T Consensus       166 ~l~~~~~~~~~  176 (186)
T 2bme_A          166 QCARKILNKIE  176 (186)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99998876544

>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=3.5e-35  Score=216.73  Aligned_cols=174  Identities=63%  Similarity=1.015  Sum_probs=157.2

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      ...+.+..++|+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..
T Consensus        18 ~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   97 (193)
T 2oil_A           18 GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRG   97 (193)
T ss_dssp             --CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTT
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhcc
Confidence            34556788999999999999999999999999888888888888888888888899999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      +|++|+|||++++.++..+..|+..+......++|+++|+||+|+...+.+..+++..++...+++++++||++|.|+++
T Consensus        98 ~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  177 (193)
T 2oil_A           98 AVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVEL  177 (193)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            99999999999999999999999998877666899999999999987677778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHIIS  178 (217)
Q Consensus       165 ~~~~l~~~~~~~~~  178 (217)
                      +|++|.+.+.+...
T Consensus       178 l~~~l~~~i~~~~~  191 (193)
T 2oil_A          178 AFETVLKEIFAKVS  191 (193)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999998876543

>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=4.8e-35  Score=215.39  Aligned_cols=172  Identities=43%  Similarity=0.749  Sum_probs=156.5

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      .....++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..
T Consensus        15 ~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   94 (189)
T 2gf9_A           15 VPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRG   94 (189)
T ss_dssp             CCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTT
T ss_pred             CCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccC
Confidence            34456678999999999999999999999999888888888888888888888888999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      +|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|+++
T Consensus        95 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  174 (189)
T 2gf9_A           95 AMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQ  174 (189)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHH
Confidence            99999999999999999999999998887666899999999999987777778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHI  176 (217)
Q Consensus       165 ~~~~l~~~~~~~  176 (217)
                      +|++|.+.+.+.
T Consensus       175 l~~~l~~~i~~~  186 (189)
T 2gf9_A          175 VFERLVDVICEK  186 (189)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988664

>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=4.1e-35  Score=213.38  Aligned_cols=169  Identities=51%  Similarity=0.882  Sum_probs=154.1

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ...+..++|+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            45667899999999999999999999999988778888888888888888998999999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++|+|||++++.+++.+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF  169 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999888776689999999999998777777888999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      ++|++.+.+
T Consensus       170 ~~l~~~i~~  178 (179)
T 1z0f_A          170 LEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHhh
Confidence            999987743

>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=5.3e-35  Score=215.45  Aligned_cols=177  Identities=41%  Similarity=0.704  Sum_probs=154.5

Q ss_pred             CCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeE-EEEEEECCe---------EEEEEEEecCChh
Q 042687            3 YKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFA-TRTLQVEGK---------TVKAQIWDTAGQE   72 (217)
Q Consensus         3 ~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~---------~~~~~i~D~~G~~   72 (217)
                      +|...+.+..++|+|+|++|||||||+++|.++.+...+.+|.+.++. ...+.+++.         .+.+.+||+||++
T Consensus         2 ~m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   81 (195)
T 3bc1_A            2 SMSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLE   81 (195)
T ss_dssp             ----CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSG
T ss_pred             CCcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcH
Confidence            566667788999999999999999999999999888777888887776 556666655         7899999999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeE
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSF  151 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  151 (217)
                      .+...+..+++.+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+...+.+..+++..++...++++
T Consensus        82 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  161 (195)
T 3bc1_A           82 RFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPY  161 (195)
T ss_dssp             GGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCE
T ss_pred             HHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCE
Confidence            9999999999999999999999999999999999998887664 589999999999998777777888999999999999


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHHHHHH
Q 042687          152 LETSALEALNVEKAFQTILLDIYHIISK  179 (217)
Q Consensus       152 ~~vSa~~~~gv~~~~~~l~~~~~~~~~~  179 (217)
                      +++||+++.|++++|++|.+.+.+...+
T Consensus       162 ~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          162 FETSAANGTNISHAIEMLLDLIMKRMER  189 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999999988765544

>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=2.2e-35  Score=219.22  Aligned_cols=173  Identities=50%  Similarity=0.803  Sum_probs=145.7

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ....+..+||+|+|.+|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+
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            34456789999999999999999999999998888888888888888888899889999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      |++|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+...++..++...+++++++||++|.|++++
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            99999999999999999999999988776668999999999999877777788889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          166 FQTILLDIYHIIS  178 (217)
Q Consensus       166 ~~~l~~~~~~~~~  178 (217)
                      |++|++.+.+...
T Consensus       179 ~~~l~~~i~~~~~  191 (200)
T 2o52_A          179 FLKCARTILNKID  191 (200)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998876543

>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=8.2e-35  Score=212.35  Aligned_cols=170  Identities=44%  Similarity=0.738  Sum_probs=152.9

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ......+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus         7 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   86 (181)
T 2efe_B            7 GNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAA   86 (181)
T ss_dssp             ---CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCS
T ss_pred             CCCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCC
Confidence            34567799999999999999999999999988888888888888888888988899999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|
T Consensus        87 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  166 (181)
T 2efe_B           87 AAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIF  166 (181)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHH
Confidence            99999999999999999999999988776689999999999998777777888999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      ++|.+.+.+.
T Consensus       167 ~~l~~~~~~~  176 (181)
T 2efe_B          167 YEIARRLPRV  176 (181)
T ss_dssp             HHHHHTCC--
T ss_pred             HHHHHHHHhc
Confidence            9999877543

>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=4.2e-35  Score=211.70  Aligned_cols=166  Identities=39%  Similarity=0.684  Sum_probs=145.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
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            46779999999999999999999999998888888888888878888888889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++
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            99999999999999999999887766558999999999999877777888899999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          169 ILLDIY  174 (217)
Q Consensus       169 l~~~~~  174 (217)
                      |.+.+.
T Consensus       163 l~~~~~  168 (170)
T 1z08_A          163 LCKRMI  168 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998774

>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=1.1e-35  Score=219.32  Aligned_cols=171  Identities=43%  Similarity=0.778  Sum_probs=156.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+
T Consensus        19 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (191)
T 3dz8_A           19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMG   98 (191)
T ss_dssp             EEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCE
T ss_pred             ccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCE
Confidence            45677999999999999999999999998888887888888888888888888899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++++++.+..|+..+......++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  178 (191)
T 3dz8_A           99 FILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFE  178 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887767899999999999988778888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          168 TILLDIYHIIS  178 (217)
Q Consensus       168 ~l~~~~~~~~~  178 (217)
                      +|++.+.+...
T Consensus       179 ~l~~~i~~~~~  189 (191)
T 3dz8_A          179 RLVDAICDKMS  189 (191)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHhcc
Confidence            99998876543

>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=8.3e-35  Score=211.74  Aligned_cols=168  Identities=35%  Similarity=0.677  Sum_probs=151.7

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ..+...++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|
T Consensus         9 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d   88 (179)
T 2y8e_A            9 GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDST   88 (179)
T ss_dssp             ---CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCS
T ss_pred             cCCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCC
Confidence            34446699999999999999999999999988888888888888888889999899999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++|+|||++++.++..+..|+..+......++|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|
T Consensus        89 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  168 (179)
T 2y8e_A           89 VAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLF  168 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999887766689999999999998777777888889999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          167 QTILLDIY  174 (217)
Q Consensus       167 ~~l~~~~~  174 (217)
                      ++|.+.+.
T Consensus       169 ~~l~~~~~  176 (179)
T 2y8e_A          169 RRVAAALP  176 (179)
T ss_dssp             HHHHHTCC
T ss_pred             HHHHHHHh
Confidence            99988653

>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=2e-34  Score=207.91  Aligned_cols=165  Identities=45%  Similarity=0.746  Sum_probs=151.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....++|+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++
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            35679999999999999999999999998887888888888888888898899999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|++
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            99999999999999999999988876668999999999999876777788889999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |.+.+
T Consensus       163 i~~~~  167 (170)
T 1r2q_A          163 IAKKL  167 (170)
T ss_dssp             HHHTS
T ss_pred             HHHHH
Confidence            98754

>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=7e-35  Score=215.15  Aligned_cols=170  Identities=40%  Similarity=0.788  Sum_probs=146.9

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ..+.+..+||+|+|.+|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+
T Consensus        20 p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   99 (192)
T 2il1_A           20 PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSA   99 (192)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHC
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCC
Confidence            34566789999999999999999999999988878888888888888888999889999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-GLSFLETSALEALNVEK  164 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~  164 (217)
                      |++|+|||++++.+++.+..|+..+......+.|+++|+||+|+...+.+..+++..++... +++++++||++|.|+++
T Consensus       100 d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  179 (192)
T 2il1_A          100 KGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDE  179 (192)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHH
Confidence            99999999999999999999999888877778999999999999877777788888888874 78999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|.+.+.+
T Consensus       180 l~~~l~~~i~~  190 (192)
T 2il1_A          180 IFLKLVDDILK  190 (192)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

>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=4.9e-34  Score=206.00  Aligned_cols=165  Identities=44%  Similarity=0.716  Sum_probs=152.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ..+.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++
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            45679999999999999999999999998888888888888888888899889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||++++.+++.+..|+..+........|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
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            99999999999999999999998876678999999999999877777788899999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |.+.+
T Consensus       163 i~~~i  167 (170)
T 1z0j_A          163 ISRRI  167 (170)
T ss_dssp             HHHHC
T ss_pred             HHHHH
Confidence            98865

>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=3.1e-34  Score=209.06  Aligned_cols=169  Identities=46%  Similarity=0.786  Sum_probs=144.8

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ..+..++|+|+|++|||||||+++|.+..+. ..+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d   85 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAH   85 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCS
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCC
Confidence            3567899999999999999999999998885 456678888887777788999999999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ++|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|
T Consensus        86 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  165 (180)
T 2g6b_A           86 ALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAF  165 (180)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999888776689999999999998777778888899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      ++|.+.+.+.
T Consensus       166 ~~l~~~~~~~  175 (180)
T 2g6b_A          166 TAIAKELKRR  175 (180)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHHH
Confidence            9999987543

>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=1.3e-34  Score=209.11  Aligned_cols=165  Identities=47%  Similarity=0.815  Sum_probs=144.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+
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            46899999999999999999999999887788888888888888888888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++.+++.+..|+..+......+.|+++|+||+|+. .+....++...++...+++++++||++|.|++++|++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  160 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  160 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC-cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            9999999999999999999988776689999999999994 355667788899999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       161 ~~~~~~  166 (170)
T 1g16_A          161 KLIQEK  166 (170)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            988654

>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=3.5e-34  Score=209.52  Aligned_cols=167  Identities=31%  Similarity=0.516  Sum_probs=150.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ...+.+||+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~   92 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDG   92 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSE
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            345679999999999999999999999988888888877666 6777889999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCC-CCCCHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL-EALNVEKA  165 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~-~~~gv~~~  165 (217)
                      +|+|||++++++++.+..|+..+.... ..++|+++|+||+|+.+.+.+..+++..++..++++++++||+ ++.|++++
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l  172 (183)
T 3kkq_A           93 FLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKT  172 (183)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHH
Confidence            999999999999999999998886643 4589999999999998878888899999999999999999999 99999999


Q ss_pred             HHHHHHHHHH
Q 042687          166 FQTILLDIYH  175 (217)
Q Consensus       166 ~~~l~~~~~~  175 (217)
                      |++|.+.+.+
T Consensus       173 ~~~l~~~i~~  182 (183)
T 3kkq_A          173 FHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999998754

>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=1.5e-34  Score=213.37  Aligned_cols=169  Identities=43%  Similarity=0.706  Sum_probs=152.3

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      .+..+..+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+
T Consensus        17 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   96 (192)
T 2fg5_A           17 RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGS   96 (192)
T ss_dssp             ----CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTC
T ss_pred             ccccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccC
Confidence            34556789999999999999999999999998777888888888888888888889999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      |++|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++
T Consensus        97 d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  176 (192)
T 2fg5_A           97 AAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEEL  176 (192)
T ss_dssp             SEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHH
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHH
Confidence            99999999999999999999999998877668999999999999876777788899999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          166 FQTILLDIY  174 (217)
Q Consensus       166 ~~~l~~~~~  174 (217)
                      |++|.+.+.
T Consensus       177 ~~~l~~~i~  185 (192)
T 2fg5_A          177 FQGISRQIP  185 (192)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHHHH
Confidence            999988764

>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=3.5e-34  Score=206.65  Aligned_cols=163  Identities=44%  Similarity=0.717  Sum_probs=149.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.++|+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+
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            35899999999999999999999999888888888888888888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc---cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL---RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |||++++.++..+..|+..+......+.|+++|+||+|+...   +.+..++...++...+++++++||++|.|++++|+
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            999999999999999999988877678999999999999664   56777888899999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          168 TILLDI  173 (217)
Q Consensus       168 ~l~~~~  173 (217)
                      +|.+.+
T Consensus       162 ~l~~~i  167 (170)
T 1ek0_A          162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHH
Confidence            998754

>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=2.6e-34  Score=207.04  Aligned_cols=165  Identities=36%  Similarity=0.626  Sum_probs=150.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..+||+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+++
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            46799999999999999999999999988888888888888888888998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||++++.+++.+..|+..+.... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
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            9999999999999999999887766 489999999999998767777888899999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          170 LLDIYH  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      .+.+.+
T Consensus       162 ~~~~~~  167 (168)
T 1z2a_A          162 AEKHLQ  167 (168)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            987753

>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=3.9e-34  Score=208.50  Aligned_cols=169  Identities=29%  Similarity=0.512  Sum_probs=150.0

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      .+....++|+|+|.+|||||||+++|.+..+...+.+|.+..+. ..+.+++..+.+.+||+||++.+..++..++..+|
T Consensus         4 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d   82 (181)
T 2fn4_A            4 PPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGH   82 (181)
T ss_dssp             CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCC
Confidence            34566799999999999999999999999888777788776654 66778888899999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHh-hcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++++|||+++++++..+..|+..+.. ....++|+++|+||+|+...+.+..++...++...+++++++||++|.|++++
T Consensus        83 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  162 (181)
T 2fn4_A           83 GFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEA  162 (181)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Confidence            99999999999999999999988744 34458999999999999877778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          166 FQTILLDIYHI  176 (217)
Q Consensus       166 ~~~l~~~~~~~  176 (217)
                      |++|.+.+.+.
T Consensus       163 ~~~l~~~~~~~  173 (181)
T 2fn4_A          163 FEQLVRAVRKY  173 (181)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999988654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=9.1e-35  Score=216.61  Aligned_cols=178  Identities=28%  Similarity=0.452  Sum_probs=119.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC--ccccCCCCCcceeeEEEEEEECCe--EEEEEEEecCChhhhccchhhhhcCC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN--EFCLESKSTIGVEFATRTLQVEGK--TVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      ...++|+|+|++|||||||+++|.+.  .+...+.+|.+.++....+.+++.  .+.+.+||+||++.+...+..++..+
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            46699999999999999999999998  777777788777777777888876  88999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcC---CCCeEEEEEeCCCCcc-ccccCHHHHHHHHHHcCCeEEEecCCC-CC
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSDLNH-LRAVAAEDAQILAEKEGLSFLETSALE-AL  160 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~vSa~~-~~  160 (217)
                      |++|+|||++++.+++.+..|+..+.....   .++|+++|+||+|+.. .+.+..+++..++..++++++++||++ +.
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            999999999999999999999999988765   6899999999999987 677778899999999999999999999 99


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042687          161 NVEKAFQTILLDIYHIISKKALAAQEA  187 (217)
Q Consensus       161 gv~~~~~~l~~~~~~~~~~~~~~~~~~  187 (217)
                      |++++|++|.+.+.+...+........
T Consensus       178 gi~~l~~~i~~~~~~~~~~~~~~~~~~  204 (208)
T 2yc2_C          178 DADAPFLSIATTFYRNYEDKVAAFQDA  204 (208)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999988777666555443

>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=1.4e-33  Score=207.02  Aligned_cols=168  Identities=32%  Similarity=0.537  Sum_probs=144.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|++|||||||+++|.+..+...+.++.+ +.....+.+++..+.+.+||+||++.+..++..++..+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            3569999999999999999999999988777777754 444566778899999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      +|||++++.+++.+..|+..+.... ..+.|+++|+||+|+.. +....++...++...+++++++||++|.|++++|++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  159 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYT  159 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999887754 35899999999999974 556678889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          169 ILLDIYHIISK  179 (217)
Q Consensus       169 l~~~~~~~~~~  179 (217)
                      |.+.+.+...+
T Consensus       160 l~~~~~~~~~~  170 (189)
T 4dsu_A          160 LVREIRKHKEK  170 (189)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhhhh
Confidence            99988765433

>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=3.5e-34  Score=215.18  Aligned_cols=174  Identities=42%  Similarity=0.715  Sum_probs=151.1

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe----------EEEEEEEecCChhhh
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK----------TVKAQIWDTAGQERY   74 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~----------~~~~~i~D~~G~~~~   74 (217)
                      .....+..+||+|+|.+|||||||+++|.+..+...+.+|.+.++....+.+++.          .+.+.+||+||++.+
T Consensus        18 ~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~   97 (217)
T 2f7s_A           18 GSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERF   97 (217)
T ss_dssp             ---CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHH
T ss_pred             cCCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhH
Confidence            3445678899999999999999999999999887777777777777777777665          788999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEE
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      ...+..++..+|++|+|||++++.+++.+..|+..+..... .++|+++|+||+|+...+.+..+++..++...++++++
T Consensus        98 ~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  177 (217)
T 2f7s_A           98 RSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFE  177 (217)
T ss_dssp             HHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEE
T ss_pred             HhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEE
Confidence            99999999999999999999999999999999887766543 58999999999999877777788899999999999999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      +||+++.|++++|++|.+.+.+...
T Consensus       178 ~Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          178 TSAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             EBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999998876543

>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=4.7e-34  Score=208.48  Aligned_cols=166  Identities=32%  Similarity=0.473  Sum_probs=149.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   82 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   82 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEE
Confidence            4679999999999999999999999888888888877666 677788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      +|||++++++++.+..|+..+.... ..++|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  162 (181)
T 3t5g_A           83 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRR  162 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHH
Confidence            9999999999999999998886654 347999999999999887888889999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          169 ILLDIYHI  176 (217)
Q Consensus       169 l~~~~~~~  176 (217)
                      |++.+.+.
T Consensus       163 l~~~~~~~  170 (181)
T 3t5g_A          163 IILEAEKM  170 (181)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            99987553

>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=2.3e-34  Score=209.39  Aligned_cols=167  Identities=32%  Similarity=0.534  Sum_probs=147.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC-eEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ....++|+|+|++|||||||+++|.++.+...+.+|.+.++....+.+++ ..+.+.+||+||++.+...+..++.++|+
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            34669999999999999999999999988777778887788888888876 67899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      +|+|||++++++++.+..|+..+....   ....|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|+++
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            999999999999999999998887643   22344899999999987677778889999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|.+.+.+
T Consensus       163 l~~~l~~~~~~  173 (178)
T 2hxs_A          163 CFQKVAAEILG  173 (178)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

>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=3.2e-34  Score=212.23  Aligned_cols=168  Identities=26%  Similarity=0.357  Sum_probs=143.2

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-chhhhhcCCc
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-ITSAYYRGAV   86 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d   86 (217)
                      +.+..+||+|+|.+|||||||+++|.+......+.++.+.+.....+.+++..+.+.+||++|++.+.. ++..++..+|
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            445779999999999999999999986554434445555666677788899999999999999987664 6778889999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++|+|||++++++++.+..|+..+..... .++|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++
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            99999999999999999999998877653 47999999999999877777888899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          166 FQTILLDIYH  175 (217)
Q Consensus       166 ~~~l~~~~~~  175 (217)
                      |++|++.+.+
T Consensus       179 f~~l~~~i~~  188 (195)
T 3cbq_A          179 FEGAVRQIRL  188 (195)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9999998754

>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=1.9e-34  Score=213.94  Aligned_cols=168  Identities=39%  Similarity=0.642  Sum_probs=138.5

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      ...+..+||+|+|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|
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            34456799999999999999999999999887777788888888888889999999999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc------cccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN------HLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ++|+|||++++.+++.+..|+..+......++|+++|+||+|+.      ..+.+..+++..++...+++++++||++|.
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            99999999999999999999999888766689999999999996      345667788889999999999999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIY  174 (217)
Q Consensus       161 gv~~~~~~l~~~~~  174 (217)
                      |++++|.+|++.+.
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            99999999998774

>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=9.1e-34  Score=208.54  Aligned_cols=166  Identities=36%  Similarity=0.661  Sum_probs=147.6

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-cchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-AITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~   87 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+. .++..+++.+|+
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~   96 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA   96 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCE
Confidence            3456999999999999999999999999888888888888888888899988999999999999888 888999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC---CCHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA---LNVE  163 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~---~gv~  163 (217)
                      +|+|||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||+++   .|++
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~  176 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVE  176 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHH
Confidence            999999999999999999999987765 458999999999999877777888899999999999999999999   9999


Q ss_pred             HHHHHHHHHHH
Q 042687          164 KAFQTILLDIY  174 (217)
Q Consensus       164 ~~~~~l~~~~~  174 (217)
                      ++|.+|++.+.
T Consensus       177 ~l~~~l~~~i~  187 (189)
T 1z06_A          177 AIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHC----
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>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=1.5e-33  Score=204.51  Aligned_cols=167  Identities=28%  Similarity=0.410  Sum_probs=135.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh--hccchhhhhcCCcE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--YRAITSAYYRGAVG   87 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~   87 (217)
                      .+.+||+|+|++|||||||+++|.+..+...+. +.+.+.....+.+++..+.+.+||+||++.  +..+...++..+|+
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~   80 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSA   80 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCccccC-ccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCE
Confidence            356999999999999999999999988765443 456666677788899989999999999887  56667788899999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +++|||++++.+++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            999999999999999999998887653 3479999999999998777777888888999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          167 QTILLDIYHII  177 (217)
Q Consensus       167 ~~l~~~~~~~~  177 (217)
                      ++|.+.+.+..
T Consensus       161 ~~l~~~~~~~~  171 (175)
T 2nzj_A          161 EGVVRQLRLRR  171 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999886543

>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=2.2e-33  Score=204.01  Aligned_cols=166  Identities=39%  Similarity=0.699  Sum_probs=145.8

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   83 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   83 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEE
Confidence            45679999999999999999999999998888888888888888888999989999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC----CCCeEEEEEeCCCCccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKSDLNHLRAVAAEDAQILAE-KEGLSFLETSALEALNVE  163 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~gv~  163 (217)
                      ++|||++++.+++.+..|+..+.....    .++|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (177)
T 1wms_A           84 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  162 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            999999999999999999998876653    588999999999997 35667778888887 567899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|++.+.+
T Consensus       163 ~l~~~l~~~~~~  174 (177)
T 1wms_A          163 AAFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998754

>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-33  Score=210.17  Aligned_cols=169  Identities=46%  Similarity=0.825  Sum_probs=150.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +.+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+
T Consensus        16 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (213)
T 3cph_A           16 SYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMG   95 (213)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCE
Confidence            34567999999999999999999999999888888888888888888899988999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+. .+.+..++...++..++++++++||+++.|++++|+
T Consensus        96 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  174 (213)
T 3cph_A           96 IILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFF  174 (213)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS-SCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-ccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            9999999999999999999999888776689999999999994 356667788889999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          168 TILLDIYHII  177 (217)
Q Consensus       168 ~l~~~~~~~~  177 (217)
                      +|.+.+.+..
T Consensus       175 ~l~~~~~~~~  184 (213)
T 3cph_A          175 TLAKLIQEKI  184 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999886553

>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=9.9e-34  Score=204.39  Aligned_cols=164  Identities=26%  Similarity=0.363  Sum_probs=133.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-chhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-ITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~   90 (217)
                      .+||+|+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+.. ++..++..+|++++
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            58999999999999999999998877766666666777778888999999999999999988776 67778899999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+..... .++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
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 479999999999998778888899999999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          170 LLDIYH  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      ++.+..
T Consensus       162 ~~~i~~  167 (169)
T 3q85_A          162 VRQIRL  167 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998754

>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=2.3e-33  Score=205.72  Aligned_cols=163  Identities=19%  Similarity=0.353  Sum_probs=142.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .....+||+|+|.+|||||||+++|+++.+...+.+| ... ....+.+++..+.+.+|||+|++.+.     ++..+|+
T Consensus        16 ~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~-~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~   88 (184)
T 3ihw_A           16 FQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGR-FKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDA   88 (184)
T ss_dssp             CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEE-EEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSE
T ss_pred             CCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cce-EEEEEEECCEEEEEEEEECCCChhhh-----eecCCCE
Confidence            4456799999999999999999999999988777776 333 34778889999999999999998776     7788999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCc--cccccCHHHHHHHHHHcC-CeEEEecCCCCCCHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLN--HLRAVAAEDAQILAEKEG-LSFLETSALEALNVE  163 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~  163 (217)
                      +++|||++++.+++.+..|+..+..... .++|+++|+||+|+.  ..+.+..+++..++...+ ++++++||++|.|++
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~  168 (184)
T 3ihw_A           89 VVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVE  168 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHH
Confidence            9999999999999999999999887653 479999999999994  456778889999999987 899999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYHII  177 (217)
Q Consensus       164 ~~~~~l~~~~~~~~  177 (217)
                      ++|++|++.+.+..
T Consensus       169 ~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          169 RVFQDVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887654

>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=9.3e-34  Score=208.32  Aligned_cols=164  Identities=27%  Similarity=0.416  Sum_probs=142.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+|||+|++.+..+ ..++..+|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            34669999999999999999999999998888888877655 455678888999999999999988774 6789999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecC-CCCCCHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSA-LEALNVEK  164 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa-~~~~gv~~  164 (217)
                      |+|||++++++++.+..|+..+....   ..++|+++|+||+|+...+.+..+++..++...+++++++|| ++|.|+++
T Consensus        96 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~  175 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQH  175 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHH
Confidence            99999999999999999999887764   248999999999999877778888999999999999999999 89999999


Q ss_pred             HHHHHHHHHH
Q 042687          165 AFQTILLDIY  174 (217)
Q Consensus       165 ~~~~l~~~~~  174 (217)
                      +|++|++.+.
T Consensus       176 lf~~l~~~i~  185 (187)
T 3c5c_A          176 VFHEAVREAR  185 (187)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998774

>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=2.2e-33  Score=207.24  Aligned_cols=170  Identities=26%  Similarity=0.457  Sum_probs=148.0

Q ss_pred             CCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhh
Q 042687            3 YKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYY   82 (217)
Q Consensus         3 ~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   82 (217)
                      .|...+....++|+|+|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+...+..++
T Consensus         9 ~m~~~~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   87 (194)
T 2atx_A            9 SMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSY   87 (194)
T ss_dssp             CCSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGC
T ss_pred             ccCCCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhc
Confidence            34445556789999999999999999999999988777777776554 45567788888999999999999999999999


Q ss_pred             cCCcEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC
Q 042687           83 RGAVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL  149 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~  149 (217)
                      .++|++|+|||+++++++..+. .|+..+..... ++|+++|+||+|+...            +.+..+++..++...++
T Consensus        88 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  166 (194)
T 2atx_A           88 PMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGA  166 (194)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTC
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCC
Confidence            9999999999999999999986 79988887655 8999999999999653            35677888999999997


Q ss_pred             -eEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          150 -SFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       150 -~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                       +++++||++|.|++++|++|++.++
T Consensus       167 ~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          167 CCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence             9999999999999999999998775

>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=8.2e-34  Score=212.93  Aligned_cols=167  Identities=25%  Similarity=0.420  Sum_probs=145.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||++|++.+..++..++.++|++
T Consensus        24 ~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  102 (214)
T 3q3j_B           24 VVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV  102 (214)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             ccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEE
Confidence            34679999999999999999999999999888888877665 45566788888999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHH-HHHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEe
Q 042687           89 LLVYDITKRQTFDN-VTRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLET  154 (217)
Q Consensus        89 i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~v  154 (217)
                      |+|||++++++++. +..|+..+..... ++|+++|+||+|+...            +.+..+++..++..+++ +++++
T Consensus       103 i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  181 (214)
T 3q3j_B          103 LLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEG  181 (214)
T ss_dssp             EEEEETTCTHHHHHHHTHHHHHHHHHCT-TSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEe
Confidence            99999999999999 6899999888764 8999999999999753            56788899999999999 99999


Q ss_pred             cCCCCCC-HHHHHHHHHHHHHHHH
Q 042687          155 SALEALN-VEKAFQTILLDIYHII  177 (217)
Q Consensus       155 Sa~~~~g-v~~~~~~l~~~~~~~~  177 (217)
                      ||++|.| ++++|++|++.+.+..
T Consensus       182 SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          182 SAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             CTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             ccCCCcccHHHHHHHHHHHHhccC
Confidence            9999998 9999999999886543

>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=4.6e-33  Score=205.35  Aligned_cols=167  Identities=44%  Similarity=0.739  Sum_probs=150.9

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .....++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   90 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   90 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCE
Confidence            34567999999999999999999999999888888888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +|+|||++++.++..+..|+..+.... ..++|+++|+||+|+.. +.+..+++..++...+++++++||+++.|++++|
T Consensus        91 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (195)
T 1x3s_A           91 VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAF  169 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHH
Confidence            999999999999999999999887765 24799999999999954 5566778889999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      ++|.+.+.+
T Consensus       170 ~~l~~~~~~  178 (195)
T 1x3s_A          170 EELVEKIIQ  178 (195)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998854

>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=1e-33  Score=209.65  Aligned_cols=163  Identities=26%  Similarity=0.411  Sum_probs=141.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|.+|||||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++.+...+..++..+|++|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            3459999999999999999999999988777777766444 345567888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|||++++.+++.+..|+..+.....  .++|+++|+||+|+.. +.+..++...++..++++++++||++|.|++++|+
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            99999999999998888877766542  3789999999999975 55667788889999999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          168 TILLDIY  174 (217)
Q Consensus       168 ~l~~~~~  174 (217)
                      +|++.+.
T Consensus       164 ~l~~~~~  170 (199)
T 2gf0_A          164 ELLTLET  170 (199)
T ss_dssp             HHHHHCS
T ss_pred             HHHHHHh
Confidence            9988663

>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=2.6e-33  Score=207.92  Aligned_cols=170  Identities=29%  Similarity=0.490  Sum_probs=139.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .....++|+|+|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+..++..++.++|+
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDI   94 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcE
Confidence            345679999999999999999999999888777777766444 4567788888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEE
Q 042687           88 ALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLE  153 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~  153 (217)
                      +|+|||+++++++..+. .|+..+..... ++|+++|+||+|+..            .+.+..+++..++...++ ++++
T Consensus        95 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  173 (201)
T 2q3h_A           95 FLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIE  173 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEE
Confidence            99999999999999986 79988887665 899999999999965            245667788899988887 9999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYHIISK  179 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~~~~~  179 (217)
                      +||++|.|++++|++|++.+.+...+
T Consensus       174 ~Sa~~g~gi~~l~~~l~~~~~~~~~~  199 (201)
T 2q3h_A          174 CSALTQKNLKEVFDAAIVAGIQYSDT  199 (201)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHHC-
T ss_pred             EecCCCCCHHHHHHHHHHHHhccccc
Confidence            99999999999999999988766543

>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=5.9e-34  Score=213.20  Aligned_cols=168  Identities=30%  Similarity=0.534  Sum_probs=143.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+..++..++.++|++|
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            3569999999999999999999999998777777876554 455667888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccc--------cCHHHHHHHHHHcCC-eEEEecCCCC
Q 042687           90 LVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRA--------VAAEDAQILAEKEGL-SFLETSALEA  159 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~-~~~~vSa~~~  159 (217)
                      +|||++++++++.+. .|+..+....+ ++|++||+||+|+...+.        +..+++..++..+++ +++++||++|
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g  164 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQ  164 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCC
Confidence            999999999999986 89998887765 899999999999966443        367788889999986 9999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDIYHIISK  179 (217)
Q Consensus       160 ~gv~~~~~~l~~~~~~~~~~  179 (217)
                      .|++++|++|++.+.+...+
T Consensus       165 ~gi~~l~~~l~~~~~~~~~~  184 (212)
T 2j0v_A          165 QNVKAVFDTAIKVVLQPPRR  184 (212)
T ss_dssp             TTHHHHHHHHHHHHHCC---
T ss_pred             CCHHHHHHHHHHHHhhhhhh
Confidence            99999999999988765443

>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=1.4e-33  Score=205.71  Aligned_cols=168  Identities=36%  Similarity=0.665  Sum_probs=134.1

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.++ +..+.+.+||+||++.+...+..+++.+|+
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            4567999999999999999999999999888888888878877777776 566789999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcC----CCCeEEEEEeCCCCcc-ccccCHHHHHHHHH-HcCCeEEEecCCCCCC
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHAD----SNIVIMMAGNKSDLNH-LRAVAAEDAQILAE-KEGLSFLETSALEALN  161 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~g  161 (217)
                      +|+|||++++.+++.+..|+..+.....    .++|+++|+||+|+.. .+.+..+++..++. ..+++++++||++|.|
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            9999999999999999999988876653    5899999999999954 34566778888887 5678999999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHI  176 (217)
Q Consensus       162 v~~~~~~l~~~~~~~  176 (217)
                      ++++|++|.+.+.+.
T Consensus       165 i~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          165 VDTAFEEIARSALQQ  179 (182)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999988654

>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=7.8e-33  Score=205.42  Aligned_cols=164  Identities=37%  Similarity=0.637  Sum_probs=145.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeE-----------------------------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT-----------------------------   60 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~-----------------------------   60 (217)
                      ++.++|+|+|++|||||||+++|++..+...+.++.+.++....+.+++..                             
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHN   84 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccc
Confidence            456999999999999999999999999888888888888877777777655                             


Q ss_pred             --------EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           61 --------VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        61 --------~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                              +.+.+||+||++.+...+..++..+|++|+|||++++.++..+..|+..+....  +.|+++|+||+| ...
T Consensus        85 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~~  161 (208)
T 3clv_A           85 NYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KNK  161 (208)
T ss_dssp             CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC-
T ss_pred             cccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-ccc
Confidence                    789999999999999999999999999999999999999999999999887765  499999999999 444


Q ss_pred             cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      +.+..+++..++...+++++++||++|.|++++|++|.+.+.+.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  205 (208)
T 3clv_A          162 FQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN  205 (208)
T ss_dssp             CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            66778889999999999999999999999999999999988654

>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=6.3e-33  Score=204.85  Aligned_cols=165  Identities=27%  Similarity=0.490  Sum_probs=146.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|.+..+. ..+.+++..+.+.+||+||++.+...+..+++++|++
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   98 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVV   98 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEE
Confidence            456799999999999999999999999988777788766654 4567888999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc--cccCHHHHHHHHHHcCCe-EEEecCCCCCCHHH
Q 042687           89 LLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL--RAVAAEDAQILAEKEGLS-FLETSALEALNVEK  164 (217)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~-~~~vSa~~~~gv~~  164 (217)
                      |+|||++++++++.+ ..|+..+..... ++|+++|+||+|+...  +.+..+++..++...+++ ++++||++|.|+++
T Consensus        99 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  177 (194)
T 3reg_A           99 LLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNE  177 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCT-TSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHH
Confidence            999999999999997 788888876654 7999999999999653  567788899999999988 99999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|++.+.+
T Consensus       178 l~~~l~~~i~~  188 (194)
T 3reg_A          178 VFEKSVDCIFS  188 (194)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=9e-34  Score=210.61  Aligned_cols=167  Identities=26%  Similarity=0.455  Sum_probs=143.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..++..+|++
T Consensus        21 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   99 (201)
T 3oes_A           21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGY   99 (201)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEE
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEE
Confidence            34679999999999999999999999999888878876665 55566677778899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |+|||++++++++.+..|+..+.... ..++|+++|+||+|+...+.+...++..++...+++++++||++|.|++++|+
T Consensus       100 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  179 (201)
T 3oes_A          100 VLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFT  179 (201)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999887654 34789999999999988788888899999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          168 TILLDIYHI  176 (217)
Q Consensus       168 ~l~~~~~~~  176 (217)
                      +|.+.+.+.
T Consensus       180 ~l~~~i~~~  188 (201)
T 3oes_A          180 KVIQEIARV  188 (201)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999988654

>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=8.3e-33  Score=201.33  Aligned_cols=163  Identities=21%  Similarity=0.388  Sum_probs=137.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|++|||||||+++|.++.+.. +.+|.+..+ ...+.+++..+.+.+|||||++.     ..+++++|++|+
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~il   78 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIF   78 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEE
Confidence            56999999999999999999999998876 667766443 56677889899999999999875     457888999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCc--cccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLN--HLRAVAAEDAQILAEKE-GLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++++++.+..|+..+....   ..++|+++|+||+|+.  ..+.+..+++..++... +++++++||++|.|+++
T Consensus        79 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  158 (178)
T 2iwr_A           79 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDR  158 (178)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHH
Confidence            999999999999998766655443   3589999999999994  44667788888888876 68999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHIISKK  180 (217)
Q Consensus       165 ~~~~l~~~~~~~~~~~  180 (217)
                      +|++|++.+.+.....
T Consensus       159 lf~~l~~~~~~~~~~~  174 (178)
T 2iwr_A          159 VFQEVAQKVVTLRKQQ  174 (178)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999987765443

>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=4.4e-33  Score=208.20  Aligned_cols=167  Identities=28%  Similarity=0.390  Sum_probs=138.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCcc--ccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-hccchhhhhcC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEF--CLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-YRAITSAYYRG   84 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~   84 (217)
                      +....+||+|+|.+|||||||+++|.+...  ...+ ++++.++....+.+++..+.+.+|||+|.+. +..+...+++.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            345679999999999999999999996543  2332 3456666677788899999999999999876 55566778899


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|++|+|||++++++|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~  191 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVK  191 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            999999999999999999999988876642 3479999999999998767777788888888999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|++.+..
T Consensus       192 elf~~l~~~i~~  203 (211)
T 2g3y_A          192 ELFEGIVRQVRL  203 (211)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999997743

>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=4.5e-33  Score=200.33  Aligned_cols=163  Identities=33%  Similarity=0.561  Sum_probs=142.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++++
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            358999999999999999999999988777777766544 4556788888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||+++++++..+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|
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            9999999999999999998877654 479999999999998777778888999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      .+.+.
T Consensus       162 ~~~i~  166 (168)
T 1u8z_A          162 MREIR  166 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98774

>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=4.1e-33  Score=206.25  Aligned_cols=166  Identities=30%  Similarity=0.468  Sum_probs=145.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++. ...+..++..+|++
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            34669999999999999999999999998877778776554 45567888889999999999887 77788899999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC-CHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL-NVEKAF  166 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~-gv~~~~  166 (217)
                      |+|||++++++++.+..|+..+.... ..++|+++|+||+|+...+.+..+++..++...+++++++||++|. |++++|
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 3589999999999998777788888999999999999999999999 999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      ++|++.+.+.
T Consensus       183 ~~l~~~i~~~  192 (196)
T 2atv_A          183 YELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999988654

>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=8.9e-33  Score=202.32  Aligned_cols=166  Identities=33%  Similarity=0.538  Sum_probs=147.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        16 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   94 (187)
T 2a9k_A           16 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   94 (187)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEE
Confidence            3569999999999999999999999988777777766544 455678888889999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      +|||+++++++..+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++..++++++++||+++.|++++|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  174 (187)
T 2a9k_A           95 CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFD  174 (187)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHH
Confidence            99999999999999999988877654 47999999999999877777888899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          169 ILLDIYHI  176 (217)
Q Consensus       169 l~~~~~~~  176 (217)
                      |.+.+.+.
T Consensus       175 l~~~i~~~  182 (187)
T 2a9k_A          175 LMREIRAR  182 (187)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988654

>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=4.6e-33  Score=200.06  Aligned_cols=162  Identities=28%  Similarity=0.484  Sum_probs=144.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .++|+|+|++|||||||+++|.++.+...+.++.+.. ....+.+++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEE
Confidence            4899999999999999999999998877777776543 366677888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++.+++.+..|+..+.... ..+.|+++|+||+|+...+.+...+...++...+++++++||++|.|++++|++|.
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  161 (167)
T 1kao_A           82 YSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV  161 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHH
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHH
Confidence            99999999999999988877654 35899999999999987777788888999999999999999999999999999999


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      +.+.
T Consensus       162 ~~~~  165 (167)
T 1kao_A          162 RQMN  165 (167)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8774

>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=3.7e-33  Score=200.78  Aligned_cols=161  Identities=30%  Similarity=0.521  Sum_probs=142.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++++|
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   81 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEE
Confidence            48999999999999999999999988777777776554 35566788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      ||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++... +++++++||++|.|++++|++|
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (167)
T 1c1y_A           82 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDL  161 (167)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHH
Confidence            99999999999999988877653 358999999999999877777788888998887 7899999999999999999999


Q ss_pred             HHHH
Q 042687          170 LLDI  173 (217)
Q Consensus       170 ~~~~  173 (217)
                      .+.+
T Consensus       162 ~~~i  165 (167)
T 1c1y_A          162 VRQI  165 (167)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=5.7e-33  Score=199.83  Aligned_cols=163  Identities=26%  Similarity=0.400  Sum_probs=122.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|.+...... .++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++++|
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            58999999999999999999987665433 33444444 45667889999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++++++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
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            99999999999999998887653 35899999999999988788888899999999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       160 ~~~~~~  165 (166)
T 3q72_A          160 RQIRLR  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            987653

>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=100.00  E-value=4.8e-33  Score=207.44  Aligned_cols=168  Identities=26%  Similarity=0.497  Sum_probs=143.2

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGA   85 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   85 (217)
                      +...+..+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+|||||++.+..++..++..+
T Consensus        22 ~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  100 (205)
T 1gwn_A           22 DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDS  100 (205)
T ss_dssp             -----CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             CcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCC
Confidence            33456779999999999999999999999998877778876555 44566788888999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeE
Q 042687           86 VGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSF  151 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~  151 (217)
                      |++|+|||++++++++.+ ..|+..+..... +.|+++|+||+|+...            +.+..+++..++..++ +++
T Consensus       101 d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  179 (205)
T 1gwn_A          101 DAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY  179 (205)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEE
Confidence            999999999999999998 789888877654 7999999999999642            4567788899998887 699


Q ss_pred             EEecCC-CCCCHHHHHHHHHHHHHH
Q 042687          152 LETSAL-EALNVEKAFQTILLDIYH  175 (217)
Q Consensus       152 ~~vSa~-~~~gv~~~~~~l~~~~~~  175 (217)
                      +++||+ ++.|++++|++|++.+++
T Consensus       180 ~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          180 IECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             EECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEeeeccCCcCHHHHHHHHHHHHhh
Confidence            999999 689999999999998764

>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=100.00  E-value=5.3e-33  Score=208.49  Aligned_cols=166  Identities=33%  Similarity=0.511  Sum_probs=124.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+|||||++.+...+..++..+|++|
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            3569999999999999999999999888777777765444 456678888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++.+++.+. .|+..+..... ++|+++|+||+|+....            .+..+++..++...++ +++++|
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  189 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECS  189 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCS-SCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECB
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEec
Confidence            999999999999986 79888877654 79999999999996542            5667788899999997 999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      |++|.|++++|++|++.+.+..
T Consensus       190 A~~g~gi~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          190 ARLHDNVHAVFQEAAEVALSSR  211 (214)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHC-
T ss_pred             CCCCCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999887543

>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=100.00  E-value=8.1e-33  Score=202.67  Aligned_cols=165  Identities=26%  Similarity=0.497  Sum_probs=142.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .+..+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            35679999999999999999999999988877777776555 44567788889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeEEEe
Q 042687           89 LLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSFLET  154 (217)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~v  154 (217)
                      |+|||++++++++.+ ..|+..+..... +.|+++|+||+|+...            +.+..+++..++..++ ++++++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  161 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  161 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEe
Confidence            999999999999998 789888877654 8999999999999642            4567788899998887 699999


Q ss_pred             cCC-CCCCHHHHHHHHHHHHHH
Q 042687          155 SAL-EALNVEKAFQTILLDIYH  175 (217)
Q Consensus       155 Sa~-~~~gv~~~~~~l~~~~~~  175 (217)
                      ||+ ++.|++++|++|++.+++
T Consensus       162 Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          162 SALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             BTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eecCCCcCHHHHHHHHHHHHhc
Confidence            999 689999999999987753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=1.3e-35  Score=220.27  Aligned_cols=168  Identities=51%  Similarity=0.864  Sum_probs=142.8

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ..+..+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        29 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~  108 (199)
T 3l0i_B           29 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG  108 (199)
T ss_dssp             CCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCE
Confidence            45678999999999999999999999988887777888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......++|+++|+||+|+...+.+...++..++..++++++++||++|.|++++|+
T Consensus       109 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~  188 (199)
T 3l0i_B          109 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFM  188 (199)
T ss_dssp             EEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887777899999999999987666666678888999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          168 TILLDIYH  175 (217)
Q Consensus       168 ~l~~~~~~  175 (217)
                      +|.+.+.+
T Consensus       189 ~l~~~l~~  196 (199)
T 3l0i_B          189 TMAAEIKK  196 (199)
T ss_dssp             HHTTTTTT
T ss_pred             HHHHHHHH
Confidence            99886643

>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=100.00  E-value=8.9e-34  Score=209.48  Aligned_cols=174  Identities=22%  Similarity=0.261  Sum_probs=139.7

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCC-----------CCCcceeeEEEEE-EECCeEEEEEEEec
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-----------KSTIGVEFATRTL-QVEGKTVKAQIWDT   68 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-----------~~t~~~~~~~~~~-~~~~~~~~~~i~D~   68 (217)
                      |+.+.....+..+||+|+|++|||||||++.+.+ .+...+           .+|.+.++....+ .+++..+.+.+|||
T Consensus         3 m~~~~~~~~~~~~ki~vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt   81 (198)
T 3t1o_A            3 MSTINFANREINFKIVYYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTV   81 (198)
T ss_dssp             -CEEETTTTEEEEEEEEECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEEC
T ss_pred             ccccchhccccccEEEEECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeC
Confidence            4555666778899999999999999999976655 443332           2343334333333 45677889999999


Q ss_pred             CChhhhccchhhhhcCCcEEEEEEeCC------ChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH
Q 042687           69 AGQERYRAITSAYYRGAVGALLVYDIT------KRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI  142 (217)
Q Consensus        69 ~G~~~~~~~~~~~~~~~d~ii~v~d~~------~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~  142 (217)
                      ||++.+...+..+++++|++|+|||++      +.+++..+..|+..+.. ...++|+++|+||+|+.+.  +..+++..
T Consensus        82 ~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~Dl~~~--~~~~~~~~  158 (198)
T 3t1o_A           82 PGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRDLPDA--LPVEMVRA  158 (198)
T ss_dssp             CSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTTSTTC--CCHHHHHH
T ss_pred             CChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchhcccc--cCHHHHHH
Confidence            999999999999999999999999999      55677778888877733 3348999999999999753  66788999


Q ss_pred             HHHHcCC-eEEEecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          143 LAEKEGL-SFLETSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       143 ~~~~~~~-~~~~vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      ++...++ +++++||++|.|++++|++|.+.+.+...
T Consensus       159 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          159 VVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             HHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             HHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            9999999 99999999999999999999998877644

>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=100.00  E-value=3.1e-33  Score=210.66  Aligned_cols=172  Identities=32%  Similarity=0.565  Sum_probs=151.0

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhh
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSA   80 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   80 (217)
                      |..+........+||+|+|.+|||||||+++|+.+.+...+.++.+.+.....+.+++..+.+.+|||||++.+..++..
T Consensus         4 ~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   83 (221)
T 3gj0_A            4 MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDG   83 (221)
T ss_dssp             --CCSTTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHH
T ss_pred             cccccCCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHH
Confidence            44556667778899999999999999999998888877777788888888888889999999999999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ++.++|++|+|||++++.++..+..|+..+..... ++|+++|+||+|+.+... . .+...++...+++++++||++|.
T Consensus        84 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~Sa~~~~  160 (221)
T 3gj0_A           84 YYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKV-K-AKSIVFHRKKNLQYYDISAKSNY  160 (221)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHST-TCCEEEEEECTTSSSCSS-C-GGGCCHHHHHTCEEEECBGGGTB
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCccccccc-c-HHHHHHHHHcCCEEEEEeCCCCC
Confidence            99999999999999999999999999999988765 899999999999976332 2 25566788889999999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYH  175 (217)
Q Consensus       161 gv~~~~~~l~~~~~~  175 (217)
                      |++++|.+|.+.+..
T Consensus       161 gi~~l~~~l~~~l~~  175 (221)
T 3gj0_A          161 NFEKPFLWLARKLIG  175 (221)
T ss_dssp             TTTHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998754

>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=100.00  E-value=4.5e-32  Score=201.45  Aligned_cols=164  Identities=27%  Similarity=0.482  Sum_probs=144.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|.+|||||||+++|.++.+...+.++.+.++. ..+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            46799999999999999999999999988777788776664 34678888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++++++.+ ..|+..+..... +.|+++|+||+|+...            +.+..+++..++...++ +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECS  180 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEee
Confidence            99999999999998 688888877654 8999999999999654            34667788889999888 899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~  175 (217)
                      |++|.|++++|++|.+.+++
T Consensus       181 A~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          181 AKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999987753

>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-31  Score=197.42  Aligned_cols=165  Identities=33%  Similarity=0.554  Sum_probs=134.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|.+|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++++
T Consensus        20 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (190)
T 3con_A           20 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   98 (190)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSEEEE
T ss_pred             ceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEE
Confidence            568999999999999999999999888777666655443 4566788888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++.++..+..|+..+..... .++|+++|+||+|+.. +....+++..++...+++++++||+++.|++++|++|
T Consensus        99 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  177 (190)
T 3con_A           99 VFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTL  177 (190)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999988877653 4799999999999976 5566788899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          170 LLDIYHII  177 (217)
Q Consensus       170 ~~~~~~~~  177 (217)
                      .+.+.+..
T Consensus       178 ~~~~~~~~  185 (190)
T 3con_A          178 VREIRQYR  185 (190)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99886643

>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=100.00  E-value=7e-32  Score=197.48  Aligned_cols=163  Identities=29%  Similarity=0.514  Sum_probs=142.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|++|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            469999999999999999999999988777777765444 4566788999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecC
Q 042687           91 VYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSA  156 (217)
Q Consensus        91 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa  156 (217)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+...            +.+..++...++...++ +++++||
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  161 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecC
Confidence            99999999999986 78888887665 8999999999998653            35667788889998887 9999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 042687          157 LEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       157 ~~~~gv~~~~~~l~~~~~~  175 (217)
                      ++|.|++++|++|.+.+.+
T Consensus       162 ~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          162 LTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             TTCTTHHHHHHHHHHHHSC
T ss_pred             CCccCHHHHHHHHHHHHhc
Confidence            9999999999999987743

>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=100.00  E-value=1.1e-32  Score=207.09  Aligned_cols=168  Identities=29%  Similarity=0.496  Sum_probs=144.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ....+||+|+|.+|||||||+++|.++.+...+.++.+.......+... +..+.+.+|||||++.+...+..++..+|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            4567999999999999999999999988877777777776666665554 444789999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+...+...++...+++++++||++|.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  167 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFL  167 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHH
Confidence            99999999999999999999999888777799999999999987777788888889989999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          168 TILLDIYHI  176 (217)
Q Consensus       168 ~l~~~~~~~  176 (217)
                      +|.+.+.+.
T Consensus       168 ~l~~~~~~~  176 (218)
T 4djt_A          168 HLARIFTGR  176 (218)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHhcc
Confidence            999987553

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.4e-32  Score=196.53  Aligned_cols=162  Identities=28%  Similarity=0.412  Sum_probs=141.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|++|||||||+++|.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            358999999999999999999999888777777765444 3445678888899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |||++++.+++.+..|+..+.....  .+.|+++|+||+|+...+.+...+...++...+++++++||++|.|++++|++
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            9999999999999888888776542  37999999999999877777778888899999999999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |.+.+
T Consensus       161 l~~~~  165 (172)
T 2erx_A          161 LLNLE  165 (172)
T ss_dssp             HHHTC
T ss_pred             HHHHH
Confidence            98755

>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=100.00  E-value=1.1e-31  Score=198.06  Aligned_cols=167  Identities=28%  Similarity=0.398  Sum_probs=136.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc--cccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-hccchhhhhcCCc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE--FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-YRAITSAYYRGAV   86 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d   86 (217)
                      .+.+||+|+|.+|||||||+++|++..  +...+ ++.+.++....+.+++..+.+.+|||+|.+. +..+...+++.+|
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            356999999999999999999999643  33333 3355666667788899999999999999775 5566777889999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++|+|||++++++++.+..|+..+.... ..++|+++|+||+|+...+.+...+...++...+++++++||++|.|++++
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            9999999999999999999988777653 347999999999999776677777888888888999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          166 FQTILLDIYHII  177 (217)
Q Consensus       166 ~~~l~~~~~~~~  177 (217)
                      |++|++.+....
T Consensus       163 f~~l~~~~~~~~  174 (192)
T 2cjw_A          163 FEGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999886543

>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=100.00  E-value=2e-31  Score=191.18  Aligned_cols=161  Identities=34%  Similarity=0.591  Sum_probs=141.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .++|+++|++|||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+...+..++..+|++++|
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            48999999999999999999999888777766655433 55667788888999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.. +....++...++...+++++++||++|.|++++|++|.
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            999999999999999988877653 4799999999999876 55667788899999999999999999999999999999


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      +.+.
T Consensus       161 ~~~~  164 (166)
T 2ce2_X          161 REIR  164 (166)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>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=100.00  E-value=1.5e-31  Score=199.54  Aligned_cols=164  Identities=27%  Similarity=0.482  Sum_probs=137.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|.+|||||||+++|.++.+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..++..+|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            35689999999999999999999999988777777665554 34678888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++++++.+ ..|+..+..... ++|+++|+||+|+...            +.+..++...++...++ +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECS  180 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEee
Confidence            99999999999998 788888877654 8999999999999654            34667778888888887 899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~~  175 (217)
                      |++|.|++++|++|.+.+.+
T Consensus       181 A~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHS
T ss_pred             CCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999988753

>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=100.00  E-value=1.2e-32  Score=201.06  Aligned_cols=162  Identities=30%  Similarity=0.532  Sum_probs=126.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+.+++..+.+.+||+||++.+...+..+++++|++|+
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   85 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFIL   85 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEE
Confidence            4599999999999999999999998887777676654432 234456677888999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccc----------cCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           91 VYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRA----------VAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        91 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      |||++++.+++.+. .|+..+..... ++|+++|+||+|+.+.+.          +..+++..++...+. +++++||++
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  164 (182)
T 3bwd_D           86 AFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKS  164 (182)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCC
Confidence            99999999999986 79888887655 899999999999865443          366788889998896 999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIY  174 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~  174 (217)
                      |.|++++|++|.+.++
T Consensus       165 ~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          165 QENVKGVFDAAIRVVL  180 (182)
T ss_dssp             CTTHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999998763

>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=100.00  E-value=5.6e-31  Score=195.24  Aligned_cols=168  Identities=77%  Similarity=1.191  Sum_probs=149.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ++.++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+...+..++..+++++
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            56799999999999999999999999988888888888888888889999999999999999999988999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||+++..+++.+..|+..+......+.|+++++||+|+.+.+.....++..++...++.++++||+++.|++++|++|
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            99999999999988889888776655578999999999998767777788889999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          170 LLDIYHII  177 (217)
Q Consensus       170 ~~~~~~~~  177 (217)
                      .+.+.+..
T Consensus       163 ~~~~~~~~  170 (199)
T 2f9l_A          163 LTEIYRIV  170 (199)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99887654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=100.00  E-value=1.1e-31  Score=198.66  Aligned_cols=166  Identities=16%  Similarity=0.280  Sum_probs=129.2

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      ..+..+.++|+|+|.+|||||||+++|.+..+.. .+.+|.+...  ..+...  .+.+.+|||||++.+..++..+++.
T Consensus        11 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~   86 (199)
T 4bas_A           11 MGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFEKG--RVAFTVFDMGGAKKFRGLWETYYDN   86 (199)
T ss_dssp             -----CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEEET--TEEEEEEEECCSGGGGGGGGGGCTT
T ss_pred             ccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEEeC--CEEEEEEECCCCHhHHHHHHHHHhc
Confidence            4456678999999999999999999999999887 6777776433  333333  4678899999999999999999999


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcC--------CCCeEEEEEeCCCCccccccCHHHHH------HHHHHcCCe
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHAD--------SNIVIMMAGNKSDLNHLRAVAAEDAQ------ILAEKEGLS  150 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--------~~~p~ivv~nK~Dl~~~~~~~~~~~~------~~~~~~~~~  150 (217)
                      +|++|+|||+++++++..+..|+..+.....        .++|+++|+||+|+.....  ..++.      .++...+++
T Consensus        87 ~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~  164 (199)
T 4bas_A           87 IDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPFV  164 (199)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCEE
T ss_pred             CCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCeeE
Confidence            9999999999999999999888888765421        2789999999999976422  12211      122446789


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      ++++||++|.|++++|++|.+.+.+..
T Consensus       165 ~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          165 IFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             EEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             EEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999887654

>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=99.98  E-value=2.1e-31  Score=198.40  Aligned_cols=162  Identities=29%  Similarity=0.499  Sum_probs=138.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|.+|||||||+++|.++.+...+.++.+ +.....+.+++..+.+.+|||||++.+...+..++..+|++|
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  106 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  106 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            4569999999999999999999999988777777764 444566677888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccc------------cCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRA------------VAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++.+++.+. .|+..+.... .++|+++|+||+|+.....            +..+++..++...++ +++++|
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  185 (204)
T 4gzl_A          107 ICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEee
Confidence            999999999999996 8888887776 4899999999999865432            667788889998886 699999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDI  173 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~  173 (217)
                      |++|.|++++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             TTTCTTHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999998754

>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=99.97  E-value=8.9e-31  Score=194.11  Aligned_cols=155  Identities=19%  Similarity=0.268  Sum_probs=121.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+++|++|||||||+++|.++.+. .+.+|.+..  ...+.+++  +.+.+|||||++.++..+..+++.+|++|+
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   98 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEE
Confidence            4579999999999999999999988774 345565544  34556666  678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHH-----------------cCCeEE
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-----------------EGLSFL  152 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~~  152 (217)
                      |||+++++++..+..|+..+.... ..++|+++|+||+|+.+  .+..+++..++..                 .+++++
T Consensus        99 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (198)
T 1f6b_A           99 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVF  176 (198)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEE
Confidence            999999999999999988876642 34899999999999975  4456666666542                 346799


Q ss_pred             EecCCCCCCHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ++||++|.|++++|++|.+.
T Consensus       177 ~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          177 MCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             ECBTTTTBSHHHHHHHHHTT
T ss_pred             EEECCCCCCHHHHHHHHHHh
Confidence            99999999999999999764

>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=1.3e-29  Score=186.86  Aligned_cols=166  Identities=80%  Similarity=1.210  Sum_probs=150.0

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +.+..++|+|+|++|||||||+++|.+..+...+.+|.+.++....+.+++..+.+.+||++|.+.+...+..++..+++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~  104 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVG  104 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCE
Confidence            45678999999999999999999999999888888998888888889999999999999999999998889999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +++|||.++..+++.+..|+..+........|+++++||+|+.+.+.....++..++...++.++++|++++.|++++|+
T Consensus       105 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~  184 (191)
T 1oix_A          105 ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQ  184 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999998888898877765555789999999999987667777888999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          168 TILLDI  173 (217)
Q Consensus       168 ~l~~~~  173 (217)
                      +|.+.+
T Consensus       185 ~l~~~i  190 (191)
T 1oix_A          185 TILTEI  190 (191)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998765

>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=99.97  E-value=3.4e-30  Score=189.54  Aligned_cols=161  Identities=20%  Similarity=0.337  Sum_probs=129.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc-cccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE-FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ...++|+|+|.+|||||||+++|.+.. +...+.+|.+  .....+.+++  +.+.+|||||++.+...+..++.++|++
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   94 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAI   94 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEE
Confidence            456999999999999999999999887 4555666655  4455555665  5788999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcC---CCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCC
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHAD---SNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEAL  160 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~  160 (217)
                      |+|||+++++++..+..|+..+.....   .++|+++|+||+|+.+.  ...+++.....     ..+++++++||++|.
T Consensus        95 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  172 (190)
T 2h57_A           95 IFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKGE  172 (190)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTB
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCCc
Confidence            999999999999999889888776543   48999999999999753  33455555543     235789999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYHI  176 (217)
Q Consensus       161 gv~~~~~~l~~~~~~~  176 (217)
                      |++++|++|.+.+.+.
T Consensus       173 gi~~l~~~l~~~i~~~  188 (190)
T 2h57_A          173 GLQEGVDWLQDQIQTV  188 (190)
T ss_dssp             THHHHHHHHHHHC---
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999877443

>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=99.97  E-value=4.8e-31  Score=189.36  Aligned_cols=156  Identities=20%  Similarity=0.358  Sum_probs=122.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+++|++|||||||+++|.++.+.. +.+|.+  .....+..++  +.+.+||+||++.+...+..++.++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEECSS--CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEECC--EEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999887753 455655  3333444443  67889999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHH-----HHHcCCeEEEecCCCCCCHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQIL-----AEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      |+++++++..+..|+..+... ...+.|+++|+||+|+.+..  ...+....     +...+++++++||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            999999999998888887654 23479999999999996532  22222221     11234679999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      ++|.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999987643

>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=99.97  E-value=1.6e-30  Score=187.71  Aligned_cols=157  Identities=21%  Similarity=0.357  Sum_probs=125.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|++|||||||+++|.++.+. .+.+|.+  .....+.+++  +.+.+||+||++.+...+..+++.+|++|+
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCc--cceEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            4589999999999999999999988874 3455554  3344555554  578899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||+++++++..+..|+..+.... ..+.|+++|+||+|+.+...  ..+...     .+...+++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  158 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDE  158 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHHH
Confidence            999999999999988887765543 24899999999999976422  222222     1223456899999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          165 AFQTILLDIY  174 (217)
Q Consensus       165 ~~~~l~~~~~  174 (217)
                      +|++|.+.+.
T Consensus       159 l~~~l~~~i~  168 (171)
T 1upt_A          159 AMEWLVETLK  168 (171)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998774

>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=99.97  E-value=5.1e-31  Score=193.76  Aligned_cols=159  Identities=19%  Similarity=0.330  Sum_probs=127.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|.++.+...+.+|.+.++..  +...  .+.+.+||+||++.+...+..++..+|++|+
T Consensus        21 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~   96 (188)
T 1zd9_A           21 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVY   96 (188)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEeC--CEEEEEEECCCCHhHHHHHHHHHccCCEEEE
Confidence            56999999999999999999999998877777777765543  3344  3678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++++++.+..|+..+.... ..++|+++|+||+|+....  ...+.....     ...+++++++||++|.|+++
T Consensus        97 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~  174 (188)
T 1zd9_A           97 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDI  174 (188)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHHH
Confidence            999999999999988888876542 2489999999999997532  222222211     12346799999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|.+.+.+
T Consensus       175 l~~~l~~~~~~  185 (188)
T 1zd9_A          175 TLQWLIQHSKS  185 (188)
T ss_dssp             HHHHHHHTCC-
T ss_pred             HHHHHHHHHHh
Confidence            99999886643

>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=99.97  E-value=7.1e-30  Score=188.04  Aligned_cols=155  Identities=19%  Similarity=0.254  Sum_probs=126.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+++|++|||||||+++|.++.+. .+.+|.+.  ....+.+++  +.+.+|||||++.++..+..+++.+|++|+
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   96 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVF   96 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEE
Confidence            4579999999999999999999998874 44555554  345566776  678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHH------------cCCeEEEecCC
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK------------EGLSFLETSAL  157 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~vSa~  157 (217)
                      |||++++++++.+..|+..+.... ..+.|+++|+||+|+.+  ....+++.+....            .+++++++||+
T Consensus        97 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  174 (190)
T 1m2o_B           97 LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVV  174 (190)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTT
T ss_pred             EEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECC
Confidence            999999999999999988876542 34899999999999975  3445565555432            34689999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLD  172 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~  172 (217)
                      +|.|++++|++|.+.
T Consensus       175 ~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          175 MRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTBSHHHHHHHHHTT
T ss_pred             cCCCHHHHHHHHHhh
Confidence            999999999999763

>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=99.97  E-value=4.2e-31  Score=193.60  Aligned_cols=165  Identities=20%  Similarity=0.407  Sum_probs=123.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC--ccccCCCCCcceeeEEEEEEE---CCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN--EFCLESKSTIGVEFATRTLQV---EGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      .+||+|+|++|||||||+++|.+.  .+...+.+|.+.++....+.+   ++..+.+.+||++|++.+..++..++.++|
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  444556677777766555443   345678899999999999999999999999


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC---HHHHHHHHHHcCCe----EEEecCCC
Q 042687           87 GALLVYDITKR-QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA---AEDAQILAEKEGLS----FLETSALE  158 (217)
Q Consensus        87 ~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~----~~~vSa~~  158 (217)
                      ++++|||++++ .++..+..|+..+..... +.|+++|+||+|+.+.+.+.   ..+...++...+++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCT-TCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCC-CCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999997 478889999998876643 79999999999997644332   23345566666776    99999999


Q ss_pred             CC-CHHHHHHHHHHHHHHHH
Q 042687          159 AL-NVEKAFQTILLDIYHII  177 (217)
Q Consensus       159 ~~-gv~~~~~~l~~~~~~~~  177 (217)
                      +. +++++++.|.+.+.+..
T Consensus       161 ~~~~~~~l~~~i~~~~~~~~  180 (184)
T 2zej_A          161 ESDALAKLRKTIINESLNFK  180 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHCC-
T ss_pred             CchhHHHHHHHHHHHHhccc
Confidence            96 99999999988775543

>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=99.97  E-value=5.7e-30  Score=186.99  Aligned_cols=158  Identities=20%  Similarity=0.338  Sum_probs=124.8

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .....+||+|+|.+|||||||+++|.++.+ ..+.+|.+...  ..+.+++  +.+.+||+||++.+...+..++.++|+
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEF   91 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCE
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCE
Confidence            344669999999999999999999999887 44556655443  3445555  678899999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCC
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALN  161 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~g  161 (217)
                      +|+|||++++++++.+..|+..+.... ..++|+++|+||+|+...  ....++....     ...+++++++||++|.|
T Consensus        92 ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g  169 (181)
T 2h17_A           92 VIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEG  169 (181)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcC
Confidence            999999999999999988888876542 348999999999999652  2233443332     22356899999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          162 VEKAFQTILLD  172 (217)
Q Consensus       162 v~~~~~~l~~~  172 (217)
                      ++++|++|.+.
T Consensus       170 i~~l~~~l~~~  180 (181)
T 2h17_A          170 LCQGLEWMMSR  180 (181)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhh
Confidence            99999999764

>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=99.97  E-value=1.6e-29  Score=185.24  Aligned_cols=159  Identities=24%  Similarity=0.370  Sum_probs=128.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++. ...+.+|.+.  ....+.+++  +.+.+|||||++.+...+..+++++|++|
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            466999999999999999999999888 5566677663  344455554  57889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||++++++++.+..|+..+.... ..+.|+++|+||+|+.+...  .++......     ..+++++++||++|.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTGEDLL  168 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCCCCHH
Confidence            9999999999999988888776542 34799999999999976332  333333221     345689999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|.+.+.+
T Consensus       169 ~l~~~l~~~i~~  180 (186)
T 1ksh_A          169 PGIDWLLDDISS  180 (186)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999987754

>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=99.97  E-value=1.6e-29  Score=185.55  Aligned_cols=158  Identities=20%  Similarity=0.337  Sum_probs=124.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|.+|||||||+++|.++.+. .+.+|.+..  ...+.+++  +.+.+||+||++.+...+..++.++|++|+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            4599999999999999999999988876 555665533  33445555  678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++++++.+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.....     ..+++++++||++|.|+++
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  167 (187)
T 1zj6_A           90 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  167 (187)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHH
Confidence            999999999999999988877653 248999999999999752  23344443332     3456899999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|++.+.+
T Consensus       168 l~~~l~~~~~~  178 (187)
T 1zj6_A          168 GLEWMMSRLKI  178 (187)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHH
Confidence            99999987643

>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=99.97  E-value=1.8e-30  Score=191.54  Aligned_cols=158  Identities=18%  Similarity=0.347  Sum_probs=120.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++.+. .+.+|.+  +....+..++  +.+.+||+||++.+...+..++.++|++|
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  101 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLI  101 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            45699999999999999999999988775 3445554  3344455554  67889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHH-----HHHcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQIL-----AEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||++++++++.+..|+..+.... ..+.|+++|+||+|+.+..  ...++...     +...+++++++||++|.|++
T Consensus       102 lv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~  179 (192)
T 2b6h_A          102 FVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLY  179 (192)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHH
Confidence            9999999999999988888876532 3479999999999996532  22222221     11234679999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          164 KAFQTILLDIY  174 (217)
Q Consensus       164 ~~~~~l~~~~~  174 (217)
                      ++|++|++.+.
T Consensus       180 ~l~~~l~~~i~  190 (192)
T 2b6h_A          180 DGLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            99999988763

>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=99.97  E-value=4.2e-30  Score=190.10  Aligned_cols=165  Identities=19%  Similarity=0.174  Sum_probs=121.5

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccch---hhh
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAIT---SAY   81 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~---~~~   81 (217)
                      ..+.+..+||+|+|.+|||||||++++.+... .....+.+.........+ ++..+.+.+||++|++.|....   ..+
T Consensus        14 ~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   92 (196)
T 3llu_A           14 LYFQGSKPRILLMGLRRSGKSSIQKVVFHKMS-PNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMI   92 (196)
T ss_dssp             ------CCEEEEEESTTSSHHHHHHHHHSCCC-GGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHH
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHHhcCC-CcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccc
Confidence            34556789999999999999999998877433 222222222222222233 2556789999999999887776   899


Q ss_pred             hcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc-------ccccCHHHHHHHHH----HcC
Q 042687           82 YRGAVGALLVYDITKR--QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH-------LRAVAAEDAQILAE----KEG  148 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~-------~~~~~~~~~~~~~~----~~~  148 (217)
                      ++++|++|+|||++++  +++..+..|+..+..... ++|+++|+||+|+..       .+.+...+...++.    ..+
T Consensus        93 ~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (196)
T 3llu_A           93 FRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNP-DMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLH  171 (196)
T ss_dssp             HHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCT-TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSC
T ss_pred             cccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCC-CCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCC
Confidence            9999999999999997  677777777777654333 899999999999754       23444556677777    678


Q ss_pred             CeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          149 LSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       149 ~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++++++||++ .|++++|..|++.+
T Consensus       172 ~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          172 LSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             EEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             cceEEEEech-hhHHHHHHHHHHHh
Confidence            8999999999 99999999998865

>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=99.97  E-value=4.8e-30  Score=187.49  Aligned_cols=159  Identities=22%  Similarity=0.349  Sum_probs=124.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+++|++|||||||+++|.+..+ ..+.+|.+.  ....+.+++  +.+.+||+||++.+...+..++..+|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~--~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGF--NIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTE--EEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCe--EEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4569999999999999999999998765 334455553  344455554  67889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||++++++++.+..|+..+... ...+.|+++|+||+|+.+...  .+++....     ...+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHH
Confidence            999999999999998888876543 234799999999999975432  22332221     1234679999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|.+.+.+
T Consensus       167 ~l~~~l~~~~~~  178 (181)
T 1fzq_A          167 DGMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHHHTC--
T ss_pred             HHHHHHHHHHHh
Confidence            999999987754

>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=99.97  E-value=6.3e-29  Score=197.65  Aligned_cols=163  Identities=29%  Similarity=0.497  Sum_probs=143.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+++|.+|||||||+++|.++.+...+.+|.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++|+
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            458999999999999999999999988777777765444 5566788999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcCC-eEEEecC
Q 042687           91 VYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEGL-SFLETSA  156 (217)
Q Consensus        91 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~vSa  156 (217)
                      |||++++.+++.+. .|+..+..... ++|+++|+||+|+...            +.+...++..++...++ +++++||
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 78888877665 8999999999998542            45677888999999997 9999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 042687          157 LEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       157 ~~~~gv~~~~~~l~~~~~~  175 (217)
                      ++|.|++++|++|.+.+++
T Consensus       312 ~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          312 LTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TTCTTHHHHHHHHHHHHHC
T ss_pred             CCCcCHHHHHHHHHHHHhc
Confidence            9999999999999987753

>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=99.97  E-value=2.1e-29  Score=183.92  Aligned_cols=159  Identities=22%  Similarity=0.388  Sum_probs=124.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++.+ ..+.+|.+..  ...+.+++  +.+.+||+||++.+...+..++..+|+++
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            4569999999999999999999998877 4555666533  34455555  67889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----KEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||++++++++.+..|+..+.... ..+.|+++|+||+|+.+.  ....++.....     ..+++++++||++|.|++
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            9999999999999988888876653 358999999999999653  22334433322     224579999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|.+.+.+
T Consensus       169 ~l~~~l~~~~~~  180 (183)
T 1moz_A          169 EGLDWLIDVIKE  180 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=4.1e-30  Score=188.91  Aligned_cols=159  Identities=19%  Similarity=0.313  Sum_probs=126.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...++|+|+|++|||||||+++|.++.+.. +.+|.+  .....+..++  +.+.+|||||++.+...+..+++.+|++|
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG--VNLETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTT--CCEEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCc--eEEEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            456999999999999999999998887753 445655  3344455554  57889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHH-----HHHcCCeEEEecCCCCCCHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQIL-----AEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~vSa~~~~gv~  163 (217)
                      +|||+++++++..+..|+..+.... ..+.|+++|+||+|+.+...  ..+....     +...+++++++||+++.|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLV  172 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHH
Confidence            9999999999999988887775543 35899999999999975322  2222221     12335689999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      ++|++|.+.+.+
T Consensus       173 ~l~~~l~~~i~~  184 (189)
T 2x77_A          173 EGMDWLVERLRE  184 (189)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>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=99.94  E-value=5e-32  Score=201.57  Aligned_cols=162  Identities=30%  Similarity=0.519  Sum_probs=137.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+|+|.+|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..++.++|++|
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            4569999999999999999999999888777666655433 445566777788999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcccc------------ccCHHHHHHHHHHcCC-eEEEec
Q 042687           90 LVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLR------------AVAAEDAQILAEKEGL-SFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~vS  155 (217)
                      +|||++++.+++.+. .|+..+..... ++|+++|+||+|+....            .+...++..++...++ +++++|
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vS  185 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
Confidence            999999999999986 78887776554 79999999999996532            3445667778888887 899999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDI  173 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~  173 (217)
                      |++|.|++++|++|++.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999998765

>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=99.96  E-value=1.6e-28  Score=176.75  Aligned_cols=153  Identities=22%  Similarity=0.273  Sum_probs=116.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc------cchhhhhc--
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR------AITSAYYR--   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--   83 (217)
                      .++|+++|++|||||||+++|.+..+.....++.+.+.....+.+++  ..+.+|||||++.+.      .+...++.  
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            48999999999999999999998776555555555555555666666  468899999987664      33355554  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      ++|++++|+|+++.+.   ...|+..+...   ++|+++|+||+|+...+.+.. +...++..++++++++||++|.|++
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~~---~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~  153 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLMEM---GANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIE  153 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHHT---TCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHhc---CCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            8999999999988543   34566666553   799999999999865444432 4677888889999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      ++|++|.+.+
T Consensus       154 ~l~~~l~~~~  163 (165)
T 2wji_A          154 ELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998754

>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=99.96  E-value=1e-27  Score=181.30  Aligned_cols=170  Identities=20%  Similarity=0.178  Sum_probs=121.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh------hhh---ccchhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ------ERY---RAITSA   80 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~------~~~---~~~~~~   80 (217)
                      +..++|+|+|.+|||||||+++|++..+.....+..+.+.....+..++  +.+.+|||||.      +..   ...+..
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            4569999999999999999999999887533333333344444444454  56889999998      321   112334


Q ss_pred             hhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHH---HHHHHHHHcC--CeEEE
Q 042687           81 YYRGAVGALLVYDITKRQTFD--NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAE---DAQILAEKEG--LSFLE  153 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~---~~~~~~~~~~--~~~~~  153 (217)
                      ++..+|++|+|||++++.++.  ....|+..+..... +.|+++|+||+|+...+.+...   ....++...+  +++++
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFS-NKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSS  183 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEE
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHhhc-CCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEE
Confidence            578899999999999987754  22456655555432 7999999999999776555543   4566777776  89999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDIYHIISKKAL  182 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~~~~~~~~~~  182 (217)
                      +||++|.|++++|++|.+.+.+.......
T Consensus       184 ~SA~~g~gi~~l~~~l~~~i~~~~~~~~~  212 (228)
T 2qu8_A          184 FSTLTGVGVEQAKITACELLKNDQAESIL  212 (228)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EecccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988766544333

>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=99.96  E-value=1e-29  Score=195.39  Aligned_cols=164  Identities=28%  Similarity=0.408  Sum_probs=122.7

Q ss_pred             CCceeeEEEEEcCC---------CCCHHHHHhHHhc---CccccCCCCCc-ceeeEEEE--------------EEECCeE
Q 042687            8 EYDYLFKIVLIGDS---------GVGKSNILSRFTR---NEFCLESKSTI-GVEFATRT--------------LQVEGKT   60 (217)
Q Consensus         8 ~~~~~~~i~i~G~~---------~~GKstLi~~l~~---~~~~~~~~~t~-~~~~~~~~--------------~~~~~~~   60 (217)
                      .....+||+|+|.+         |||||||+++|++   ..+...+.++. +.++....              ..+++..
T Consensus        15 ~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   94 (255)
T 3c5h_A           15 YFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE   94 (255)
T ss_dssp             SCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC--------
T ss_pred             CCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcE
Confidence            34567999999999         9999999999999   55555555543 33322111              1245677


Q ss_pred             EEEEEEe-----------------------cCChhhhccchhhhhc---------------------CCcEEEEEEeCCC
Q 042687           61 VKAQIWD-----------------------TAGQERYRAITSAYYR---------------------GAVGALLVYDITK   96 (217)
Q Consensus        61 ~~~~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~~d~ii~v~d~~~   96 (217)
                      +.+.+||                       ++|++.+..++..++.                     ++|++|+|||+++
T Consensus        95 ~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~  174 (255)
T 3c5h_A           95 CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSR  174 (255)
T ss_dssp             -CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC
T ss_pred             EEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCC
Confidence            8899999                       6667777777777776                     7999999999999


Q ss_pred             h--hhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHHHH-cCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           97 R--QTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        97 ~--~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      +  ++++.+..|+..+... ...++|+++|+||+|+...+.+  +++..++.. .+++++++||++|.|++++|++|++.
T Consensus       175 ~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~  252 (255)
T 3c5h_A          175 GMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQL  252 (255)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            8  9999999999888765 3347999999999999764443  467777766 47899999999999999999999886


Q ss_pred             H
Q 042687          173 I  173 (217)
Q Consensus       173 ~  173 (217)
                      +
T Consensus       253 l  253 (255)
T 3c5h_A          253 I  253 (255)
T ss_dssp             H
T ss_pred             h
Confidence            6

>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=99.96  E-value=1.1e-27  Score=179.19  Aligned_cols=160  Identities=17%  Similarity=0.203  Sum_probs=113.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe-EEEEEEEecCChhhhcc-chhhhhcCCcE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-TVKAQIWDTAGQERYRA-ITSAYYRGAVG   87 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~d~   87 (217)
                      ...++|+|+|++|||||||+++|+++.+...+.++ +.+...  +.+++. .+.+.+|||||++.+.. ++..+++.+|+
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            34689999999999999999999998887666543 333333  555543 57889999999999887 78889999999


Q ss_pred             EEEEEeCCChh-hHHHHHH-HHHHHHhh--cCCCCeEEEEEeCCCCccccccCH--HHHHHHHH----------------
Q 042687           88 ALLVYDITKRQ-TFDNVTR-WLRELRDH--ADSNIVIMMAGNKSDLNHLRAVAA--EDAQILAE----------------  145 (217)
Q Consensus        88 ii~v~d~~~~~-s~~~~~~-~~~~i~~~--~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~----------------  145 (217)
                      +|+|||+++.. ++..... |...+...  ...++|+++|+||+|+........  ..+.....                
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 44444332  234799999999999975432111  11111111                


Q ss_pred             -----------------Hc--CCeEEEecCCCC------CCHHHHHHHHHHH
Q 042687          146 -----------------KE--GLSFLETSALEA------LNVEKAFQTILLD  172 (217)
Q Consensus       146 -----------------~~--~~~~~~vSa~~~------~gv~~~~~~l~~~  172 (217)
                                       ..  +++++++||++|      .|++++|++|.+.
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                             11  567999999999      9999999999875

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=1.8e-27  Score=187.41  Aligned_cols=161  Identities=22%  Similarity=0.323  Sum_probs=127.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc---cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh-----ccchhhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC---LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY-----RAITSAYY   82 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~---~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~   82 (217)
                      ..+||+++|.+|||||||+++|.++...   ..+.+|.+..+.  .+.+++ .+.+.+||+||++.+     ...+..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~--~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS--HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEE--EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEE--EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4589999999999999999999887332   234456554444  444444 578999999999988     77888899


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCcc--ccc----cCHHHHHHHHHHcC---CeE
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNH--LRA----VAAEDAQILAEKEG---LSF  151 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~--~~~----~~~~~~~~~~~~~~---~~~  151 (217)
                      +++|++|+|||++++++++.+..|...+....  ..++|+++|+||+|+.+  .+.    +..+++..++..+|   +++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            99999999999999999999877765544432  34799999999999976  343    44577888998887   799


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 042687          152 LETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       152 ~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +++||++ .++.++|..+++.+..
T Consensus       159 ~~tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          159 FPTSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             EECCTTS-SHHHHHHHHHHHTTCS
T ss_pred             EEeeecC-ChHHHHHHHHHHHHcC
Confidence            9999999 8999999999886543

>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=99.95  E-value=1.4e-27  Score=176.03  Aligned_cols=161  Identities=17%  Similarity=0.165  Sum_probs=111.4

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC----------hhhhc
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG----------QERYR   75 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~   75 (217)
                      ..+....++|+|+|.+|||||||+++|.+..+...+.++.+.+........++   .+.+|||||          ++.+.
T Consensus        17 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~   93 (195)
T 1svi_A           17 QYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWG   93 (195)
T ss_dssp             GSCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHH
T ss_pred             hCCCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHH
Confidence            33455679999999999999999999999876555555544444444444544   578999999          77788


Q ss_pred             cchhhhhcCC---cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCH--HHHHH-HHHHcCC
Q 042687           76 AITSAYYRGA---VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA--EDAQI-LAEKEGL  149 (217)
Q Consensus        76 ~~~~~~~~~~---d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~-~~~~~~~  149 (217)
                      .++..++..+   |++++|+|++++.++.... ++..+..   .+.|+++|+||+|+...+.+..  +++.. +....++
T Consensus        94 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  169 (195)
T 1svi_A           94 RMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPED  169 (195)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTS
T ss_pred             HHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCC
Confidence            7788887766   9999999999876665532 2222333   3789999999999976544322  22322 2223467


Q ss_pred             eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +++++||++|.|++++|++|.+.+
T Consensus       170 ~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          170 ELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ceEEEEccCCCCHHHHHHHHHHHh
Confidence            999999999999999999998865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=2.8e-27  Score=171.79  Aligned_cols=157  Identities=18%  Similarity=0.186  Sum_probs=118.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..++|+|+|.+|||||||+++|.+..+...+.++.+.+.....+.+++.  .+.+|||||++.+...+..++..+|++|
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   83 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIVI   83 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEEE
Confidence            45689999999999999999999999887776666666666666677775  4569999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH-------cC--CeEEEecCCCCC
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-------EG--LSFLETSALEAL  160 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~--~~~~~vSa~~~~  160 (217)
                      +|||++++....... ++..+.   ..++|+++|+||+|+...   ...+.......       ++  ++++++||++|.
T Consensus        84 ~v~d~~~~~~~~~~~-~l~~~~---~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  156 (178)
T 2lkc_A           84 LVVAADDGVMPQTVE-AINHAK---AANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKE  156 (178)
T ss_dssp             EEEETTCCCCHHHHH-HHHHHG---GGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSH
T ss_pred             EEEECCCCCcHHHHH-HHHHHH---hCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCC
Confidence            999998843222221 222222   237899999999999752   12233222222       22  589999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYH  175 (217)
Q Consensus       161 gv~~~~~~l~~~~~~  175 (217)
                      |++++|++|++.+..
T Consensus       157 gv~~l~~~l~~~~~~  171 (178)
T 2lkc_A          157 GLDHLLEMILLVSEM  171 (178)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhhh
Confidence            999999999987644

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.95  E-value=3.3e-27  Score=173.07  Aligned_cols=156  Identities=21%  Similarity=0.267  Sum_probs=123.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc------cchhhhhc-
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR------AITSAYYR-   83 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~-   83 (217)
                      ..++|+|+|++|||||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||++.+.      .++..++. 
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   83 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIIN   83 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhc
Confidence            458999999999999999999998776555556656666666666766  567899999987664      34555554 


Q ss_pred             -CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687           84 -GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        84 -~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                       .+|++++|+|.++   ++....|+..+..   .+.|+++|+||+|+...+.+. .+...++...+++++++||+++.|+
T Consensus        84 ~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v  156 (188)
T 2wjg_A           84 EKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGI  156 (188)
T ss_dssp             HCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSH
T ss_pred             cCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCH
Confidence             5999999999875   4555667776655   378999999999986644443 3567788888999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYH  175 (217)
Q Consensus       163 ~~~~~~l~~~~~~  175 (217)
                      +++|++|.+.+.+
T Consensus       157 ~~l~~~i~~~~~~  169 (188)
T 2wjg_A          157 EELKKAISIAVKD  169 (188)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999987744

>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=99.95  E-value=1.1e-27  Score=175.85  Aligned_cols=157  Identities=22%  Similarity=0.252  Sum_probs=117.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC-----------hhhhccchhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG-----------QERYRAITSAY   81 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~   81 (217)
                      +||+|+|++|||||||+++|.+..+...+.++.+....  .+...    .+.+|||||           ++.+...+..+
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            69999999999999999999999887666665443333  33333    577999999           67777777777


Q ss_pred             hcC-CcEEEEEEeCCChhhHHHH-HHHHHH---------HHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCe
Q 042687           82 YRG-AVGALLVYDITKRQTFDNV-TRWLRE---------LRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLS  150 (217)
Q Consensus        82 ~~~-~d~ii~v~d~~~~~s~~~~-~~~~~~---------i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  150 (217)
                      +.. +++++++|++.|..++..+ ..|...         +......++|+++|+||+|+...+   .++...++..++.+
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            776 7766777777666777665 555532         122223479999999999997644   55677888888764


Q ss_pred             -------EEEecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          151 -------FLETSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       151 -------~~~vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                             ++++||++|.|++++|++|.+.+.+...
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence                   7999999999999999999998865433

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=4.8e-28  Score=192.38  Aligned_cols=158  Identities=19%  Similarity=0.328  Sum_probs=118.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+|+|.+|||||||+++|.+..+.... +|.+..+  ..+...+  +.+.+|||||++.+..++..++..+|++|+
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~-pT~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vil  238 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTTI-PTIGFNV--ETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIF  238 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEEE-EETTEEE--EEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEEE
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCcc-cccceEE--EEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            3479999999999999999999988875433 4554333  3344444  678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||++++.++..+..|+..+.... ..++|++||+||+|+.+...  ..++....     ...+++++++||++|.|+++
T Consensus       239 V~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            999999999999987777665433 35899999999999976332  22222221     12345799999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      +|++|++.+.+
T Consensus       317 l~~~l~~~l~~  327 (329)
T 3o47_A          317 GLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHHh
Confidence            99999987743

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.95  E-value=3.4e-28  Score=190.45  Aligned_cols=165  Identities=19%  Similarity=0.168  Sum_probs=124.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcccc---CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc---chhhhhcCCcE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCL---ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA---ITSAYYRGAVG   87 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~   87 (217)
                      ||+++|..|||||||++++.++.+..   .+.+|.+.++..    ++ ..+++++|||+|+++|+.   .+..|++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999988664432   245777766653    22 347899999999999974   46889999999


Q ss_pred             EEEEEeCCCh--hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc-------cccCHHHHHHHHHH----cCCeEEEe
Q 042687           88 ALLVYDITKR--QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL-------RAVAAEDAQILAEK----EGLSFLET  154 (217)
Q Consensus        88 ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~-------~~~~~~~~~~~~~~----~~~~~~~v  154 (217)
                      +|+|||++++  +....+..|+..+....+ ++|+++++||+|+...       +.+..++.+++++.    .++++++|
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~-~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVNP-SINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHCT-TCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcCC-CCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            9999999997  344444445555544444 8999999999999653       34555667777775    67899999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLDIYHIISKKALAAQ  185 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~~~~~~~~~~~~~~  185 (217)
                      ||++ .++.++|..+++.+.+....-...+.
T Consensus       155 SAkd-~nV~eAFs~iv~~li~~~~~le~~L~  184 (331)
T 3r7w_B          155 SIFD-HSIYEAFSRIVQKLIPELSFLENMLD  184 (331)
T ss_dssp             CSSS-SHHHHHHHHHHTTSSTTHHHHHHHHT
T ss_pred             ccCC-CcHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9998 58999999999988765544444333

>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=99.94  E-value=2.2e-26  Score=176.96  Aligned_cols=155  Identities=18%  Similarity=0.181  Sum_probs=120.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc------hhhhh-
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI------TSAYY-   82 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~-   82 (217)
                      ...++|+|+|++|||||||+|+|.+..+.....++.+.+.....+...+  ..+.+|||||...+...      ...++ 
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            3568999999999999999999999877655445555555555555555  57889999998766542      24555 


Q ss_pred             -cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           83 -RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        83 -~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                       ..+|++|+|+|+++.++.   ..|...+.+.   ++|+++|+||+|+...+.+. .+...++..++++++++||++|.|
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 KGDADLVILVADSVNPEQS---LYLLLEILEM---EKKVILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGEG  153 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHH---HHHHHHHHTT---TCCEEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCTT
T ss_pred             hcCCCEEEEEeCCCchhhH---HHHHHHHHhc---CCCEEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCcC
Confidence             589999999999986543   3455555554   89999999999986644443 246778888999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDI  173 (217)
Q Consensus       162 v~~~~~~l~~~~  173 (217)
                      ++++|++|.+.+
T Consensus       154 i~el~~~i~~~~  165 (258)
T 3a1s_A          154 LEELKEKIVEYA  165 (258)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.94  E-value=1.3e-26  Score=165.56  Aligned_cols=150  Identities=17%  Similarity=0.191  Sum_probs=107.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYYRG   84 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~   84 (217)
                      +||+++|++|||||||+++|.+..+. ....++.+.+.....+..++.  .+.+|||||...       +...+..++..
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            68999999999999999999988754 233344444555666666665  677999999876       34556677899


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCHH
Q 042687           85 AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNVE  163 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv~  163 (217)
                      +|++|+|||++++.+... ..+...+..   .+.|+++|+||+|+.+..    +++..++ ..++ +++++||++|.|++
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            999999999988543322 122222222   278999999999997642    2334444 5677 89999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      ++|++|.+.+
T Consensus       151 ~l~~~l~~~l  160 (161)
T 2dyk_A          151 ELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999998753

>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=99.94  E-value=4.4e-26  Score=179.59  Aligned_cols=163  Identities=17%  Similarity=0.129  Sum_probs=125.5

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhhh----------c
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQERY----------R   75 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~   75 (217)
                      .++.+...|+|+|.+|||||||+|+|++..+..... +..+..........+ ....+.+|||||....          .
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            456677899999999999999999999988764332 333333333334444 1356789999997443          3


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--CeEEE
Q 042687           76 AITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--LSFLE  153 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~  153 (217)
                      .....++..+|++++|+|++++.+......|+..+...   +.|+++|+||+|+.............+....+  .++++
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~---~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~  160 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL---NKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVP  160 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG---CCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEE
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc---CCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEE
Confidence            55677889999999999999988888877777777663   79999999999997434445566777777775  78999


Q ss_pred             ecCCCCCCHHHHHHHHHHHH
Q 042687          154 TSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       154 vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +||++|.|++++|++|.+.+
T Consensus       161 vSA~~g~gv~~L~~~l~~~l  180 (308)
T 3iev_A          161 ISALKGANLDELVKTILKYL  180 (308)
T ss_dssp             CBTTTTBSHHHHHHHHHHHS
T ss_pred             EeCCCCCCHHHHHHHHHHhC
Confidence            99999999999999998866

>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=99.94  E-value=5.8e-27  Score=169.80  Aligned_cols=153  Identities=19%  Similarity=0.219  Sum_probs=114.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc--------hhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI--------TSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   81 (217)
                      ..++|+|+|++|||||||+++|.+..+. ....++.+.++....+.+++.  .+.+|||||...+...        ...+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            3589999999999999999999987653 222344455666677777775  4679999997542211        1235


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      ++.+|++++|||++++.+++. ..|+..+......++|+++|+||+|+.....       .++...+.+++++||++|.|
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~g  152 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEG  152 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTT
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCC
Confidence            789999999999998877653 4677777766555799999999999854211       01112457899999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDI  173 (217)
Q Consensus       162 v~~~~~~l~~~~  173 (217)
                      ++++|++|.+.+
T Consensus       153 v~~l~~~l~~~~  164 (172)
T 2gj8_A          153 VDVLRNHLKQSM  164 (172)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.94  E-value=5.6e-26  Score=167.18  Aligned_cols=160  Identities=18%  Similarity=0.216  Sum_probs=115.0

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC----------hhhh
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG----------QERY   74 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~   74 (217)
                      ...+....++|+|+|.+|||||||+++|.+.... ...++.+.+........+.   .+.+|||||          ++.+
T Consensus        16 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~   91 (195)
T 3pqc_A           16 GDYPPPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLW   91 (195)
T ss_dssp             TCCCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHH
T ss_pred             hhCCCCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHH
Confidence            3445566789999999999999999999998743 3333434344333333443   466999999          6677


Q ss_pred             ccchhhhhcCC---cEEEEEEeCCChhhH--HHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc--ccCHHHHHHHHHHc
Q 042687           75 RAITSAYYRGA---VGALLVYDITKRQTF--DNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR--AVAAEDAQILAEKE  147 (217)
Q Consensus        75 ~~~~~~~~~~~---d~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~~~~~~~~~~  147 (217)
                      ...+..++..+   |++++|+|+++..+.  ..+..|+.   ..   ++|+++|+||+|+....  ....+++..++...
T Consensus        92 ~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~---~~---~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~  165 (195)
T 3pqc_A           92 KRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMK---SL---NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKY  165 (195)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---HT---TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHH---Hc---CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhc
Confidence            77777777665   999999999875432  23333433   22   78999999999986433  22234555666654


Q ss_pred             C-CeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          148 G-LSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       148 ~-~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      + ++++++||++|.|++++|++|.+.+.
T Consensus       166 ~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          166 GEYTIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             CCSCEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             CCCceEEEecCCCCCHHHHHHHHHHHhh
Confidence            4 79999999999999999999998764

>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=99.94  E-value=2e-26  Score=176.89  Aligned_cols=151  Identities=19%  Similarity=0.174  Sum_probs=117.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc----------chhhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA----------ITSAYY   82 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~   82 (217)
                      .+|+++|.+|||||||+|+|.+........++.+.+.....+.+++.  .+.+|||||...+..          +...++
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            58999999999999999999998766555566666777777777775  678999999876553          455666


Q ss_pred             --cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           83 --RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        83 --~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                        ..+|++|+|+|+++.++...+   ...+.+.   ++|+++|+||+|+...+... .....+...++++++++||++|.
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l---~~~l~~~---~~pvilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~  152 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYL---TSQLFEL---GKPVVVALNMMDIAEHRGIS-IDTEKLESLLGCSVIPIQAHKNI  152 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHH---HHHHTTS---CSCEEEEEECHHHHHHTTCE-ECHHHHHHHHCSCEEECBGGGTB
T ss_pred             hhCCCCEEEEEeeCCCchhHHHH---HHHHHHc---CCCEEEEEEChhcCCcCCcH-HHHHHHHHHcCCCEEEEECCCCC
Confidence              899999999999986554443   3333333   89999999999986543322 23456777889999999999999


Q ss_pred             CHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLD  172 (217)
Q Consensus       161 gv~~~~~~l~~~  172 (217)
                      |++++|++|.+.
T Consensus       153 gi~el~~~i~~~  164 (256)
T 3iby_A          153 GIPALQQSLLHC  164 (256)
T ss_dssp             SHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhh
Confidence            999999999763

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=5.4e-27  Score=197.68  Aligned_cols=163  Identities=22%  Similarity=0.265  Sum_probs=123.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEE------E--EECCeEEEEEEEecCChhhhccchhh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT------L--QVEGKTVKAQIWDTAGQERYRAITSA   80 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~------~--~~~~~~~~~~i~D~~G~~~~~~~~~~   80 (217)
                      ....+||+++|.+|||||||+++|.+..+...+.+|.+.++....      +  ..++..+.+.+||+||++.+......
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~  117 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQF  117 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHH
Confidence            456799999999999999999999999988777788776665442      1  12233568899999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL  160 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~  160 (217)
                      ++..+|++|+|||+++.   +.+..|+..+..... +.|+++|+||+|+...+.+..+++..++...+++++++||++|.
T Consensus       118 ~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~-~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~  193 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGG-KSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGD  193 (535)
T ss_dssp             HHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSS-SCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC----
T ss_pred             HccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCC-CCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCccc
Confidence            99999999999999765   456778888877754 79999999999998777777888888888889999999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDIYH  175 (217)
Q Consensus       161 gv~~~~~~l~~~~~~  175 (217)
                      |++++|++|.+.+.+
T Consensus       194 gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          194 GVESIAKSLKSAVLH  208 (535)
T ss_dssp             -CTTHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHhc
Confidence            999999999987754

>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=99.93  E-value=2.8e-26  Score=177.36  Aligned_cols=152  Identities=20%  Similarity=0.208  Sum_probs=115.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc------cchhhhhc--
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR------AITSAYYR--   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--   83 (217)
                      .++|+++|++|||||||+|+|.+........++.+.+.  ....+.. ...+.+|||||...+.      .+...++.  
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~--~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVER--KSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSC--EEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEE--EEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            58999999999999999999998764433334333333  3333444 5578899999987665      34455665  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .+|++|+|+|+++.++.   ..|...+.+.   ++|+++++||+|+...+.+. .+...++..++++++++||++|.|++
T Consensus        80 ~~d~vi~V~D~t~~e~~---~~~~~~l~~~---~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~  152 (272)
T 3b1v_A           80 RADSILNVVDATNLERN---LYLTTQLIET---GIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVD  152 (272)
T ss_dssp             CCSEEEEEEEGGGHHHH---HHHHHHHHHT---CSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHH
T ss_pred             CCCEEEEEecCCchHhH---HHHHHHHHhc---CCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHH
Confidence            69999999999886543   4555555553   89999999999986544443 35677888889999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      ++|++|.+.+
T Consensus       153 el~~~i~~~~  162 (272)
T 3b1v_A          153 QVVKKAAHTT  162 (272)
T ss_dssp             HHHHHHHHSC
T ss_pred             HHHHHHHHHH
Confidence            9999998754

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.93  E-value=1.1e-25  Score=169.29  Aligned_cols=167  Identities=18%  Similarity=0.121  Sum_probs=111.9

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEEC-CeEEEEEEEecCC----------hhh
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-GKTVKAQIWDTAG----------QER   73 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G----------~~~   73 (217)
                      .+.+....++|+|+|.+|||||||+++|++.........+.+.+.......+. .....+.+|||||          .+.
T Consensus        22 ~~~~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~  101 (223)
T 4dhe_A           22 RDLPPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAH  101 (223)
T ss_dssp             GGSCCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHH
T ss_pred             hhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHH
Confidence            34445567999999999999999999999986322222222222223333333 3335678999999          344


Q ss_pred             hccchhhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHHH--
Q 042687           74 YRAITSAYYRG---AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAEK--  146 (217)
Q Consensus        74 ~~~~~~~~~~~---~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~--  146 (217)
                      +......++..   +|++++|+|+++..+. ....|+..+..   .++|+++|+||+|+.......  ..++......  
T Consensus       102 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~  177 (223)
T 4dhe_A          102 WEQLLSSYLQTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYR  177 (223)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhh
Confidence            55566666655   8889999999875432 22344555544   378999999999987643321  1222222222  


Q ss_pred             -----cCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          147 -----EGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       147 -----~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                           .+++++++||++|.|++++|++|.+.+.+
T Consensus       178 ~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  211 (223)
T 4dhe_A          178 DAGYAGKLTVQLFSALKRTGLDDAHALIESWLRP  211 (223)
T ss_dssp             HHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC-
T ss_pred             hcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCc
Confidence                 45789999999999999999999987744

>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=99.93  E-value=3e-25  Score=171.94  Aligned_cols=154  Identities=21%  Similarity=0.188  Sum_probs=120.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc------chhhhh--c
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA------ITSAYY--R   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~   83 (217)
                      .++|+|+|++|||||||+++|.+..+.....++.+.+.....+..++.  .+.+|||||...+..      ....++  .
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~   80 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILDG   80 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhcc
Confidence            489999999999999999999998775555666666776677777765  478999999876655      455555  6


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .+|++|+|+|+++.+   ....|...+.+..  ..|+++|+||+|+...+.... +...+...++++++++||++|.|++
T Consensus        81 ~~d~vi~v~D~~~~~---~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~  154 (271)
T 3k53_A           81 NADVIVDIVDSTCLM---RNLFLTLELFEME--VKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVE  154 (271)
T ss_dssp             CCSEEEEEEEGGGHH---HHHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHH
T ss_pred             CCcEEEEEecCCcch---hhHHHHHHHHhcC--CCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHH
Confidence            899999999998753   3334444444441  299999999999865443332 3677888889999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          164 KAFQTILLDI  173 (217)
Q Consensus       164 ~~~~~l~~~~  173 (217)
                      ++|+++.+.+
T Consensus       155 ~l~~~i~~~~  164 (271)
T 3k53_A          155 ELKRMIALMA  164 (271)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998865

>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=99.93  E-value=1.1e-25  Score=174.52  Aligned_cols=153  Identities=16%  Similarity=0.155  Sum_probs=116.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc----------chhhh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA----------ITSAY   81 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~   81 (217)
                      .++|+++|.+|||||||+|+|.+..+.....++.+.+.....+...+.  .+.+|||||...+..          ....+
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            489999999999999999999998765555566666666666666654  567999999876552          12333


Q ss_pred             h--cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCC
Q 042687           82 Y--RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEA  159 (217)
Q Consensus        82 ~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~  159 (217)
                      +  ..+|++|+|+|+++.+....   |...+.+.   ++|+++|+||+|+.+.+... .....+...++++++++||++|
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g  153 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLY---LTLQLLEL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRG  153 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHH---HHHHHHHH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGG
T ss_pred             HhhcCCCEEEEEecCCChHHHHH---HHHHHHhc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCC
Confidence            3  79999999999988655443   44444444   89999999999986543322 2356677888999999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|++++|++|.+.+
T Consensus       154 ~gi~el~~~i~~~~  167 (274)
T 3i8s_A          154 RGIEALKLAIDRYK  167 (274)
T ss_dssp             HHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999998754

>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=99.92  E-value=3.7e-26  Score=171.46  Aligned_cols=145  Identities=19%  Similarity=0.291  Sum_probs=106.4

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccC---CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE---SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      .....++|+|+|++|||||||+++|.+..+...   +.++.+.++         ..+.+.+||+||++.++..+..++..
T Consensus         8 ~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~   78 (218)
T 1nrj_B            8 QKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKT   78 (218)
T ss_dssp             --CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHh
Confidence            345679999999999999999999999876542   333332222         33467899999999998888888877


Q ss_pred             ----CcEEEEEEeCC-ChhhHHHHHHHHHHHHhh----cCCCCeEEEEEeCCCCccccccC------HHHHHHHHHHcCC
Q 042687           85 ----AVGALLVYDIT-KRQTFDNVTRWLRELRDH----ADSNIVIMMAGNKSDLNHLRAVA------AEDAQILAEKEGL  149 (217)
Q Consensus        85 ----~d~ii~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~~~~  149 (217)
                          +|++|+|||++ +++++..+..|+..+...    ...++|+++|+||+|+...+.+.      .+++..++...++
T Consensus        79 ~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~  158 (218)
T 1nrj_B           79 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKK  158 (218)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhc
Confidence                89999999999 888888888888777654    33589999999999997654433      3456677777778


Q ss_pred             eEEEecCCCCCC
Q 042687          150 SFLETSALEALN  161 (217)
Q Consensus       150 ~~~~vSa~~~~g  161 (217)
                      +++++||++|.+
T Consensus       159 ~~~~~Sa~~~~~  170 (218)
T 1nrj_B          159 SLNEVERKINEE  170 (218)
T ss_dssp             HHHC--------
T ss_pred             cccccccccccc
Confidence            899999998764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.91  E-value=2.4e-25  Score=181.36  Aligned_cols=161  Identities=16%  Similarity=0.154  Sum_probs=116.9

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc-----
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI-----   77 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----   77 (217)
                      |...+....++|+|+|+.|+|||||+++|.+..+. ....++.+.+.....+.+.+.. .+.+|||||++.+...     
T Consensus        26 m~~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~  104 (423)
T 3qq5_A           26 MRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRV  104 (423)
T ss_dssp             CCC---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCH
T ss_pred             cccCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHH
Confidence            44556677899999999999999999999988764 2333444455556666666543 6789999998876544     


Q ss_pred             --hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEec
Q 042687           78 --TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus        78 --~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vS  155 (217)
                        +..++..+|++|+|+|+...   .....|+..+...   ++|+++|+||+|+...+..  +....+...++++++++|
T Consensus       105 ~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vS  176 (423)
T 3qq5_A          105 EKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVS  176 (423)
T ss_dssp             HHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCS
T ss_pred             HHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEE
Confidence              34578899999999999433   2335666666665   8999999999999765443  456667777789999999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDI  173 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~  173 (217)
                      |++|.|++++|++|.+.+
T Consensus       177 Aktg~gI~eL~~~L~~~l  194 (423)
T 3qq5_A          177 ALQKKGFDDIGKTISEIL  194 (423)
T ss_dssp             SCCTTSTTTHHHHHHHHS
T ss_pred             CCCCCCHHHHHHHHHHhh
Confidence            999999999999998876

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.91  E-value=3.3e-23  Score=166.41  Aligned_cols=162  Identities=16%  Similarity=0.194  Sum_probs=120.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc---------cchhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR---------AITSA   80 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~   80 (217)
                      ...++|+++|++|||||||+++|.+........+..+.......+..++  ..+.+|||||.....         .....
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            3558999999999999999999998775433222223333344444443  467899999974321         11223


Q ss_pred             hhcCCcEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC
Q 042687           81 YYRGAVGALLVYDITKRQ--TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      +...+|++++|+|++++.  +++....|+..+..... +.|+++|+||+|+.....+  ++...++...+++++++||++
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            445799999999998876  67777888888877655 7999999999999764332  445666677889999999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~~~  176 (217)
                      |.|++++|++|.+.+.+.
T Consensus       320 g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          320 GTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHH
Confidence            999999999999988654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.91  E-value=2.9e-24  Score=176.80  Aligned_cols=160  Identities=16%  Similarity=0.181  Sum_probs=115.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCCh----------hhhccch
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ----------ERYRAIT   78 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~   78 (217)
                      +..++|+++|.+|||||||+|+|++.... ....++++.+.....+..++.  .+.+|||||+          +.|....
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            35689999999999999999999988764 333344445555556667775  4779999997          4444433


Q ss_pred             h-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH-HHHHH----cCCeEE
Q 042687           79 S-AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ-ILAEK----EGLSFL  152 (217)
Q Consensus        79 ~-~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~  152 (217)
                      . .+++.+|++|+|+|++++.+.+.. .|+..+...   ++|+++|+||+|+.+.+.....+.. .+...    .+++++
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~~---~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~  326 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHEA---GKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  326 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHHT---TCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHHc---CCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEE
Confidence            3 477899999999999998877765 566666543   8999999999999765443333332 22222    367999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ++||++|.|++++|+.+.+.+.+
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            99999999999999999987754

>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=99.91  E-value=6.4e-24  Score=175.56  Aligned_cols=157  Identities=17%  Similarity=0.120  Sum_probs=98.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccch--------hhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAIT--------SAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~   81 (217)
                      ..++|+|+|.+|||||||+|+|.+.... ....++++.+.....+.+++.  .+.+|||||...+...+        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~--~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKT--MFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETTE--EEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCe--EEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            3489999999999999999999987643 333344455565566677774  67899999987655433        346


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..+|++|+|+|++++.+++.+..+...+....  ++|+++|+||+|+......   +.+.+......+++++||++|.|
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~G  384 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDG  384 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBS
T ss_pred             cccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCC
Confidence            789999999999999877653333333333322  7999999999999764433   22334443237899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIY  174 (217)
Q Consensus       162 v~~~~~~l~~~~~  174 (217)
                      ++++|++|.+.+.
T Consensus       385 I~eL~~~i~~~~~  397 (476)
T 3gee_A          385 IDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998774

>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=99.91  E-value=9.3e-24  Score=174.69  Aligned_cols=161  Identities=16%  Similarity=0.148  Sum_probs=118.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCC----------hhhhccch
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAG----------QERYRAIT   78 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~   78 (217)
                      +..++|+++|.+|+|||||+++|.+.... ....++++.+.....+..++.  .+.+|||||          ++.+....
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            45689999999999999999999976532 333344445555556667775  677999999          56666554


Q ss_pred             h-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-----CCeEE
Q 042687           79 S-AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-----GLSFL  152 (217)
Q Consensus        79 ~-~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~  152 (217)
                      . .+++.+|++|+|+|+++.... ....|+..+...   ++|+++|+||+|+.+.+....++..+.+...     +++++
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~~-~~~~~~~~~~~~---~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  346 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGIIE-QDKRIAGYAHEA---GKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  346 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT---TCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCcCH-HHHHHHHHHHHc---CCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEE
Confidence            4 477899999999999875442 224555555543   7999999999999876655556666655544     57999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      ++||++|.|++++|+++.+.+.+.
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            999999999999999999877544

>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=99.90  E-value=1.9e-23  Score=163.78  Aligned_cols=154  Identities=18%  Similarity=0.163  Sum_probs=107.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhh--------hccchhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------YRAITSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   81 (217)
                      ...+|+|+|.+|||||||+|+|++..+.... .+.++.......+..++  ..+.+|||||...        +......+
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~~~~~~~~   83 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   83 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHHHHHHHHH
Confidence            3468999999999999999999998876432 22222233222333333  5788999999754        44556678


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHH-HHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH-cC-CeEEEecCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWL-RELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK-EG-LSFLETSALE  158 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~-~~~~~vSa~~  158 (217)
                      ++.+|++++|||++++.+..  ..|+ ..+.... .+.|+++|+||+|+......    ....... .+ .+++++||++
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            89999999999998764433  2343 4454433 37999999999998753320    2222222 23 4799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|++++|++|.+.+
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            999999999998754

>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=99.90  E-value=1.1e-23  Score=167.40  Aligned_cols=156  Identities=15%  Similarity=0.159  Sum_probs=116.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hccchhhhh---cCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRAITSAYY---RGA   85 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~~---~~~   85 (217)
                      .+|+|+|.+|||||||+++|.+........+..+.......+.+++. ..+.+||+||...    +..+...++   ..+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~  237 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERT  237 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhc
Confidence            36899999999999999999987654322222223333334455431 3678999999643    333444554   459


Q ss_pred             cEEEEEEeCCC---hhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--CeEEEecCCC
Q 042687           86 VGALLVYDITK---RQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--LSFLETSALE  158 (217)
Q Consensus        86 d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~vSa~~  158 (217)
                      |++|+|+|+++   +++++.+..|+..+.....  .++|+++|+||+|+....    +....+...++  ++++++||++
T Consensus       238 d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~t  313 (342)
T 1lnz_A          238 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVT  313 (342)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCC
T ss_pred             cEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCC
Confidence            99999999998   7889999999988887653  479999999999987522    34566666666  6899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      +.|+++++.+|.+.+
T Consensus       314 g~gi~eL~~~l~~~l  328 (342)
T 1lnz_A          314 REGLRELLFEVANQL  328 (342)
T ss_dssp             SSTTHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHH
Confidence            999999999998876

>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=99.89  E-value=3.6e-22  Score=162.81  Aligned_cols=157  Identities=15%  Similarity=0.119  Sum_probs=113.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEE---------------------E---CCeEEEEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ---------------------V---EGKTVKAQ   64 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~---------------------~---~~~~~~~~   64 (217)
                      ..+.++|+++|++++|||||+++|.+........      +......                     .   ......+.
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLG------YAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRIS   78 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSE------EEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEE
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccccC------ccccceeeccccccccceecccccccccccccccccceEE
Confidence            4466999999999999999999998754322110      0000000                     0   11236789


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHH
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQI  142 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~  142 (217)
                      +|||||++.|...+..++..+|++|+|+|+++..++....+|+..+....  ..|+++++||+|+.+.....  .+++..
T Consensus        79 iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~  156 (403)
T 3sjy_A           79 FIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQ  156 (403)
T ss_dssp             EEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHH
T ss_pred             EEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHH
Confidence            99999999999999999999999999999998765666667766665542  35899999999997633211  122333


Q ss_pred             HHHHc---CCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          143 LAEKE---GLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       143 ~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +....   +++++++||++|.|+++++++|.+.+
T Consensus       157 ~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          157 FTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             HHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence            33222   57899999999999999999998754

>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=99.89  E-value=2.3e-22  Score=165.64  Aligned_cols=150  Identities=20%  Similarity=0.300  Sum_probs=104.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh---------hccchhhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------YRAITSAYY   82 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   82 (217)
                      .+|+|+|.+|||||||+|+|++.... ....++.+.+.....+..++.  .+.+|||||.+.         +...+..++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            48999999999999999999988754 233455555666677777775  467999999653         344567789


Q ss_pred             cCCcEEEEEEeCCChhhHHH--HHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH-HHHHHHcCC-eEEEecCCC
Q 042687           83 RGAVGALLVYDITKRQTFDN--VTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA-QILAEKEGL-SFLETSALE  158 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~~~~~-~~~~vSa~~  158 (217)
                      +.+|++|+|+|+.++.+...  +..|+.   ..   ++|+++|+||+|+....   ..+. .++. .+++ +++++||++
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~---~~---~~p~ilv~NK~D~~~~~---~~~~~~~~~-~lg~~~~~~iSA~~  149 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLR---KS---TVDTILVANKAENLREF---EREVKPELY-SLGFGEPIPVSAEH  149 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHH---HH---TCCEEEEEESCCSHHHH---HHHTHHHHG-GGSSCSCEECBTTT
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHH---Hc---CCCEEEEEeCCCCcccc---HHHHHHHHH-hcCCCCEEEEeccC
Confidence            99999999999987544332  333332   22   78999999999986421   1222 3343 4566 789999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIY  174 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~  174 (217)
                      |.|+++++++|.+.+.
T Consensus       150 g~gv~~L~~~i~~~l~  165 (439)
T 1mky_A          150 NINLDTMLETIIKKLE  165 (439)
T ss_dssp             TBSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcc
Confidence            9999999999988774

>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=99.89  E-value=6.3e-22  Score=161.59  Aligned_cols=158  Identities=20%  Similarity=0.164  Sum_probs=104.0

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc---cccCCCC--CcceeeEEEEEEE-------------C--C----eEEEEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE---FCLESKS--TIGVEFATRTLQV-------------E--G----KTVKAQI   65 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~---~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~~~i   65 (217)
                      ...++|+++|+.++|||||+++|.+..   +..+..+  |....+....+..             +  +    ....+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            356999999999999999999998543   3333333  4443443333321             1  1    1367899


Q ss_pred             EecCChhhhccchhhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cCHHH
Q 042687           66 WDTAGQERYRAITSAYYRGAVGALLVYDITKR----QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VAAED  139 (217)
Q Consensus        66 ~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~  139 (217)
                      |||||++.|...+...+..+|++|+|+|+++.    ++.+.+.    .+....  ..|+++++||+|+.....  ...++
T Consensus        86 iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l~--~~~iivv~NK~Dl~~~~~~~~~~~~  159 (408)
T 1s0u_A           86 VDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEILG--IDKIIIVQNKIDLVDEKQAEENYEQ  159 (408)
T ss_dssp             EECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHTT--CCCEEEEEECTTSSCTTTTTTHHHH
T ss_pred             EECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHcC--CCeEEEEEEccCCCCHHHHHHHHHH
Confidence            99999999988888888899999999999854    3433332    222221  357999999999976433  22355


Q ss_pred             HHHHHHH---cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          140 AQILAEK---EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       140 ~~~~~~~---~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +..++..   .+++++++||++|.|+++++++|.+.+
T Consensus       160 i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i  196 (408)
T 1s0u_A          160 IKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFI  196 (408)
T ss_dssp             HHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHS
T ss_pred             HHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            6666654   357899999999999999999997654

>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=99.89  E-value=3.1e-22  Score=166.25  Aligned_cols=155  Identities=17%  Similarity=0.171  Sum_probs=110.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc-------cccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE-------FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR   83 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   83 (217)
                      ..++|+++|+.++|||||+++|.+..       +..+..+..+.+.....+.+++  ..+.+|||||++.|...+...+.
T Consensus        18 ~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~~~   95 (482)
T 1wb1_A           18 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAAD   95 (482)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHHHh
Confidence            46899999999999999999998766       2222223233333333445555  56789999999999888889999


Q ss_pred             CCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHHHHHHc----CCeEEEe
Q 042687           84 GAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQILAEKE----GLSFLET  154 (217)
Q Consensus        84 ~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~v  154 (217)
                      .+|++|+|+|+++   +++.+.+    ..+...   ++|+++++||+|+.+....  ..+++..++...    +++++++
T Consensus        96 ~aD~~ilVvda~~g~~~qt~e~l----~~~~~~---~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~v  168 (482)
T 1wb1_A           96 IIDLALIVVDAKEGPKTQTGEHM----LILDHF---NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPI  168 (482)
T ss_dssp             SCCEEEEEEETTTCSCHHHHHHH----HHHHHT---TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEEC
T ss_pred             hCCEEEEEEecCCCccHHHHHHH----HHHHHc---CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEE
Confidence            9999999999987   3443332    223332   7888999999999753221  233455566555    5789999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 042687          155 SALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       155 Sa~~~~gv~~~~~~l~~~~~  174 (217)
                      ||++|.|+++++++|.+.+.
T Consensus       169 SA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          169 SAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             ECcCCCCHHHHHHHHHHhhc
Confidence            99999999999999988663

>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=99.89  E-value=4.6e-22  Score=167.95  Aligned_cols=158  Identities=22%  Similarity=0.291  Sum_probs=113.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc--cccC-----CC------CCcceee----EEEEEEE-CCeEEEEEEEecCCh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE--FCLE-----SK------STIGVEF----ATRTLQV-EGKTVKAQIWDTAGQ   71 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~--~~~~-----~~------~t~~~~~----~~~~~~~-~~~~~~~~i~D~~G~   71 (217)
                      +...+|+|+|+.++|||||+++|+...  ....     ..      ...+.+.    ....+.. ++..+.+++|||||+
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            456899999999999999999997632  1110     00      0011111    1111221 456688999999999


Q ss_pred             hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC--
Q 042687           72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL--  149 (217)
Q Consensus        72 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  149 (217)
                      ..|...+..++..+|++|+|+|+++..+.+....|.....    .++|+++++||+|+...+  ......++....++  
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            9999989999999999999999999877777777765443    289999999999997533  12334556666666  


Q ss_pred             -eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 -SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 -~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                       +++++||++|.|++++|++|++.+
T Consensus       158 ~~vi~vSAktg~GI~~Lle~I~~~l  182 (600)
T 2ywe_A          158 EEAILASAKEGIGIEEILEAIVNRI  182 (600)
T ss_dssp             GGCEECBTTTTBSHHHHHHHHHHHS
T ss_pred             ccEEEEEeecCCCchHHHHHHHHhc
Confidence             499999999999999999998766

>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=99.89  E-value=1.1e-22  Score=168.27  Aligned_cols=153  Identities=20%  Similarity=0.234  Sum_probs=114.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChh-hhcc--------chhhh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE-RYRA--------ITSAY   81 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~--------~~~~~   81 (217)
                      .++|+|+|.+|||||||+|+|.+..+. ....++++.+.....+.+++.  .+.+|||||.. .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~--~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGI--LFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTE--EEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCe--EEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            389999999999999999999987643 333344455666666777774  57899999987 5432        23457


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..+|++|+|||++++.+++... ++..+     .++|+++|+||+|+...  ...+++..+.. .+++++++||++|.|
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--INEEEIKNKLG-TDRHMVKISALKGEG  391 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCC
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCC
Confidence            88999999999999887765532 23322     27899999999999653  33444444432 447899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYH  175 (217)
Q Consensus       162 v~~~~~~l~~~~~~  175 (217)
                      ++++|++|.+.+..
T Consensus       392 i~eL~~~l~~~~~~  405 (482)
T 1xzp_A          392 LEKLEESIYRETQE  405 (482)
T ss_dssp             HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999997653

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.88  E-value=2.8e-22  Score=169.57  Aligned_cols=157  Identities=20%  Similarity=0.265  Sum_probs=110.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc--ccc-----CC------CCCcceeeEE--EEEEE---CCeEEEEEEEecCChh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE--FCL-----ES------KSTIGVEFAT--RTLQV---EGKTVKAQIWDTAGQE   72 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~--~~~-----~~------~~t~~~~~~~--~~~~~---~~~~~~~~i~D~~G~~   72 (217)
                      ...+|+|+|+.++|||||+++|+...  ...     ..      ..+.+.+...  ..+.+   ++..+.+++|||||+.
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            45799999999999999999997632  110     00      0112222222  22222   4567889999999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC---
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL---  149 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---  149 (217)
                      .|...+..++..+|++|+|+|+++..+.+....|.....    .++|+++++||+|+...+  ......++...+++   
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            999999999999999999999998777777777765543    278999999999997633  22334556666676   


Q ss_pred             eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +++++||++|.|+++++++|.+.+
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~l  180 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDI  180 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHS
T ss_pred             eEEEeecccCCCchhHHHHHhhcC
Confidence            499999999999999999998765

>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=99.88  E-value=5.1e-22  Score=162.25  Aligned_cols=160  Identities=22%  Similarity=0.204  Sum_probs=111.8

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCc---cccCCCC--CcceeeEEEEEEE-------------C--C----eEEEE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNE---FCLESKS--TIGVEFATRTLQV-------------E--G----KTVKA   63 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~---~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~~   63 (217)
                      ...+.++|+++|+.++|||||+++|.+..   +..+..+  |....+....+..             .  +    ....+
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            34677999999999999999999998542   3333333  4433443333321             1  1    13678


Q ss_pred             EEEecCChhhhccchhhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cCH
Q 042687           64 QIWDTAGQERYRAITSAYYRGAVGALLVYDITKR----QTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VAA  137 (217)
Q Consensus        64 ~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~~  137 (217)
                      .+|||||++.|...+...+..+|++|+|+|+++.    ++.+.+.    .+....  ..|+++++||+|+.+...  ...
T Consensus        86 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~~--~~~iivviNK~Dl~~~~~~~~~~  159 (410)
T 1kk1_A           86 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQIIG--QKNIIIAQNKIELVDKEKALENY  159 (410)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHHT--CCCEEEEEECGGGSCHHHHHHHH
T ss_pred             EEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHcC--CCcEEEEEECccCCCHHHHHHHH
Confidence            9999999999988888888899999999999854    3333332    222221  357999999999976332  122


Q ss_pred             HHHHHHHHH---cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          138 EDAQILAEK---EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       138 ~~~~~~~~~---~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +++..++..   .+++++++||++|.|+++++++|.+.+
T Consensus       160 ~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~  198 (410)
T 1kk1_A          160 RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  198 (410)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            345555543   357899999999999999999987654

>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=99.88  E-value=1.5e-21  Score=156.65  Aligned_cols=159  Identities=18%  Similarity=0.157  Sum_probs=109.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh---------hhhccchhhhhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ---------ERYRAITSAYYRG   84 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~   84 (217)
                      .|+|+|++|||||||+|+|.+..+.....+..+.+.....+.+++.  .+.+|||+|.         +.+...+ ..+..
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~--~v~l~DT~G~i~~lp~~lve~f~~tl-~~~~~  257 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNR--KIMLVDTVGFIRGIPPQIVDAFFVTL-SEAKY  257 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETTE--EEEEEECCCBCSSCCGGGHHHHHHHH-HGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCE--EEEEEeCCCchhcCCHHHHHHHHHHH-HHHHh
Confidence            4999999999999999999988764333333344555667777774  5679999995         2233333 35788


Q ss_pred             CcEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc-CHHHHHHHHHHc---CCeEEEecCCC
Q 042687           85 AVGALLVYDITKRQ--TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV-AAEDAQILAEKE---GLSFLETSALE  158 (217)
Q Consensus        85 ~d~ii~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~~---~~~~~~vSa~~  158 (217)
                      +|++++|+|++++.  ..+.+..|...+......+.|+++|+||+|+.+.... ....+..++...   +.+++++||++
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  5556666666666554457899999999998653210 012233344544   34789999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIYH  175 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~~  175 (217)
                      +.|+++++++|.+.+..
T Consensus       338 g~gi~~L~~~I~~~l~~  354 (364)
T 2qtf_A          338 RTNLELLRDKIYQLATQ  354 (364)
T ss_dssp             TBSHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHhcc
Confidence            99999999999886643

>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=99.88  E-value=4.3e-21  Score=145.91  Aligned_cols=162  Identities=16%  Similarity=0.158  Sum_probs=105.1

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC--CcceeeEEEEEEECCeEEEEEEEecCCh-----------hhh
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS--TIGVEFATRTLQVEGKTVKAQIWDTAGQ-----------ERY   74 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~~i~D~~G~-----------~~~   74 (217)
                      +....++|+|+|++|||||||+|+|++..+.....+  +.+.......+..++.  .+.+|||||.           ..+
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~~~~~~~~~~~~~~~  102 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGIFDTEVPNAETSKEI  102 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSCC-----CHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCccCCCCCHHHHHHHH
Confidence            344679999999999999999999999887655444  3444555555666664  5679999993           344


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhh--HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC------HHHHHHHHHH
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQT--FDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA------AEDAQILAEK  146 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~  146 (217)
                      ...+..+++.+|++|+|+|+++...  ...+..+...+....  ..|+++|+||+|+.....+.      .+.+..+...
T Consensus       103 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~--~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~  180 (239)
T 3lxx_A          103 IRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERA--RSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDI  180 (239)
T ss_dssp             HHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHH--GGGEEEEEECGGGC------------CHHHHHHHHH
T ss_pred             HHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhc--cceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHH
Confidence            5555566778999999999875433  222333333332221  46899999999986543332      1357778888


Q ss_pred             cCCeEEEecCCCC-----CCHHHHHHHHHHHH
Q 042687          147 EGLSFLETSALEA-----LNVEKAFQTILLDI  173 (217)
Q Consensus       147 ~~~~~~~vSa~~~-----~gv~~~~~~l~~~~  173 (217)
                      .+..++.++...+     .++.++|..+.+.+
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~  212 (239)
T 3lxx_A          181 FGDRYCALNNKATGAEQEAQRAQLLGLIQRVV  212 (239)
T ss_dssp             HSSSEEECCTTCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEECCCCccccHHHHHHHHHHHHHHH
Confidence            8888888876644     56777776665544

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.88  E-value=1.7e-21  Score=160.20  Aligned_cols=154  Identities=19%  Similarity=0.181  Sum_probs=104.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc-------------------------------cCCCCCcceeeEEEEEEEC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC-------------------------------LESKSTIGVEFATRTLQVE   57 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~-------------------------------~~~~~t~~~~~~~~~~~~~   57 (217)
                      ....++|+++|++++|||||+++|+.....                               .+..+..+.+.....+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            345699999999999999999999543211                               1111233444444444444


Q ss_pred             CeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhh---HH---HHHHHHHHHHhhcCCCCe-EEEEEeCCCCc
Q 042687           58 GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQT---FD---NVTRWLRELRDHADSNIV-IMMAGNKSDLN  130 (217)
Q Consensus        58 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~  130 (217)
                      +  ..+.+|||||++.|...+..++..+|++|+|+|+++...   ++   ...+.+..+...   ++| +++++||+|+.
T Consensus        94 ~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~---~v~~iIvviNK~Dl~  168 (439)
T 3j2k_7           94 K--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA---GVKHLIVLINKMDDP  168 (439)
T ss_pred             C--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHc---CCCeEEEEeecCCCc
Confidence            4  478899999999999999999999999999999987532   11   112222222222   667 89999999985


Q ss_pred             ccc------ccCHHHHHHHHHHcC------CeEEEecCCCCCCHHHHHH
Q 042687          131 HLR------AVAAEDAQILAEKEG------LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       131 ~~~------~~~~~~~~~~~~~~~------~~~~~vSa~~~~gv~~~~~  167 (217)
                      ...      .....++..++...+      ++++++||++|.|++++++
T Consensus       169 ~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          169 TVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            311      111233445554444      5799999999999999765

>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=99.88  E-value=8.2e-22  Score=151.71  Aligned_cols=163  Identities=16%  Similarity=0.115  Sum_probs=106.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCC-cceeeEEEEEEECCeEEEEEEEecCChhhhccc---------
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKST-IGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI---------   77 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t-~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~---------   77 (217)
                      ....++|+|+|++|||||||+++|++.... ....++ .+.......+..++.  .+.+|||||+..+...         
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNR--EIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTE--EEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCC--EEEEEECcCCCCCCCCHHHHHHHHH
Confidence            345689999999999999999999987743 333333 344444445555653  5789999997654322         


Q ss_pred             --hhhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHhhcCCCCeEEEEEe-CCCCccccccCH-------HHHHHHHHH
Q 042687           78 --TSAYYRGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAGN-KSDLNHLRAVAA-------EDAQILAEK  146 (217)
Q Consensus        78 --~~~~~~~~d~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~ivv~n-K~Dl~~~~~~~~-------~~~~~~~~~  146 (217)
                        ...+++.+|++|+|+|+++... ...+..|+..+..... ..|+++++| |+|+... .+..       .++..+...
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~-~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~  174 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDA-MGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAA  174 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGG-GGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchh-hccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHH
Confidence              2236789999999999986222 2223334433322111 345666665 9999742 2211       234446666


Q ss_pred             cCCe---E--EEecCCCCCCHHHHHHHHHHHHHH
Q 042687          147 EGLS---F--LETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       147 ~~~~---~--~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      .+..   +  +++||+++.|++++|.+|.+.+..
T Consensus       175 ~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          175 CGGRICAFNNRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             TTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCeEEEecCcccccccHHHHHHHHHHHHHHHHh
Confidence            5532   2  789999999999999999987754

>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=99.87  E-value=1.5e-22  Score=166.91  Aligned_cols=152  Identities=18%  Similarity=0.213  Sum_probs=103.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccch--------hhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAIT--------SAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~   81 (217)
                      ..++|+|+|++|||||||+|+|.+..+. ....++.+.+.....+.+++.  .+.+|||||...+...+        ..+
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            3589999999999999999999987654 233344455555555667774  56799999976544332        235


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN  161 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g  161 (217)
                      +..+|++++|+|++++.+... ..|+..+.     ..|+++|+||+|+.......  ....+.  .+.+++++||++|.|
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~G  370 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQG  370 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBS
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCC
Confidence            789999999999998766544 34444442     47999999999997644332  111111  356899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIY  174 (217)
Q Consensus       162 v~~~~~~l~~~~~  174 (217)
                      +++++++|.+.+.
T Consensus       371 i~eL~~~i~~~~~  383 (462)
T 3geh_A          371 IDSLETAILEIVQ  383 (462)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.87  E-value=1.5e-21  Score=155.79  Aligned_cols=123  Identities=15%  Similarity=0.201  Sum_probs=100.8

Q ss_pred             EEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHhhc-CCCCeE
Q 042687           52 RTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK----------RQTFDNVTRWLRELRDHA-DSNIVI  120 (217)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~p~  120 (217)
                      ..+.+++  +.+.+||++|++.++..|..++++++++|+|||+++          ..++.....|+..+.... ..++|+
T Consensus       186 ~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~pi  263 (353)
T 1cip_A          186 THFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI  263 (353)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEE
T ss_pred             EEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcE
Confidence            3445553  678899999999999999999999999999999998          456888888888876642 247999


Q ss_pred             EEEEeCCCCcccc---------------ccCHHHHHHHHH-----------HcCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          121 MMAGNKSDLNHLR---------------AVAAEDAQILAE-----------KEGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       121 ivv~nK~Dl~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      +|++||+|+...+               ....+++..++.           ..++.+++|||+++.|+.++|.++.+.+.
T Consensus       264 iLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~  343 (353)
T 1cip_A          264 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII  343 (353)
T ss_dssp             EEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHH
Confidence            9999999985422               245677777776           35678999999999999999999999886


Q ss_pred             HH
Q 042687          175 HI  176 (217)
Q Consensus       175 ~~  176 (217)
                      +.
T Consensus       344 ~~  345 (353)
T 1cip_A          344 KN  345 (353)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=99.87  E-value=2e-21  Score=152.50  Aligned_cols=155  Identities=19%  Similarity=0.169  Sum_probs=106.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChh---------hhccchhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQE---------RYRAITSA   80 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~   80 (217)
                      ...+|+|+|++|||||||+|+|++..+.... .+..+.......+..++  ..+.+|||||..         .+......
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~~~   84 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASS   84 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHHHH
Confidence            3468999999999999999999998765322 22222222222333343  467899999986         23344566


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEA  159 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~  159 (217)
                      ++..+|++++|+|+++ -  .....|+....  ...+.|+++++||+|+..........+..+...++. .++++||+++
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--TPDDEMVLNKL--REGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETG  159 (301)
T ss_dssp             CCCCEEEEEEEEETTC-C--CHHHHHHHHHH--HSSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTT
T ss_pred             HHhcCCEEEEEEeCCC-C--CHHHHHHHHHH--HhcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCC
Confidence            7889999999999976 2  22223332221  123799999999999875222223445556666665 7999999999


Q ss_pred             CCHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLD  172 (217)
Q Consensus       160 ~gv~~~~~~l~~~  172 (217)
                      .|++++++++.+.
T Consensus       160 ~~v~~l~~~i~~~  172 (301)
T 1ega_A          160 LNVDTIAAIVRKH  172 (301)
T ss_dssp             TTHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHh
Confidence            9999999999864

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.87  E-value=6.6e-23  Score=168.73  Aligned_cols=151  Identities=16%  Similarity=0.169  Sum_probs=98.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChh--------hhccchhhhhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQE--------RYRAITSAYYR   83 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~   83 (217)
                      ++|+|+|.+|||||||+|+|.+..+.... .+..+.+.....  .......+.+|||||.+        .+...+..++.
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~--~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   81 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSS--AEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD   81 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEE--CTTCSSCCEEEC---------CHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEE--EEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            68999999999999999999987764322 222222333333  33333468899999975        56677778899


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv  162 (217)
                      .+|++|+|+|+.++.+.... .+...+..   .++|+++|+||+|+.....    +..++. ..++ +++++||++|.|+
T Consensus        82 ~ad~il~vvD~~~~~~~~d~-~~~~~l~~---~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv  152 (436)
T 2hjg_A           82 EADVIIFMVNGREGVTAADE-EVAKILYR---TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGL  152 (436)
T ss_dssp             HCSEEEEEEETTTCSCHHHH-HHHHHHTT---CCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTH
T ss_pred             hCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCCh
Confidence            99999999999886554432 22222332   3799999999999865321    111122 3454 7899999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIY  174 (217)
Q Consensus       163 ~~~~~~l~~~~~  174 (217)
                      +++++++.+.+.
T Consensus       153 ~~L~~~i~~~l~  164 (436)
T 2hjg_A          153 GDLLDAVAEHFK  164 (436)
T ss_dssp             HHHHHHHHHTGG
T ss_pred             HHHHHHHHHhcC
Confidence            999999988663

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.87  E-value=2.3e-22  Score=155.96  Aligned_cols=159  Identities=16%  Similarity=0.225  Sum_probs=93.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc-CC-------CCCcceeeEEEEEEECCeEEEEEEEecCChh-------hh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL-ES-------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQE-------RY   74 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~-------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~~   74 (217)
                      ...++|+|+|.+|+|||||+|+|++..... .+       .+|.+.+.....+..++..+.+.+|||||..       .+
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~   85 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW   85 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTT
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhH
Confidence            356999999999999999999987765443 22       4555555555555556666789999999962       22


Q ss_pred             ccch-------hhhhc-------------CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           75 RAIT-------SAYYR-------------GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        75 ~~~~-------~~~~~-------------~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      ..+.       ..++.             .+|+++++++.+.......-..++..+..    ++|+++|+||+|+.....
T Consensus        86 ~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~e  161 (274)
T 3t5d_A           86 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPEE  161 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHHH
Confidence            2222       33332             37899999987652211222334444433    799999999999864332


Q ss_pred             cC--HHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          135 VA--AEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       135 ~~--~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ..  ...+.......+++++++|+.++.|+++++++|.+.
T Consensus       162 ~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~  201 (274)
T 3t5d_A          162 CQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  201 (274)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcC
Confidence            21  123455566778999999999999999999888764

>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=3.5e-21  Score=158.54  Aligned_cols=160  Identities=19%  Similarity=0.207  Sum_probs=107.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccc-----------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAI-----------   77 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------   77 (217)
                      +..++|+|+|++|||||||+|+|.+.... ....++.+.+.....+.+++.  .+.+|||+|.......           
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHH
Confidence            34589999999999999999999987653 222333344444556677776  4679999996432211           


Q ss_pred             -hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH-HHHH----HcCCeE
Q 042687           78 -TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ-ILAE----KEGLSF  151 (217)
Q Consensus        78 -~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~~  151 (217)
                       ...++..+|++++++|+++..+.... .+...+..   .++|+++++||+|+.+.+.....+.. .+..    ..++++
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             12456789999999999876554432 23333333   28999999999998764443333332 2222    235789


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 042687          152 LETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       152 ~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +++||++|.|++++|+.+.+.+.+
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            999999999999999999886654

>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=99.86  E-value=5.8e-21  Score=152.26  Aligned_cols=118  Identities=17%  Similarity=0.199  Sum_probs=93.6

Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCC
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT----------KRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKS  127 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~----------~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~  127 (217)
                      ..+++++|||+|++.++..|..++++++++|+|||++          +.++++....|+..+.... ..++|++||+||+
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            5688999999999999999999999999999999998          7788999888888877643 2479999999999


Q ss_pred             CCccccc--c-------------------CHHHHHHHHHH----------------cCCeEEEecCCCCCCHHHHHHHHH
Q 042687          128 DLNHLRA--V-------------------AAEDAQILAEK----------------EGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus       128 Dl~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |+...+.  +                   ..+++..++..                ..+.+++|||+++.||+++|.++.
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            9854321  1                   13455555432                124578999999999999999999


Q ss_pred             HHHHHH
Q 042687          171 LDIYHI  176 (217)
Q Consensus       171 ~~~~~~  176 (217)
                      +.+.+.
T Consensus       341 ~~I~~~  346 (354)
T 2xtz_A          341 ETLRRR  346 (354)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.86  E-value=1.2e-23  Score=175.56  Aligned_cols=157  Identities=15%  Similarity=0.172  Sum_probs=113.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .++|+|+|++++|||||+++|.+..+.....++.+.+.....+..++ ...+.+|||||++.|..++..++..+|++|+|
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILV   82 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVILV   82 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEEE
Confidence            47899999999999999999998877655555544444433333321 12578999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHH---HHHc--CCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQIL---AEKE--GLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~---~~~~--~~~~~~vSa~~~~gv~~~  165 (217)
                      +|+++....+..+.| ..+..   .++|+++++||+|+.+..... ..+...+   +..+  .++++++||++|.|++++
T Consensus        83 VDa~dg~~~qt~e~l-~~~~~---~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eL  158 (537)
T 3izy_P           83 VAADDGVMKQTVESI-QHAKD---AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMAL  158 (537)
T ss_dssp             CBSSSCCCHHHHHHH-HHHHT---TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHH
T ss_pred             EECCCCccHHHHHHH-HHHHH---cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhH
Confidence            999986555444333 23332   378999999999986432111 1122211   1112  257999999999999999


Q ss_pred             HHHHHHHH
Q 042687          166 FQTILLDI  173 (217)
Q Consensus       166 ~~~l~~~~  173 (217)
                      |++|...+
T Consensus       159 le~I~~l~  166 (537)
T 3izy_P          159 AEATIALA  166 (537)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99998754

>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=99.86  E-value=1.3e-21  Score=162.81  Aligned_cols=151  Identities=16%  Similarity=0.122  Sum_probs=98.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-------------------------------cCCCCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-------------------------------LESKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-------------------------------~~~~~t~~~~~~~~~~~~~~~   59 (217)
                      ..+||+++|++++|||||+++|++....                               ....+..+.+.....+...  
T Consensus        32 ~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--  109 (483)
T 3p26_A           32 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH--  109 (483)
T ss_dssp             CEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECS--
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecC--
Confidence            4699999999999999999999765110                               0111122222333333333  


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHH------HHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN------VTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~------~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      .+.+.||||||++.|...+..++..+|++|+|+|+++......      ..+.+..+... . ..|+++|+||+|+.+.+
T Consensus       110 ~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~-~~~iIvviNK~Dl~~~~  187 (483)
T 3p26_A          110 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-G-IHNLIIAMNKMDNVDWS  187 (483)
T ss_dssp             SCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-T-CCCEEEEEECGGGGTTC
T ss_pred             CceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-C-CCcEEEEEECcCcccch
Confidence            3578899999999999999999999999999999998643221      22222222222 1 35699999999997633


Q ss_pred             ccCHH----HHHHHHHHc-----CCeEEEecCCCCCCHHHH
Q 042687          134 AVAAE----DAQILAEKE-----GLSFLETSALEALNVEKA  165 (217)
Q Consensus       134 ~~~~~----~~~~~~~~~-----~~~~~~vSa~~~~gv~~~  165 (217)
                      ....+    ++..+....     +++++++||++|.|++++
T Consensus       188 ~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          188 QQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            22222    233344333     357999999999999864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.86  E-value=8.5e-22  Score=144.78  Aligned_cols=116  Identities=21%  Similarity=0.341  Sum_probs=88.1

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccC---CCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC-
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE---SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG-   84 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~-   84 (217)
                      ....++|+|+|++|||||||+++|.+..+...   ..++.+.++         ..+.+.+||+||++.+...+..++.. 
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            45678999999999999999999999876431   222222111         33467899999999888888777765 


Q ss_pred             ---CcEEEEEEeCC-ChhhHHHHHHHHHHHHhh----cCCCCeEEEEEeCCCCcccc
Q 042687           85 ---AVGALLVYDIT-KRQTFDNVTRWLRELRDH----ADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        85 ---~d~ii~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~Dl~~~~  133 (217)
                         +|++|+|||++ +++++..+..|+..+...    ...++|+++|+||+|+...+
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 899999988888776554    23489999999999997644

>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=99.86  E-value=9.9e-21  Score=148.99  Aligned_cols=125  Identities=14%  Similarity=0.161  Sum_probs=99.2

Q ss_pred             EEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHhhc-CCCC
Q 042687           50 ATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT----------KRQTFDNVTRWLRELRDHA-DSNI  118 (217)
Q Consensus        50 ~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~----------~~~s~~~~~~~~~~i~~~~-~~~~  118 (217)
                      ....+.+++  +++++||++|++.++..|..++++++++|+|||++          +.+++.....|+..+.... ..++
T Consensus       158 ~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~  235 (327)
T 3ohm_A          158 IEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNS  235 (327)
T ss_dssp             EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTC
T ss_pred             EEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCc
Confidence            334445554  67899999999999999999999999999999665          5667777777777765543 2479


Q ss_pred             eEEEEEeCCCCcccc----------------ccCHHHHHHHHH----------HcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          119 VIMMAGNKSDLNHLR----------------AVAAEDAQILAE----------KEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       119 p~ivv~nK~Dl~~~~----------------~~~~~~~~~~~~----------~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |+++++||+|+...+                ....+++..+..          ..++.+++|||+++.|++.+|..+.+.
T Consensus       236 ~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~  315 (327)
T 3ohm_A          236 SVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDT  315 (327)
T ss_dssp             EEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             eEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHH
Confidence            999999999986533                356677777642          355778999999999999999999998


Q ss_pred             HHHH
Q 042687          173 IYHI  176 (217)
Q Consensus       173 ~~~~  176 (217)
                      +++.
T Consensus       316 Il~~  319 (327)
T 3ohm_A          316 ILQL  319 (327)
T ss_dssp             HHHT
T ss_pred             HHHH
Confidence            8763

>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=99.86  E-value=2.2e-22  Score=161.55  Aligned_cols=160  Identities=17%  Similarity=0.309  Sum_probs=88.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCC--------CCcceeeEEEEEEECCeEEEEEEEecCCh-------hhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC-LESK--------STIGVEFATRTLQVEGKTVKAQIWDTAGQ-------ERY   74 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~   74 (217)
                      ..++|+|+|++|+|||||+++|.+.... ..+.        +|.+.......+..++..+.+++|||||.       +.+
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            4589999999999999999998765332 2221        33333333333444666778999999998       666


Q ss_pred             ccchh-------hhhcCCcE-----------EEEEEeCCC-hhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           75 RAITS-------AYYRGAVG-----------ALLVYDITK-RQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        75 ~~~~~-------~~~~~~d~-----------ii~v~d~~~-~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      ..++.       .++..+++           .+++|++++ ..++..+. .|+..+    ..++|+++|+||+|+...+.
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~e  191 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKE  191 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHH
Confidence            66665       55543332           234444443 33444443 344333    24799999999999976554


Q ss_pred             cCH--HHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          135 VAA--EDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       135 ~~~--~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +..  .++..++...+++++++||+++.+ ++.|.++.+.+.+
T Consensus       192 v~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~  233 (361)
T 2qag_A          192 RERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKA  233 (361)
T ss_dssp             HHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHh
Confidence            433  456677777889999999999999 8889888887743

>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=99.86  E-value=1.5e-21  Score=158.84  Aligned_cols=159  Identities=16%  Similarity=0.109  Sum_probs=107.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcc-------ccC--CC-----CCcceeeEEEEEEECCeEEEEEEEecCChhhhcc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEF-------CLE--SK-----STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA   76 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~-------~~~--~~-----~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   76 (217)
                      +.++|+++|+.++|||||+++|.+...       ...  .+     ...+.+.......+......+.+|||||++.|..
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            358999999999999999999987411       000  00     0112222222223333335678999999999988


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccc---cCHHHHHHHHHHcC----
Q 042687           77 ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRA---VAAEDAQILAEKEG----  148 (217)
Q Consensus        77 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~---~~~~~~~~~~~~~~----  148 (217)
                      .+..++..+|++|+|+|+++....+..+.| ..+...   ++| +++++||+|+.....   ....++..++...+    
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~~---~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~  157 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQI---GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGE  157 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHHT---TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHHc---CCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcc
Confidence            888899999999999999985444433333 333333   788 789999999874221   11245666776665    


Q ss_pred             -CeEEEecCCCCCC----------HHHHHHHHHHHH
Q 042687          149 -LSFLETSALEALN----------VEKAFQTILLDI  173 (217)
Q Consensus       149 -~~~~~vSa~~~~g----------v~~~~~~l~~~~  173 (217)
                       ++++++||++|.|          +.++++.|.+.+
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             5899999999764          667777665543

>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=99.86  E-value=3.1e-21  Score=158.63  Aligned_cols=155  Identities=24%  Similarity=0.233  Sum_probs=105.9

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccc--cC----------CCCC---------------------cceeeEEEEE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFC--LE----------SKST---------------------IGVEFATRTL   54 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~--~~----------~~~t---------------------~~~~~~~~~~   54 (217)
                      .....++|+++|+.++|||||+++|++....  ..          ...+                     .+.+.....+
T Consensus        20 ~~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~   99 (434)
T 1zun_B           20 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   99 (434)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEe
Confidence            3456799999999999999999999865311  00          0011                     1112222223


Q ss_pred             EECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCC-eEEEEEeCCCCcccc
Q 042687           55 QVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNI-VIMMAGNKSDLNHLR  133 (217)
Q Consensus        55 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p~ivv~nK~Dl~~~~  133 (217)
                      ..++  ..+.+|||||++.|...+..++..+|++|+|+|+++....+. .+++..+...   +. |+++|+||+|+.+..
T Consensus       100 ~~~~--~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt-~~~l~~~~~~---~~~~iIvviNK~Dl~~~~  173 (434)
T 1zun_B          100 STAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASLL---GIKHIVVAINKMDLNGFD  173 (434)
T ss_dssp             ECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCEEEEEEECTTTTTSC
T ss_pred             ecCC--ceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEEcCcCCccc
Confidence            3333  568899999999998888889999999999999988643222 3344444333   44 699999999997521


Q ss_pred             c--c--CHHHHHHHHHHcC-----CeEEEecCCCCCCHHHHHHH
Q 042687          134 A--V--AAEDAQILAEKEG-----LSFLETSALEALNVEKAFQT  168 (217)
Q Consensus       134 ~--~--~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~~~~  168 (217)
                      .  .  ...+...++..++     ++++++||++|.|+++++..
T Consensus       174 ~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~~  217 (434)
T 1zun_B          174 ERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSER  217 (434)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCTT
T ss_pred             HHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccccc
Confidence            1  1  1345566677777     68999999999999986443

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.86  E-value=4.4e-21  Score=160.50  Aligned_cols=116  Identities=17%  Similarity=0.125  Sum_probs=83.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCc------------------cccC----CCCCcceeeEEEEEEECCeEEEEEEEe
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNE------------------FCLE----SKSTIGVEFATRTLQVEGKTVKAQIWD   67 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~------------------~~~~----~~~t~~~~~~~~~~~~~~~~~~~~i~D   67 (217)
                      +...+|+|+|++|+|||||+++|+...                  ....    ..+..+.......+...+  +.+++||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~liD   88 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLINLLD   88 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEEEEC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEEEEE
Confidence            456899999999999999999996211                  1000    001122223333444454  5678999


Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |||+..|...+..++..+|++|+|+|+++.........| ..+..   .++|+++|+||+|+..
T Consensus        89 TPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~~~---~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           89 TPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVCRL---RHTPIMTFINKMDRDT  148 (528)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHHHT---TTCCEEEEEECTTSCC
T ss_pred             CCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEeCCCCcc
Confidence            999999999999999999999999999987666665444 33333   3799999999999854

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.85  E-value=2.4e-21  Score=155.79  Aligned_cols=147  Identities=11%  Similarity=0.088  Sum_probs=106.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      +|+++|++++|||||+++|.      ....|.  +.....+..++  ..+.+|||||++.|.......+..+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi--~~~~~~~~~~~--~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSS--DITMYNNDKEG--RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEES--SSEEEEECSSS--SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEE--EeeEEEEecCC--eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998      112222  22223333333  468899999999998888888899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCeE-EEEEe-CCCCccccccCH--HHHHHHHHHc---CCeEEE--ecCCC---CCC
Q 042687           94 ITKRQTFDNVTRWLRELRDHADSNIVI-MMAGN-KSDLNHLRAVAA--EDAQILAEKE---GLSFLE--TSALE---ALN  161 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~n-K~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~--vSa~~---~~g  161 (217)
                       ++ .......+++..+...   ++|. ++++| |+|+ +.+....  +++..++...   .+++++  +||++   +.|
T Consensus        93 -~~-g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQ-GLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TT-CCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CC-CCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             54 3334445555555444   6777 88899 9999 5332222  3455555444   368999  99999   999


Q ss_pred             HHHHHHHHHHHHHHH
Q 042687          162 VEKAFQTILLDIYHI  176 (217)
Q Consensus       162 v~~~~~~l~~~~~~~  176 (217)
                      ++++++.|.+.+...
T Consensus       167 i~~L~~~l~~~~~~~  181 (370)
T 2elf_A          167 VDELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccc
Confidence            999999999876544

>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=99.85  E-value=1.2e-21  Score=159.91  Aligned_cols=148  Identities=18%  Similarity=0.139  Sum_probs=102.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC--------ccccC--CC-----CCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN--------EFCLE--SK-----STIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~--------~~~~~--~~-----~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      ...++|+++|++++|||||+++|.+.        .+...  .+     .+.+.+.......+......+.+|||||++.|
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHH
Confidence            45699999999999999999999873        11110  00     01122222222333333356789999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccc---cCHHHHHHHHHHcC--
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRA---VAAEDAQILAEKEG--  148 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~---~~~~~~~~~~~~~~--  148 (217)
                      ...+..++..+|++|+|+|+++....+ ..+|+..+...   ++| +++++||+|+.....   ....++..++...+  
T Consensus        89 ~~~~~~~~~~aD~~ilVvda~~g~~~q-t~~~l~~~~~~---~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  164 (405)
T 2c78_A           89 IKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFP  164 (405)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCHH-HHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcHH-HHHHHHHHHHc---CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhccc
Confidence            888888999999999999998865433 34455555443   788 889999999974221   11234566666665  


Q ss_pred             ---CeEEEecCCCCCC
Q 042687          149 ---LSFLETSALEALN  161 (217)
Q Consensus       149 ---~~~~~vSa~~~~g  161 (217)
                         ++++++||++|.|
T Consensus       165 ~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          165 GDEVPVIRGSALLALE  180 (405)
T ss_dssp             TTTSCEEECCHHHHHH
T ss_pred             ccCCCEEEccHHHhhh
Confidence               6899999999977

>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=99.84  E-value=1.6e-20  Score=159.00  Aligned_cols=156  Identities=19%  Similarity=0.187  Sum_probs=104.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCC----CCcceeeEEEEE------------EECCeEEEEEEEecCChhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESK----STIGVEFATRTL------------QVEGKTVKAQIWDTAGQERYR   75 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~----~t~~~~~~~~~~------------~~~~~~~~~~i~D~~G~~~~~   75 (217)
                      .++|+|+|+.++|||||+++|.+..+.....    .+.+..+.....            .++.....+++|||||++.|.
T Consensus         5 ~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~   84 (594)
T 1g7s_A            5 SPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFT   84 (594)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCT
T ss_pred             CcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHH
Confidence            4799999999999999999998765533211    122211111000            000011247899999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-------------H--
Q 042687           76 AITSAYYRGAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-------------A--  137 (217)
Q Consensus        76 ~~~~~~~~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-------------~--  137 (217)
                      .++..++..+|++|+|+|+++   +++++.+.    .+..   .++|+++++||+|+.......             .  
T Consensus        85 ~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~----~l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v  157 (594)
T 1g7s_A           85 TLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQV  157 (594)
T ss_dssp             TSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH----HHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHH
T ss_pred             HHHHHHHhhCCEEEEEEECCCCccHhHHHHHH----HHHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHHH
Confidence            999989999999999999998   56655443    2222   389999999999986422100             0  


Q ss_pred             -H-------HHHHHHHHcC---------------CeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          138 -E-------DAQILAEKEG---------------LSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       138 -~-------~~~~~~~~~~---------------~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                       .       +........+               ++++++||++|.|+++++++|...+.
T Consensus       158 ~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          158 QQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence             0       1111111222               37999999999999999999988664

>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=99.84  E-value=2.4e-21  Score=159.29  Aligned_cols=154  Identities=17%  Similarity=0.214  Sum_probs=102.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC--ccccC-----------------------------CCCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN--EFCLE-----------------------------SKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~--~~~~~-----------------------------~~~t~~~~~~~~~~~~~~~   59 (217)
                      ..++|+++|+.++|||||+++|+..  .+...                             ..+..+.+.....+..  .
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~--~   82 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET--K   82 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC--S
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEec--C
Confidence            4589999999999999999999864  22111                             0111222222222333  3


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc----CCCC-eEEEEEeCCCCcccc-
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA----DSNI-VIMMAGNKSDLNHLR-  133 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~-p~ivv~nK~Dl~~~~-  133 (217)
                      .+.+.+|||||++.|...+..++..+|++|+|+|+++ .+++....|.....++.    ..++ |+++++||+|+.+.. 
T Consensus        83 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~  161 (435)
T 1jny_A           83 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  161 (435)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccc
Confidence            3568899999999999999999999999999999998 56664332222221111    1144 589999999997521 


Q ss_pred             -----ccCHHHHHHHHHHcC-----CeEEEecCCCCCCHHHHHH
Q 042687          134 -----AVAAEDAQILAEKEG-----LSFLETSALEALNVEKAFQ  167 (217)
Q Consensus       134 -----~~~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~~~  167 (217)
                           ....+++..++...+     ++++++||++|.|+.+++.
T Consensus       162 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          162 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence                 112345667776665     6799999999999986654

>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=99.83  E-value=5.1e-21  Score=158.13  Aligned_cols=150  Identities=15%  Similarity=0.145  Sum_probs=101.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC--ccccC-----------------------------CCCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN--EFCLE-----------------------------SKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~--~~~~~-----------------------------~~~t~~~~~~~~~~~~~~~   59 (217)
                      ..++|+++|++++|||||+++|++.  .+...                             .....+.+.....+..++ 
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~-   84 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK-   84 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS-
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC-
Confidence            5599999999999999999999864  11110                             001122222223333343 


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhh---HH---HHHHHHHHHHhhcCCCCe-EEEEEeCCCCcc-
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQT---FD---NVTRWLRELRDHADSNIV-IMMAGNKSDLNH-  131 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~-  131 (217)
                       ..+.+|||||++.|...+..++..+|++|+|+|+++...   |+   ...+++..+...   ++| +++++||+|+.+ 
T Consensus        85 -~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~---~v~~iivviNK~Dl~~~  160 (458)
T 1f60_A           85 -YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSVKW  160 (458)
T ss_dssp             -EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGGTT
T ss_pred             -ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHc---CCCeEEEEEEccccccC
Confidence             578899999999999989999999999999999987532   21   222222233322   565 899999999973 


Q ss_pred             -ccc--cCHHHHHHHHHHcC-----CeEEEecCCCCCCHHHH
Q 042687          132 -LRA--VAAEDAQILAEKEG-----LSFLETSALEALNVEKA  165 (217)
Q Consensus       132 -~~~--~~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~  165 (217)
                       ...  ...+++..++...+     ++++++||++|.|+.++
T Consensus       161 ~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          161 DESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence             111  12234556666665     68999999999999754

>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=99.83  E-value=3.2e-20  Score=138.17  Aligned_cols=156  Identities=19%  Similarity=0.205  Sum_probs=99.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh----------hhccch
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE----------RYRAIT   78 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~   78 (217)
                      .....+|+|+|++|||||||+++|.+..+.....++.+.......+.+++   .+.+||+||..          .+....
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   99 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRAL   99 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHH
Confidence            34568999999999999999999998764333344444443333333333   45699999963          223333


Q ss_pred             hhhh---cCCcEEEEEEeCCChhhHHH--HHHHHHHHHhhcCCCCeEEEEEeCCCCccccc--cCHHHHHHHHHHcC--C
Q 042687           79 SAYY---RGAVGALLVYDITKRQTFDN--VTRWLRELRDHADSNIVIMMAGNKSDLNHLRA--VAAEDAQILAEKEG--L  149 (217)
Q Consensus        79 ~~~~---~~~d~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~--~  149 (217)
                      ..++   ..++++++++|++++.+...  +..|+.   .   .+.|+++++||+|+....+  .....+..++...+  +
T Consensus       100 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~---~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~  173 (210)
T 1pui_A          100 GEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV---D---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDV  173 (210)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---H---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCE
T ss_pred             HHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH---H---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCC
Confidence            3344   57899999999987654332  233332   2   2789999999999865321  11234555555554  5


Q ss_pred             eEEEecCCCCCCHHHHHHHHHHHH
Q 042687          150 SFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       150 ~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .++++|++++.|+++++++|.+.+
T Consensus       174 ~~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          174 QVETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ceEEEeecCCCCHHHHHHHHHHHH
Confidence            788999999999999999998765

>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=99.83  E-value=3.4e-21  Score=159.36  Aligned_cols=152  Identities=16%  Similarity=0.159  Sum_probs=99.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCC--------hhhhccchhhhhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG--------QERYRAITSAYYR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~~~   83 (217)
                      ..+|+|+|.+|||||||+|+|.+..+.... .+.+.+..............+.+|||||        ++.+......++.
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~-~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~  101 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERISIVE-DTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD  101 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCcccC-CCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHh
Confidence            479999999999999999999987765222 2233334333444444445788999999        7778888888999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCC-eEEEecCCCCCCH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGL-SFLETSALEALNV  162 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~vSa~~~~gv  162 (217)
                      .+|++|+|+|..+.....  ..|+..+...  .++|+++|+||+|+....    ....++. ..+. .++++||++|.|+
T Consensus       102 ~ad~il~VvD~~~~~~~~--d~~l~~~l~~--~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv  172 (456)
T 4dcu_A          102 EADVIIFMVNGREGVTAA--DEEVAKILYR--TKKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGL  172 (456)
T ss_dssp             HCSEEEEEEESSSCSCHH--HHHHHHHHTT--CCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTH
T ss_pred             hCCEEEEEEeCCCCCChH--HHHHHHHHHH--cCCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccch
Confidence            999999999987643322  2233332222  389999999999986422    1111111 2233 5689999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          163 EKAFQTILLDI  173 (217)
Q Consensus       163 ~~~~~~l~~~~  173 (217)
                      +++++++.+.+
T Consensus       173 ~~L~~~i~~~l  183 (456)
T 4dcu_A          173 GDLLDAVAEHF  183 (456)
T ss_dssp             HHHHHHHHTTG
T ss_pred             HHHHHHHHhhc
Confidence            99999997754

>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=99.83  E-value=1.6e-20  Score=166.27  Aligned_cols=159  Identities=16%  Similarity=0.107  Sum_probs=105.7

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCcc-------cc-------CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEF-------CL-------ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~-------~~-------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      ..+.++|+++|+.++|||||+++|.+...       ..       ....+.+.+.....+.++.....+.+|||||++.|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            34569999999999999999999986411       00       00112222222122233333457889999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccc---cCHHHHHHHHHHcC--
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRA---VAAEDAQILAEKEG--  148 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~---~~~~~~~~~~~~~~--  148 (217)
                      ...+..++..+|++|+|+|+++....+. .+++..+...   ++| ++|++||+|+.+...   ...+++..++...+  
T Consensus       373 ~~~mi~gas~AD~aILVVDAtdGv~~QT-rEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~  448 (1289)
T 3avx_A          373 VKNMITGAAQMDGAILVVAATDGPMPQT-REHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFP  448 (1289)
T ss_dssp             HHHHHHTSCCCSEEEEEEETTTCSCTTH-HHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHhhCCEEEEEEcCCccCcHHH-HHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhcccc
Confidence            9888889999999999999988643332 3344444443   788 789999999975221   11245666776665  


Q ss_pred             ---CeEEEecCCCC--------CCHHHHHHHHHH
Q 042687          149 ---LSFLETSALEA--------LNVEKAFQTILL  171 (217)
Q Consensus       149 ---~~~~~vSa~~~--------~gv~~~~~~l~~  171 (217)
                         ++++++||++|        .|+.++++.|.+
T Consensus       449 ~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~  482 (1289)
T 3avx_A          449 GDDTPIVRGSALKALEGDAEWEAKILELAGFLDS  482 (1289)
T ss_dssp             TTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             ccceeEEEEEeccCCCCCccccccchhhHhHHhh
Confidence               68999999999        346666666654

>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=99.83  E-value=2.9e-21  Score=160.00  Aligned_cols=155  Identities=16%  Similarity=0.151  Sum_probs=89.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC--ccccC-----------------------------CCCCcceeeEEEEEEECC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN--EFCLE-----------------------------SKSTIGVEFATRTLQVEG   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~--~~~~~-----------------------------~~~t~~~~~~~~~~~~~~   58 (217)
                      ...++|+++|+.++|||||+++|+..  .+...                             .....+.+.....+..++
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~  120 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  120 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC
Confidence            45689999999999999999999752  21100                             001111122222333343


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccc-
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ---TFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLR-  133 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~-  133 (217)
                        ..+.+|||||++.|...+...+..+|++|+|+|+++..   +|+....|...+......++| ++|++||+|+.... 
T Consensus       121 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          121 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             --eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence              56889999999999998888999999999999999853   222111111111111122677 99999999995411 


Q ss_pred             -----ccCHHHHHHHHHHc-------CCeEEEecCCCCCCHHHHH
Q 042687          134 -----AVAAEDAQILAEKE-------GLSFLETSALEALNVEKAF  166 (217)
Q Consensus       134 -----~~~~~~~~~~~~~~-------~~~~~~vSa~~~~gv~~~~  166 (217)
                           .....++..++...       +++++++||++|.|+.+++
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                 11123456666555       4679999999999998866

>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=99.83  E-value=6.4e-20  Score=144.89  Aligned_cols=116  Identities=16%  Similarity=0.158  Sum_probs=93.3

Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCC
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIT----------KRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSD  128 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~----------~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D  128 (217)
                      .+++++||++|++.++..|..++++++++|+|||++          +.+++.....|+..+.... ..++|++|++||+|
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            367899999999999999999999999999999998          6778888888887776543 35899999999999


Q ss_pred             Cccccc---------------cCHHHHHHHHH-H--------------------------cCCeEEEecCCCCCCHHHHH
Q 042687          129 LNHLRA---------------VAAEDAQILAE-K--------------------------EGLSFLETSALEALNVEKAF  166 (217)
Q Consensus       129 l~~~~~---------------~~~~~~~~~~~-~--------------------------~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +...+.               ...+++..++. .                          ..+.++++||+++.++..+|
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            853210               13445544332 2                          24778999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          167 QTILLDIYH  175 (217)
Q Consensus       167 ~~l~~~~~~  175 (217)
                      ..+.+.+++
T Consensus       320 ~~v~~~Il~  328 (340)
T 4fid_A          320 MLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999876

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.83  E-value=1e-20  Score=160.89  Aligned_cols=150  Identities=16%  Similarity=0.167  Sum_probs=100.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-------------------------------CCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-------------------------------KSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-------------------------------~~t~~~~~~~~~~~~~~~   59 (217)
                      ..++|+++|++|+|||||+++|++.......                               .+..+.+.....+...+ 
T Consensus       166 ~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~-  244 (611)
T 3izq_1          166 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR-  244 (611)
T ss_dssp             CCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS-
T ss_pred             CceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC-
Confidence            4689999999999999999999876332111                               01222233333333443 


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhh---H---HHHHHHHHHHHhhcCCC-CeEEEEEeCCCCccc
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQT---F---DNVTRWLRELRDHADSN-IVIMMAGNKSDLNHL  132 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~-~p~ivv~nK~Dl~~~  132 (217)
                       +.+.||||||++.|...+..++..+|++|+|+|+++...   +   ......+..+...   + .|++||+||+|+.+.
T Consensus       245 -~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l---gi~~iIVVvNKiDl~~~  320 (611)
T 3izq_1          245 -ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL---GIHNLIIAMNKMDNVDW  320 (611)
T ss_dssp             -CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT---TCCEEEEEEECTTTTTT
T ss_pred             -ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc---CCCeEEEEEecccccch
Confidence             567899999999999999999999999999999987421   0   1112222222222   4 459999999999752


Q ss_pred             cccC----HHHHHHHHHHcC-----CeEEEecCCCCCCHHHH
Q 042687          133 RAVA----AEDAQILAEKEG-----LSFLETSALEALNVEKA  165 (217)
Q Consensus       133 ~~~~----~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~~  165 (217)
                      ....    ..++..+....+     ++++++||++|.|+.++
T Consensus       321 ~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          321 SQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             hHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2211    223444444443     58999999999999876

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.82  E-value=3.7e-21  Score=150.83  Aligned_cols=160  Identities=13%  Similarity=0.113  Sum_probs=102.7

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCC------CCC----------------------ccee-----------
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES------KST----------------------IGVE-----------   48 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~------~~t----------------------~~~~-----------   48 (217)
                      +....++|+|+|.+|||||||+|+|++..+.+..      .++                      .+.+           
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            3446689999999999999999999998874221      121                      0000           


Q ss_pred             ------------eEEEEEEECCeEEEEEEEecCChh-------------hhccchhhhhcCCcEEE-EEEeCCChhhHHH
Q 042687           49 ------------FATRTLQVEGKTVKAQIWDTAGQE-------------RYRAITSAYYRGAVGAL-LVYDITKRQTFDN  102 (217)
Q Consensus        49 ------------~~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii-~v~d~~~~~s~~~  102 (217)
                                  .....+... ....+.+|||||..             .+..+...++..++.+| +|+|+++..+...
T Consensus       102 ~i~g~~~gi~~~~~~~~~~~~-~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~  180 (299)
T 2aka_B          102 RVTGTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD  180 (299)
T ss_dssp             HHCSSTTCCCSCCEEEEEEET-TCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCH
T ss_pred             HhcccCCCccccceEEEEeCC-CCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhH
Confidence                        000000111 02468899999953             45566677888888776 6999987544333


Q ss_pred             HHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH--cC-CeEEEecCCCCCCHHHHHHHHHH
Q 042687          103 VTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK--EG-LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       103 ~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~--~~-~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ...++..+.   ..+.|+++|+||+|+.+........+......  .+ .+++++||++|.|++++|++|.+
T Consensus       181 ~~~~~~~~~---~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~  249 (299)
T 2aka_B          181 ALKIAKEVD---PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  249 (299)
T ss_dssp             HHHHHHHHC---TTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHH
T ss_pred             HHHHHHHhC---CCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHH
Confidence            334444443   34789999999999975433222222210001  12 36889999999999999999876

>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=99.82  E-value=3.7e-22  Score=165.25  Aligned_cols=155  Identities=17%  Similarity=0.241  Sum_probs=105.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..++|+++|+.++|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||++.|..++...+..+|++|+
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            347899999999999999999988665443333222222222223344  357799999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc--ccCHH--HHHHHHHHcC--CeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR--AVAAE--DAQILAEKEG--LSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~--~~~~~~~~~~--~~~~~vSa~~~~gv~~  164 (217)
                      |+|+++....+..+. +..+..   .++|+++++||+|+....  .+...  +...++..++  ++++++||++|.|+++
T Consensus        81 VVda~~g~~~qT~e~-l~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~e  156 (501)
T 1zo1_I           81 VVAADDGVMPQTIEA-IQHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDE  156 (501)
T ss_dssp             EEETTTBSCTTTHHH-HHHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTT
T ss_pred             EeecccCccHHHHHH-HHHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcch
Confidence            999987322222222 222222   278999999999996421  11100  0001112222  6899999999999999


Q ss_pred             HHHHHHH
Q 042687          165 AFQTILL  171 (217)
Q Consensus       165 ~~~~l~~  171 (217)
                      +|++|..
T Consensus       157 Lle~I~~  163 (501)
T 1zo1_I          157 LLDAILL  163 (501)
T ss_dssp             HHHHTTT
T ss_pred             hhhhhhh
Confidence            9999864

>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=99.81  E-value=1.6e-19  Score=155.27  Aligned_cols=118  Identities=14%  Similarity=0.106  Sum_probs=82.1

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC----------------CcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS----------------TIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~----------------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      .+...+|+|+|+.|+|||||+++|.+.........                ..+.++......+....+.+++|||||+.
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~   85 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSG
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCcc
Confidence            45668999999999999999999985332211000                01122222222222234678899999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      .|...+..++..+|++++|+|+++...... ..++..+...   ++|+++++||+|+.
T Consensus        86 ~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~~---~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           86 DFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAERL---GLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCEEEEEECGGGC
T ss_pred             chHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHHc---cCCEEEEecCCchh
Confidence            998889999999999999999877544333 2444444443   79999999999986

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.81  E-value=5e-19  Score=152.77  Aligned_cols=165  Identities=15%  Similarity=0.175  Sum_probs=109.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcce--------eeE-------------------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGV--------EFA-------------------------------   50 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~--------~~~-------------------------------   50 (217)
                      ..++|+|+|.+|+|||||+|+|.+..+.+.. .+++..        ...                               
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            4689999999999999999999988765432 232210        000                               


Q ss_pred             --------------EEEEEECCeE--EEEEEEecCChhh---hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHH
Q 042687           51 --------------TRTLQVEGKT--VKAQIWDTAGQER---YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR  111 (217)
Q Consensus        51 --------------~~~~~~~~~~--~~~~i~D~~G~~~---~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~  111 (217)
                                    ...+......  ..+.+|||||...   ....+..++..+|++|+|+|++++.+......|...+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~  227 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIK  227 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHH
Confidence                          0000111000  2478999999654   34456678899999999999998877776665654443


Q ss_pred             hhcCCCCeEEEEEeCCCCccccccCH---H-------HHHH-----HHHH--------cCCeEEEecCC-----------
Q 042687          112 DHADSNIVIMMAGNKSDLNHLRAVAA---E-------DAQI-----LAEK--------EGLSFLETSAL-----------  157 (217)
Q Consensus       112 ~~~~~~~p~ivv~nK~Dl~~~~~~~~---~-------~~~~-----~~~~--------~~~~~~~vSa~-----------  157 (217)
                      .   .+.|+++|+||+|+........   +       .+..     +...        ...+++++||+           
T Consensus       228 ~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~  304 (695)
T 2j69_A          228 G---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQ  304 (695)
T ss_dssp             T---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTT
T ss_pred             h---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCch
Confidence            3   2678999999999865331111   0       1111     1111        12469999999           


Q ss_pred             ---CCCCHHHHHHHHHHHHHHHHH
Q 042687          158 ---EALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       158 ---~~~gv~~~~~~l~~~~~~~~~  178 (217)
                         ++.|+++++.+|.+.+.+...
T Consensus       305 ~~~~~~Gi~~L~~~L~~~l~~~~~  328 (695)
T 2j69_A          305 ADLDGTGFPKFMDSLNTFLTRERA  328 (695)
T ss_dssp             CCCTTSSHHHHHHHHHHHHHHTHH
T ss_pred             hhhhccCHHHHHHHHHHHHHHhHH
Confidence               999999999999987765433

>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=99.80  E-value=2.4e-19  Score=154.71  Aligned_cols=123  Identities=22%  Similarity=0.202  Sum_probs=89.0

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccc--------c------------CCCCCcceeeEEEEEEECCeE
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFC--------L------------ESKSTIGVEFATRTLQVEGKT   60 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~--------~------------~~~~t~~~~~~~~~~~~~~~~   60 (217)
                      |+.....+.+...+|+|+|+.|+|||||+++|+.....        .            ....|  .......+...+  
T Consensus         1 M~~~l~~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giT--i~~~~~~~~~~~--   76 (691)
T 1dar_A            1 MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGIT--ITAAVTTCFWKD--   76 (691)
T ss_dssp             CCTTCCCCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC------------------------------CCEEEEEETT--
T ss_pred             CCccccCccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccc--cccceEEEEECC--
Confidence            56555666778899999999999999999999842110        0            11112  122222333343  


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      +.+++|||||+..|...+..++..+|++|+|+|+++..+......|.. +...   ++|+++++||+|+..
T Consensus        77 ~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~~---~~p~ivviNKiD~~~  143 (691)
T 1dar_A           77 HRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY---KVPRIAFANKMDKTG  143 (691)
T ss_dssp             EEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT---TCCEEEEEECTTSTT
T ss_pred             eEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHHc---CCCEEEEEECCCccc
Confidence            578899999999999899999999999999999998777766655543 3332   899999999999854

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.80  E-value=1.5e-20  Score=159.44  Aligned_cols=150  Identities=22%  Similarity=0.200  Sum_probs=82.6

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccc-------------------------------cCCCCCcceeeEEEEEEEC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFC-------------------------------LESKSTIGVEFATRTLQVE   57 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~-------------------------------~~~~~t~~~~~~~~~~~~~   57 (217)
                      ....++|+|+|++++|||||+++|+.....                               ....+.++.+.....+.. 
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-  252 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-  252 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-
Confidence            346689999999999999999999642111                               001112222222223333 


Q ss_pred             CeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHhhcCCCCe-EEEEEeCCCCc
Q 042687           58 GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ---TF---DNVTRWLRELRDHADSNIV-IMMAGNKSDLN  130 (217)
Q Consensus        58 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~  130 (217)
                       ....+.||||||++.|...+...+..+|++|+|+|+++..   .+   ......+..+...   ++| +++|+||+|+.
T Consensus       253 -~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l---gip~iIvviNKiDl~  328 (592)
T 3mca_A          253 -DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL---GISEIVVSVNKLDLM  328 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS---SCCCEEEEEECGGGG
T ss_pred             -CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc---CCCeEEEEEeccccc
Confidence             3357889999999999998888999999999999998532   11   1111222223322   665 89999999986


Q ss_pred             cccccC----HHHHHHHH-HHcCC-----eEEEecCCCCCCHH
Q 042687          131 HLRAVA----AEDAQILA-EKEGL-----SFLETSALEALNVE  163 (217)
Q Consensus       131 ~~~~~~----~~~~~~~~-~~~~~-----~~~~vSa~~~~gv~  163 (217)
                      ......    ..++..+. ...++     +++++||++|.|+.
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            521111    12334444 33443     79999999999998

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.79  E-value=2e-18  Score=132.98  Aligned_cols=119  Identities=13%  Similarity=0.153  Sum_probs=83.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR------   83 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~------   83 (217)
                      ..++|+|+|..|+|||||+++|.+..+.. ...++.+.......+..++.  .+.+|||||+..+......+++      
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGGF--TINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETTE--EEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECCe--eEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            46999999999999999999999987532 22232233444455556664  6789999998776655444443      


Q ss_pred             ---CCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCC--CeEEEEEeCCCCccc
Q 042687           84 ---GAVGALLVYDITKRQTFDNV-TRWLRELRDHADSN--IVIMMAGNKSDLNHL  132 (217)
Q Consensus        84 ---~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~--~p~ivv~nK~Dl~~~  132 (217)
                         .+|++++|++++... +... ..|+..+......+  .|+++|+||+|+...
T Consensus       113 ~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          113 VNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             TTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             hcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence               789999999987644 3322 45666666654323  489999999998543

>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=99.79  E-value=1.7e-18  Score=140.75  Aligned_cols=158  Identities=18%  Similarity=0.147  Sum_probs=109.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh----hccchhh---hhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER----YRAITSA---YYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~---~~~~~d   86 (217)
                      .|+|+|++|||||||+++|.+........+..+.......+..++ ...+.+||+||...    +..+...   .+..++
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            489999999999999999988754322222222223333344443 23577999999632    2222222   345799


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhcC--CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      .+++++|++ ...+..+..|...+.....  ...|.++++||+|+...  ....++.......+++++.+||+++.|+++
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 5566777666666554431  25789999999998763  223344555556678999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          165 AFQTILLDIYH  175 (217)
Q Consensus       165 ~~~~l~~~~~~  175 (217)
                      ++++|.+.+.+
T Consensus       315 L~~~i~~~l~~  325 (416)
T 1udx_A          315 LKEALHALVRS  325 (416)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

>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=99.78  E-value=1.5e-18  Score=145.35  Aligned_cols=116  Identities=16%  Similarity=0.168  Sum_probs=78.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCC--------------------CCCccee--eEEEEEEECCeEEEEEEEe
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLES--------------------KSTIGVE--FATRTLQVEGKTVKAQIWD   67 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~--------------------~~t~~~~--~~~~~~~~~~~~~~~~i~D   67 (217)
                      ...++|+|+|++|+|||||+++|+........                    ..+.+.+  .....+...+  +.+++||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~--~~i~liD   88 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHD--CLVNLLD   88 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETT--EEEEEEC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECC--eEEEEEE
Confidence            45689999999999999999999863211100                    0011111  1122333344  5788999


Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |||+..|...+..++..+|++|+|+|+++...... ..++..+.   ..++|+++++||+|+..
T Consensus        89 TPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~---~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           89 TPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTR---LRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHT---TTTCCEEEEEECTTSCC
T ss_pred             CCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHH---HcCCCEEEEEcCcCCcc
Confidence            99999998888889999999999999987543222 23333332   23899999999999854

>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=99.78  E-value=1.8e-19  Score=141.35  Aligned_cols=134  Identities=17%  Similarity=0.142  Sum_probs=110.5

Q ss_pred             HHHhHHhcCccc-cCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChh-hHHHHH
Q 042687           27 NILSRFTRNEFC-LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQ-TFDNVT  104 (217)
Q Consensus        27 tLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~  104 (217)
                      +|+.+++.+.|. ..+.+|.+..+. ..+..++   ++.+||+  ++.++.++..+++++|++|+|||++++. ++..+.
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            688999999998 788899885544 3322233   6789999  8999999999999999999999999987 788889


Q ss_pred             HHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC--CeEEEecCCCCCCHHHHHHHHHH
Q 042687          105 RWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG--LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       105 ~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .|+..+...   ++|+++|+||+|+.+.+.+  ++...++..++  ++++++||++|.|++++|.++..
T Consensus       106 ~~l~~~~~~---~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEKN---ELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHHT---TCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHHC---CCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            999877653   8999999999999764432  45667777777  89999999999999999998764

>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=99.78  E-value=1.9e-19  Score=144.70  Aligned_cols=159  Identities=15%  Similarity=0.136  Sum_probs=105.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEE--------------------------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR--------------------------------------   52 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~--------------------------------------   52 (217)
                      ...+|+|+|++|||||||+++|.+..+.+....+.+......                                      
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            445999999999999999999999776433322211000000                                      


Q ss_pred             --------------EEEE-CCeEEEEEEEecCChhhh-------------ccchhhhhcCCcEEEEEEeCCChhhHHHHH
Q 042687           53 --------------TLQV-EGKTVKAQIWDTAGQERY-------------RAITSAYYRGAVGALLVYDITKRQTFDNVT  104 (217)
Q Consensus        53 --------------~~~~-~~~~~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~  104 (217)
                                    .+.+ ......+.+|||||...+             ..+...++..+|++|+|+|.++.....  .
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 001125789999997654             556678899999999999876533221  3


Q ss_pred             HHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          105 RWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       105 ~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .|+..+......+.|+++|+||+|+..........+..+....+.+++++++.++.++++.+.++..
T Consensus       191 ~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~  257 (360)
T 3t34_A          191 DAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAA  257 (360)
T ss_dssp             HHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHH
T ss_pred             HHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHH
Confidence            4444555555558899999999999765544444444445556788999999998888776555433

>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=99.77  E-value=1.7e-19  Score=141.42  Aligned_cols=160  Identities=15%  Similarity=0.249  Sum_probs=85.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC-ccccCC--------CCCcceeeEEEEEEECCeEEEEEEEecCCh-------hh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN-EFCLES--------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQ-------ER   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~-~~~~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~   73 (217)
                      ...++|+|+|++|||||||+++|.+. .++...        .++.........+..++....+++||++|.       +.
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~   95 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC   95 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHH
Confidence            34589999999999999999998875 443322        112111111222223444568899999997       44


Q ss_pred             hccchh-------hhhc-------------CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           74 YRAITS-------AYYR-------------GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        74 ~~~~~~-------~~~~-------------~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      +..+..       .++.             .+++++++.+++.. +++.+.  ...+.... ...|+++|+||+|+...+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~--~~~l~~l~-~~~~iilV~~K~Dl~~~~  171 (301)
T 2qnr_A           96 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLD--VAFMKAIH-NKVNIVPVIAKADTLTLK  171 (301)
T ss_dssp             CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHH--HHHHHHHT-TTSCEEEEECCGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHH--HHHHHHHH-hcCCEEEEEEeCCCCCHH
Confidence            444443       3332             23445555554321 122221  12223322 268999999999987544


Q ss_pred             cc--CHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          134 AV--AAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       134 ~~--~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      ++  ..+++..++...+++++++||+++ |++++|.++.+.+.
T Consensus       172 e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~  213 (301)
T 2qnr_A          172 ERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLK  213 (301)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhh
Confidence            32  235678888889999999999999 99999999988764

>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=99.76  E-value=2.5e-17  Score=142.33  Aligned_cols=121  Identities=17%  Similarity=0.083  Sum_probs=83.9

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCc--cccC-----------C-----CCCcceeeEEEEEEEC-----CeEEEE
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNE--FCLE-----------S-----KSTIGVEFATRTLQVE-----GKTVKA   63 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~--~~~~-----------~-----~~t~~~~~~~~~~~~~-----~~~~~~   63 (217)
                      .+.+...+|+|+|+.|+|||||+++|+...  +...           +     ....+.......+...     +..+.+
T Consensus         5 ~~~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i   84 (704)
T 2rdo_7            5 TPIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRI   84 (704)
T ss_pred             CCcccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeE
Confidence            344567899999999999999999997531  1100           0     0111111112222222     234788


Q ss_pred             EEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           64 QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        64 ~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      +||||||+..|...+..++..+|++|+|+|+++.........|. ....   .++|+++++||+|+..
T Consensus        85 ~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~-~~~~---~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           85 NIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR-QANK---YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             EEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHH-HHHH---cCCCEEEEEeCCCccc
Confidence            99999999999888999999999999999999876555544443 2322   3799999999999853

>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=99.76  E-value=1.4e-17  Score=134.31  Aligned_cols=126  Identities=15%  Similarity=0.172  Sum_probs=100.6

Q ss_pred             EEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHhhc-CCCCeE
Q 042687           52 RTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK----------RQTFDNVTRWLRELRDHA-DSNIVI  120 (217)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~p~  120 (217)
                      ..+.+++  +++++|||+|++.++..|..++++++++|+|||+++          ..++.....|+..+.... ..++|+
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            4455665  788999999999999999999999999999999999          889999999999887653 357999


Q ss_pred             EEEEeCCCCccccc---c---------------------------CHHHHHHHH-----HH--------cCCeEEEecCC
Q 042687          121 MMAGNKSDLNHLRA---V---------------------------AAEDAQILA-----EK--------EGLSFLETSAL  157 (217)
Q Consensus       121 ivv~nK~Dl~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~vSa~  157 (217)
                      +||+||+|+...+.   .                           ..+++..++     ..        .++.+++|||+
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            99999999854322   1                           134555553     22        24678899999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIYHIISK  179 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~~~~~~  179 (217)
                      ++.||+++|.++.+.+.+...+
T Consensus       368 d~~nV~~vF~~v~~~I~~~~l~  389 (402)
T 1azs_C          368 DTENIRRVFNDCRDIIQRMHLR  389 (402)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999888665433

>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=99.76  E-value=6.5e-18  Score=135.19  Aligned_cols=124  Identities=18%  Similarity=0.212  Sum_probs=93.7

Q ss_pred             EEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHhhc-CCCCe
Q 042687           51 TRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK----------RQTFDNVTRWLRELRDHA-DSNIV  119 (217)
Q Consensus        51 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~p  119 (217)
                      ...+.+++  +.+.+||++|++.++..|..++++++++|+|||+++          ..++.....|+..+.... ..++|
T Consensus       193 ~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~p  270 (362)
T 1zcb_A          193 EYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVS  270 (362)
T ss_dssp             EEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSE
T ss_pred             EEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCC
Confidence            34455554  678899999999999999999999999999999999          678998888888876642 34799


Q ss_pred             EEEEEeCCCCcccc----------------ccCHHHHHHHHH-----------HcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          120 IMMAGNKSDLNHLR----------------AVAAEDAQILAE-----------KEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       120 ~ivv~nK~Dl~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ++|++||+|+...+                ....+++..++.           ..++.+++|||+++.|++++|.++.+.
T Consensus       271 iILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~  350 (362)
T 1zcb_A          271 IILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDT  350 (362)
T ss_dssp             EEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             EEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHH
Confidence            99999999985422                245667766652           345789999999999999999999998


Q ss_pred             HHHH
Q 042687          173 IYHI  176 (217)
Q Consensus       173 ~~~~  176 (217)
                      +.+.
T Consensus       351 i~~~  354 (362)
T 1zcb_A          351 ILHD  354 (362)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8654

>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=99.76  E-value=2.6e-18  Score=135.57  Aligned_cols=110  Identities=14%  Similarity=0.124  Sum_probs=68.0

Q ss_pred             EEEEEEecCChhh-------------hccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeC
Q 042687           61 VKAQIWDTAGQER-------------YRAITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNK  126 (217)
Q Consensus        61 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK  126 (217)
                      ..+.+|||||...             +......++..+|++|+|+|.++.. .......++..+.   ..+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~---~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhC---CCCCcEEEEEcC
Confidence            3588999999642             4556677889999999999974432 1111112233332   347899999999


Q ss_pred             CCCccccccCHHHHHHHHHHcCCeEEEecCC---C---CCCHHHHHHHHHHHH
Q 042687          127 SDLNHLRAVAAEDAQILAEKEGLSFLETSAL---E---ALNVEKAFQTILLDI  173 (217)
Q Consensus       127 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~---~---~~gv~~~~~~l~~~~  173 (217)
                      +|+..........+.......+..++++++.   +   +.|+.++++.+.+.+
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~  260 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYF  260 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHH
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHH
Confidence            9987544322222221111222566776554   4   688888888877665

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.75  E-value=6.3e-18  Score=130.68  Aligned_cols=120  Identities=18%  Similarity=0.171  Sum_probs=79.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchh-------hh-
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITS-------AY-   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-------~~-   81 (217)
                      ..++|+++|.+|+|||||+|+|++..+.... .+..+.......+..++  +.+.+|||||...+.....       .+ 
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            4699999999999999999999988763222 12222223233333444  5688999999865543222       12 


Q ss_pred             -hcCCcEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCC--CeEEEEEeCCCCcccc
Q 042687           82 -YRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSN--IVIMMAGNKSDLNHLR  133 (217)
Q Consensus        82 -~~~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~--~p~ivv~nK~Dl~~~~  133 (217)
                       ...+|++++|+|++.. ++... ..|+..+......+  .|+++|+||+|+...+
T Consensus       116 ~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          116 LDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             TTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             hcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence             2479999999998653 23322 46666666554323  7999999999986544

>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=99.75  E-value=2.4e-18  Score=139.91  Aligned_cols=158  Identities=16%  Similarity=0.223  Sum_probs=81.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCC--------CCCcceeeEEEEEEECCeEEEEEEEecCChhhhc------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLES--------KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR------   75 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------   75 (217)
                      ...++|+|+|++|||||||++.|++..+....        .++.........+...+....+++||++|...+.      
T Consensus        29 ~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~  108 (418)
T 2qag_C           29 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW  108 (418)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------C
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhH
Confidence            34578999999999999999999987763221        1121111111112223444578999999965431      


Q ss_pred             -cc------------------hhhhhcCCcEEEEEEeCCCh-hhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           76 -AI------------------TSAYYRGAVGALLVYDITKR-QTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        76 -~~------------------~~~~~~~~d~ii~v~d~~~~-~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                       .+                  ...++.++++.+++|+.... .++... ..|+..+.   . ++|+++|+||+|+...+.
T Consensus       109 ~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~---~-~v~iIlVinK~Dll~~~e  184 (418)
T 2qag_C          109 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH---E-KVNIIPLIAKADTLTPEE  184 (418)
T ss_dssp             HHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT---T-TSEEEEEEESTTSSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh---c-cCcEEEEEEcccCccHHH
Confidence             11                  12234455544444444321 233333 25555553   2 799999999999876554


Q ss_pred             cCH--HHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          135 VAA--EDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       135 ~~~--~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      +..  .++...+...+++++++|+.++.+++++|..+.+
T Consensus       185 v~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~  223 (418)
T 2qag_C          185 CQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKD  223 (418)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCC----------------
T ss_pred             HHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHh
Confidence            443  5677778888999999999999999988777665

>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=99.74  E-value=1.7e-18  Score=140.34  Aligned_cols=85  Identities=22%  Similarity=0.236  Sum_probs=47.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEE--EE-------------------EECC-eEEEEEEEecCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATR--TL-------------------QVEG-KTVKAQIWDTAG   70 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~--~~-------------------~~~~-~~~~~~i~D~~G   70 (217)
                      ++|+|+|.+|||||||+|+|++........+..+.+....  .+                   .+++ ..+.+.+|||||
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            5899999999999999999998773222222112211111  11                   1222 246799999999


Q ss_pred             hhh----hccchh---hhhcCCcEEEEEEeCCCh
Q 042687           71 QER----YRAITS---AYYRGAVGALLVYDITKR   97 (217)
Q Consensus        71 ~~~----~~~~~~---~~~~~~d~ii~v~d~~~~   97 (217)
                      ...    ...+..   .+++.+|++++|+|+++.
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            743    222222   456899999999999875

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.74  E-value=4.9e-17  Score=140.34  Aligned_cols=118  Identities=19%  Similarity=0.174  Sum_probs=83.6

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcC--cccc-----------CC-----CCCcceeeEEEEEEECCeEEEEEEEecC
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRN--EFCL-----------ES-----KSTIGVEFATRTLQVEGKTVKAQIWDTA   69 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~--~~~~-----------~~-----~~t~~~~~~~~~~~~~~~~~~~~i~D~~   69 (217)
                      +.+...+|+|+|++|+|||||+++|+..  .+..           ++     .+..+.......+..++  +.+++||||
T Consensus         6 ~~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~liDTP   83 (693)
T 2xex_A            6 SLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNIIDTP   83 (693)
T ss_dssp             CSTTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEECCC
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEEECc
Confidence            3456789999999999999999999852  2110           00     01111112223334444  568899999


Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |+..|...+..++..+|++|+|+|+++..+......|.. +...   ++|+++|+||+|+..
T Consensus        84 G~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~---~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           84 GHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY---GVPRIVFVNKMDKLG  141 (693)
T ss_dssp             CCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT---TCCEEEEEECTTSTT
T ss_pred             CCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc---CCCEEEEEECCCccc
Confidence            999998888999999999999999998776666555543 3333   789999999999854

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.70  E-value=1.8e-17  Score=124.19  Aligned_cols=155  Identities=10%  Similarity=0.039  Sum_probs=94.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC------CCCcce--------eeEEEEEEEC----------------CeE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES------KSTIGV--------EFATRTLQVE----------------GKT   60 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~------~~t~~~--------~~~~~~~~~~----------------~~~   60 (217)
                      ...+|+|+|.+|||||||+++|.........      .+..+.        ......+...                ...
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            3479999999999999999999865321110      111000        0011111110                112


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      ..+.+|||+|.....   ..+....+.+++|+|+.+...  ....+...   .   +.|+++|+||+|+.........+.
T Consensus       109 ~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~--~~~~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDD--VVEKHPEI---F---RVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTT--HHHHCHHH---H---HTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcch--hhhhhhhh---h---hcCCEEEEecccCCcchhhHHHHH
Confidence            457799999851111   011125688999999876432  11111111   1   578899999999865433345556


Q ss_pred             HHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          141 QILAEKE--GLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       141 ~~~~~~~--~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      ...+...  +++++++||++|.|++++|++|.+.+...
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            5555544  47899999999999999999999877543

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.70  E-value=2e-16  Score=133.09  Aligned_cols=116  Identities=17%  Similarity=0.132  Sum_probs=81.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcc------------------c----cCCCCCcceeeEEEEEEECCeEEEEEEEe
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEF------------------C----LESKSTIGVEFATRTLQVEGKTVKAQIWD   67 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~------------------~----~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   67 (217)
                      ...-+|+|+|+.++|||||..+|+...-                  .    .+.....++.-....+..++  +.++|+|
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlID  106 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLLD  106 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEEC
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEEe
Confidence            3567999999999999999999852110                  0    01111122222233344454  5678999


Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      ||||..|.......++-+|++|+|+|+...-..+....|. .....   ++|.++++||+|...
T Consensus       107 TPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~-~a~~~---~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          107 TPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMD-VCRMR---ATPVMTFVNKMDREA  166 (548)
T ss_dssp             CCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHH-HHHHT---TCCEEEEEECTTSCC
T ss_pred             CCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHH-HHHHh---CCceEEEEecccchh
Confidence            9999999999999999999999999998865555544553 33333   899999999999743

>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=99.69  E-value=1.8e-18  Score=138.69  Aligned_cols=158  Identities=15%  Similarity=0.162  Sum_probs=93.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC------CCc----------------------cee--------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK------STI----------------------GVE--------------   48 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~------~t~----------------------~~~--------------   48 (217)
                      ..++|+|+|.+|||||||+|+|++..+.+...      ++.                      +.+              
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            45799999999999999999999987743221      110                      000              


Q ss_pred             -------eEEEEEEEC-CeEEEEEEEecCChh-------------hhccchhhhhcCCcEEE-EEEeCCChhhHHHHHHH
Q 042687           49 -------FATRTLQVE-GKTVKAQIWDTAGQE-------------RYRAITSAYYRGAVGAL-LVYDITKRQTFDNVTRW  106 (217)
Q Consensus        49 -------~~~~~~~~~-~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii-~v~d~~~~~s~~~~~~~  106 (217)
                             .....+.+. .....+.+|||||..             .+..+...|+..++.+| ++.|++....-..   |
T Consensus       110 g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~---~  186 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD---A  186 (353)
T ss_dssp             TTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH---H
T ss_pred             ccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH---H
Confidence                   000001111 012468899999952             34556667776665444 4556554222122   2


Q ss_pred             HHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH--HHHHcC-CeEEEecCCCCCCHHHHHHHHHH
Q 042687          107 LRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI--LAEKEG-LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       107 ~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~--~~~~~~-~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      +..+......+.|+++|+||+|+.+...........  +....+ .+++++||+++.|++++++++.+
T Consensus       187 ~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          187 LKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            222333344589999999999996533211211111  011123 25788999999999999888866

>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=99.68  E-value=9.1e-16  Score=122.23  Aligned_cols=146  Identities=18%  Similarity=0.121  Sum_probs=90.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhhhc--
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQERYR--   75 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~--   75 (217)
                      ++|+|+|.+|||||||+|+|.+..+.....+..+.+.....+.+.+.               +..+.+|||||.....  
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            78999999999999999999987743322222122222222334432               2468899999976532  


Q ss_pred             -----cchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHH------------------------------
Q 042687           76 -----AITSAYYRGAVGALLVYDITKR----------QTFDNVTRWLREL------------------------------  110 (217)
Q Consensus        76 -----~~~~~~~~~~d~ii~v~d~~~~----------~s~~~~~~~~~~i------------------------------  110 (217)
                           ..+..+++.+|++++|+|+++.          +++..+..+..++                              
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                 2233457899999999999852          2233322111111                              


Q ss_pred             ----------Hh-------------------h-cCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC
Q 042687          111 ----------RD-------------------H-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus       111 ----------~~-------------------~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                                .+                   . ....+|+++++|+.|..-........+..++...+++++++||+.
T Consensus       163 ~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          163 SVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence                      10                   0 012499999999999642112234567778888899999999663

>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=99.67  E-value=7.1e-17  Score=129.40  Aligned_cols=104  Identities=13%  Similarity=0.070  Sum_probs=70.0

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AE  138 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~  138 (217)
                      +.+.||||||...   .....+..+|++|+|+|....+.+..+...        -.+.|+++|+||+|+.......  ..
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~--------~~~~p~ivVlNK~Dl~~~~~~~~~~~  240 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKG--------VLELADIVVVNKADGEHHKEARLAAR  240 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTT--------SGGGCSEEEEECCCGGGHHHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHh--------HhhcCCEEEEECCCCcChhHHHHHHH
Confidence            4678999999432   223445899999999998765443322211        1146899999999986532211  11


Q ss_pred             HHHHHHHH-------cCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          139 DAQILAEK-------EGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       139 ~~~~~~~~-------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      +.......       ++.+++++||++|.|+++++++|.+.+..
T Consensus       241 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          241 ELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            22222211       25789999999999999999999988755

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.66  E-value=1.8e-18  Score=130.17  Aligned_cols=153  Identities=13%  Similarity=0.121  Sum_probs=89.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeE------------EEEEEEC-CeEE----------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFA------------TRTLQVE-GKTV----------------   61 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~------------~~~~~~~-~~~~----------------   61 (217)
                      ..++|+|+|.+|||||||+++|....+...+.++.+.++.            ...+.++ +..+                
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            3589999999999999999999987654433333332221            1111111 1100                


Q ss_pred             ---EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHH
Q 042687           62 ---KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAE  138 (217)
Q Consensus        62 ---~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  138 (217)
                         .+.++|++|.-...   ..+-...+.++.+.|.........  .....+      +.|.++|+||+|+...+....+
T Consensus       117 ~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~~------~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KHPGIM------KTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TCHHHH------TTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh--hhhhHh------hcCCEEEEeccccCchhHHHHH
Confidence               23455555521000   011112344556666422111000  000111      5678999999998764444566


Q ss_pred             HHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          139 DAQILAEKE--GLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       139 ~~~~~~~~~--~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      +...++...  +++++++||++|.|++++|++|.+.+.
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            666666654  579999999999999999999988764

>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=99.65  E-value=4.4e-16  Score=136.99  Aligned_cols=118  Identities=19%  Similarity=0.200  Sum_probs=86.6

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccC----------------CC--CCcceeeEEEEEE------------ECC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLE----------------SK--STIGVEFATRTLQ------------VEG   58 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~----------------~~--~t~~~~~~~~~~~------------~~~   58 (217)
                      .+...+|+|+|+.++|||||+++|+.......                ..  .|.........+.            .++
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            34568999999999999999999986421110                01  1222222222222            234


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ..+.+++|||||+..|...+..+++.+|++|+|+|+++..+++....|.... .   .++|+++++||+|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~-~---~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-H---cCCCeEEEEECCCcc
Confidence            4788999999999999999999999999999999999987777766565433 2   278999999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.65  E-value=2.8e-16  Score=132.26  Aligned_cols=124  Identities=19%  Similarity=0.229  Sum_probs=83.1

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCccc---cCCCCCcceeeEEEEEE------EC-------------------
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFC---LESKSTIGVEFATRTLQ------VE-------------------   57 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~---~~~~~t~~~~~~~~~~~------~~-------------------   57 (217)
                      +.+.+..++|+|+|.+|+|||||+|+|++..+.   ....+++. ........      .+                   
T Consensus        59 ~~~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~-~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~  137 (550)
T 2qpt_A           59 DADFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTD-CFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGN  137 (550)
T ss_dssp             STTTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCC-SEEEEECCSSSEEECCC------------------
T ss_pred             cccccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccc-eEEEEEECCcccccCCceeeecCcccHHHHhhhcc
Confidence            344556789999999999999999999998764   22222221 11000000      00                   


Q ss_pred             ----CeE---------EEEEEEecCChhh-----------hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhh
Q 042687           58 ----GKT---------VKAQIWDTAGQER-----------YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH  113 (217)
Q Consensus        58 ----~~~---------~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~  113 (217)
                          +..         ..+.+|||||...           +......++..+|++|+|+|+++.........|+..+...
T Consensus       138 ~~~~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~  217 (550)
T 2qpt_A          138 TFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH  217 (550)
T ss_dssp             CCCTTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC
T ss_pred             cccccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc
Confidence                000         2478999999753           4456667789999999999998754444555666555433


Q ss_pred             cCCCCeEEEEEeCCCCcccc
Q 042687          114 ADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus       114 ~~~~~p~ivv~nK~Dl~~~~  133 (217)
                         +.|+++|+||+|+....
T Consensus       218 ---~~pvilVlNK~Dl~~~~  234 (550)
T 2qpt_A          218 ---EDKIRVVLNKADMVETQ  234 (550)
T ss_dssp             ---GGGEEEEEECGGGSCHH
T ss_pred             ---CCCEEEEEECCCccCHH
Confidence               68999999999987533

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.63  E-value=3e-16  Score=125.32  Aligned_cols=103  Identities=11%  Similarity=-0.005  Sum_probs=63.0

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.+.++||+|....   .......+|++++|+|++++...+.+..   .+     ...|.++|+||+|+...... ....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~-~~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPA-RRIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHH-HHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhH-HHHH
Confidence            35679999995311   2344678999999999987543322211   11     14678999999998642111 0112


Q ss_pred             HHHHH----------HcCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          141 QILAE----------KEGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       141 ~~~~~----------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                      ..+..          .+..+++.+||++|.|+++++++|.+.+..
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            22211          124578999999999999999999987644

>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=99.62  E-value=2.2e-15  Score=120.66  Aligned_cols=155  Identities=15%  Similarity=0.120  Sum_probs=93.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC-------------------eEEEEEEEecCChhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-------------------KTVKAQIWDTAGQER   73 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-------------------~~~~~~i~D~~G~~~   73 (217)
                      ++|+|+|.+|||||||+|+|.+........+..+.........+.+                   ....+.+||+||...
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            6899999999999999999988653222111111111111222221                   235688999999764


Q ss_pred             hc-------cchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHH---------------------------
Q 042687           74 YR-------AITSAYYRGAVGALLVYDITKR----------QTFDNVTRWLRE---------------------------  109 (217)
Q Consensus        74 ~~-------~~~~~~~~~~d~ii~v~d~~~~----------~s~~~~~~~~~~---------------------------  109 (217)
                      ..       ......++.+|++++|+|+++.          +.+..+..+...                           
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       1233457899999999999751          122221110000                           


Q ss_pred             ------------HHhhc--------------------CCCCeEEEEEeCCCCc--cc-cccCHHHHHHHHHHcCCeEEEe
Q 042687          110 ------------LRDHA--------------------DSNIVIMMAGNKSDLN--HL-RAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus       110 ------------i~~~~--------------------~~~~p~ivv~nK~Dl~--~~-~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                                  +....                    -..+|+++++||.|..  +. +......+..++...+++++++
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                        00000                    1137999999999843  21 1223456778888889999999


Q ss_pred             cCCCCCCHHHHHH
Q 042687          155 SALEALNVEKAFQ  167 (217)
Q Consensus       155 Sa~~~~gv~~~~~  167 (217)
                      ||+.+.++.++..
T Consensus       242 SAk~E~el~eL~~  254 (368)
T 2dby_A          242 SARLEAELAELSG  254 (368)
T ss_dssp             CHHHHHHHHTSCH
T ss_pred             echhHHHHHHhch
Confidence            9998766665544

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.58  E-value=4.1e-14  Score=113.30  Aligned_cols=155  Identities=15%  Similarity=0.118  Sum_probs=98.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh-------ccchhhhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY-------RAITSAYY   82 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~   82 (217)
                      +...+|+|+|.||||||||+|+|.+........+..+.+.....+.+.+.  +++++||||...-       .......+
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~--~i~l~D~pGl~~~a~~~~~~g~~~l~~i  147 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGA--KIQMLDLPGIIDGAKDGRGRGKQVIAVA  147 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTE--EEEEEECGGGCCC-----CHHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCc--EEEEEeCCCccCCchhhhHHHHHHHHHH
Confidence            34568999999999999999999987755444455566677777778875  5679999994211       11123456


Q ss_pred             cCCcEEEEEEeCCChhhH-HHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc--------ccccCHHHHHHHHHHcCCeEEE
Q 042687           83 RGAVGALLVYDITKRQTF-DNVTRWLRELRDHADSNIVIMMAGNKSDLNH--------LRAVAAEDAQILAEKEGLSFLE  153 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~--------~~~~~~~~~~~~~~~~~~~~~~  153 (217)
                      +.+|++++|+|++++... +.+...+..+.... ...|.++++||.|...        ......++...+...+.+..-+
T Consensus       148 ~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l-~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kp  226 (376)
T 4a9a_A          148 RTCNLLFIILDVNKPLHHKQIIEKELEGVGIRL-NKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAE  226 (376)
T ss_dssp             HHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEE-TCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEE
T ss_pred             HhcCccccccccCccHHHHHHHHHHHHHhhHhh-ccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCC
Confidence            789999999999987432 22233332222112 2577888999999732        1234556666666666543223


Q ss_pred             ecCCCCCCHHHHHH
Q 042687          154 TSALEALNVEKAFQ  167 (217)
Q Consensus       154 vSa~~~~gv~~~~~  167 (217)
                      +--..+...+++.+
T Consensus       227 v~~~~nv~eddl~d  240 (376)
T 4a9a_A          227 IAFRCDATVDDLID  240 (376)
T ss_dssp             EEECSCCCHHHHHH
T ss_pred             eeecccCCHHHHHH
Confidence            32233444555443

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.56  E-value=1.2e-15  Score=130.71  Aligned_cols=114  Identities=19%  Similarity=0.206  Sum_probs=78.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc--cc------cCC---C-----CCcceeeEEEEEEECCeEEEEEEEecCChhhhcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE--FC------LES---K-----STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA   76 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~--~~------~~~---~-----~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   76 (217)
                      -||+|+|+.++|||||..+|+...  ..      ...   +     ...+.+.......+....+.++|+|||||..|..
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            479999999999999999986321  10      000   0     0011222222223333445688999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           77 ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        77 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      .....++-+|++|+|+|+...-..+....|. .....   ++|.++++||+|..
T Consensus        83 Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~-~a~~~---~lp~i~~INKmDr~  132 (638)
T 3j25_A           83 EVYRSLSVLDGAILLISAKDGVQAQTRILFH-ALRKM---GIPTIFFINKIDQN  132 (638)
T ss_dssp             HHHHHHTTCSEEECCEESSCTTCSHHHHHHH-HHHHH---TCSCEECCEECCSS
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCcHHHHHHHH-HHHHc---CCCeEEEEeccccc
Confidence            9999999999999999998765444433443 33333   78999999999974

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.56  E-value=9.9e-14  Score=120.29  Aligned_cols=119  Identities=18%  Similarity=0.129  Sum_probs=81.4

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCc--------ccc----------CCCCCcceeeEEEEEEEC-----CeEEEEE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNE--------FCL----------ESKSTIGVEFATRTLQVE-----GKTVKAQ   64 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~--------~~~----------~~~~t~~~~~~~~~~~~~-----~~~~~~~   64 (217)
                      +-+..-+|+|+|+.++|||||..+|+...        ...          +.....++.-....+...     ...+.++
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            44677799999999999999999986321        100          001111111122223222     1257889


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      ++|||||..|.......++-+|++|+|+|+...-..+...-|.....+    ++|.++++||+|..
T Consensus        89 lIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           89 VIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQ  150 (709)
T ss_dssp             EECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSST
T ss_pred             EEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEcccccc
Confidence            999999999999999999999999999999876555554444443333    89999999999974

>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=99.56  E-value=6.1e-16  Score=123.28  Aligned_cols=103  Identities=16%  Similarity=0.071  Sum_probs=65.3

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCH--H
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA--E  138 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~  138 (217)
                      +.+.++||||......   .....+|++++|+|++..+.+..+...   .     .+.|.++|+||+|+........  .
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~~---~-----~~~p~ivv~NK~Dl~~~~~~~~~~~  217 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKG---L-----MEVADLIVINKDDGDNHTNVAIARH  217 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHH---H-----HHHCSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHHh---h-----hcccCEEEEECCCCCChHHHHHHHH
Confidence            4678999999654332   246899999999999765332211110   0     1467899999999865322111  1


Q ss_pred             HHHHHHHHc-------CCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          139 DAQILAEKE-------GLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       139 ~~~~~~~~~-------~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      +........       ..+++++||++|.|+++++++|.+.+.
T Consensus       218 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          218 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            222222221       357899999999999999999998764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.53  E-value=6.8e-14  Score=107.34  Aligned_cols=113  Identities=14%  Similarity=-0.066  Sum_probs=67.2

Q ss_pred             EEEEEEecCChhhhccchh------hhhcCCcEEEEEEeCCChhhHHHHHHHHH-HHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           61 VKAQIWDTAGQERYRAITS------AYYRGAVGALLVYDITKRQTFDNVTRWLR-ELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~ii~v~d~~~~~s~~~~~~~~~-~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      +.+.+|||||.........      ..+.. +++|+++|+........+..... ........+.|+++|+||+|+....
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            4678999999765433211      23456 88888988754322222211111 1111111268999999999986533


Q ss_pred             ccCH--H---HHH----H-----------------HHHHcC--CeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          134 AVAA--E---DAQ----I-----------------LAEKEG--LSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       134 ~~~~--~---~~~----~-----------------~~~~~~--~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      ....  +   +..    .                 ++..++  ++++++||+++.|+++++++|.+.+.
T Consensus       188 ~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          188 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            2100  0   000    1                 123333  48999999999999999999987663

>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=99.52  E-value=4.5e-14  Score=121.76  Aligned_cols=158  Identities=14%  Similarity=0.121  Sum_probs=95.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcce-----------------------------------------
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGV-----------------------------------------   47 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~-----------------------------------------   47 (217)
                      -..++|+|+|.+++|||||+|+|++..+.+... .++..                                         
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            355799999999999999999999977632221 11000                                         


Q ss_pred             ---------eeEEEEEEECCeEEEEEEEecCChhh-------------hccchhhhh-cCCcEEEEEEeCCChhhHHHHH
Q 042687           48 ---------EFATRTLQVEGKTVKAQIWDTAGQER-------------YRAITSAYY-RGAVGALLVYDITKRQTFDNVT  104 (217)
Q Consensus        48 ---------~~~~~~~~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~ii~v~d~~~~~s~~~~~  104 (217)
                               +.....+...+. ..+.++||||...             +..+...++ ..+|++++|+|+++........
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~-~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHV-LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTC-CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH
T ss_pred             cCCCCcccccceEEEEecCCC-CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH
Confidence                     000111111111 1467999999422             233344444 5789999999998643323322


Q ss_pred             HHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH-H-HHHcC-CeEEEecCCCCCCHHHHHHHHHH
Q 042687          105 RWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI-L-AEKEG-LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       105 ~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~-~~~~~-~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .++..+.   ..+.|+++|+||+|+............. . ....+ .+++.+||++|.|++++++.+.+
T Consensus       208 ~ll~~L~---~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          208 KIAKEVD---PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             HHHHHHC---TTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             HHHHHHH---hcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            3333333   3479999999999997543332211110 0 00112 35778899999999998888775

>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=99.51  E-value=5.9e-14  Score=109.96  Aligned_cols=98  Identities=13%  Similarity=0.060  Sum_probs=80.5

Q ss_pred             hhhhccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHHHcC
Q 042687           71 QERYRAITSAYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAEKEG  148 (217)
Q Consensus        71 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~  148 (217)
                      ++++..+.+.++.++|++++|+|++++. ++..+..|+..+...   ++|+++|+||+|+.+...+. .++...+....+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~---~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYF---KVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhC---CCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            5677788888999999999999999986 888888998876653   89999999999997643222 344556667778


Q ss_pred             CeEEEecCCCCCCHHHHHHHHHH
Q 042687          149 LSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       149 ~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ++++++||++|.|+++++..+..
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTTT
T ss_pred             CeEEEEECCCCCCHHHHHhhccC
Confidence            99999999999999999988753

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.45  E-value=2e-13  Score=108.49  Aligned_cols=103  Identities=14%  Similarity=0.034  Sum_probs=62.3

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.+.++||+|.....   ......+|.+++++|+...+..+.+...+   .     +.+.++++||+|+...........
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i---~-----~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGI---F-----ELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTH---H-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHH---h-----ccccEEEEEchhccCchhHHHHHH
Confidence            467799999964221   23457899999999986543222111111   1     234577779999743222111122


Q ss_pred             HHHHHH----------cCCeEEEecCCCCCCHHHHHHHHHHHHH
Q 042687          141 QILAEK----------EGLSFLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       141 ~~~~~~----------~~~~~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      ..+...          +..+++.+||+++.|++++++.|.+.+.
T Consensus       217 ~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          217 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            223221          1457899999999999999999988654

>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=99.39  E-value=1.8e-11  Score=98.67  Aligned_cols=87  Identities=15%  Similarity=0.151  Sum_probs=61.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcc-ccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEF-CLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQER   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~   73 (217)
                      ....+|+|+|++|||||||+|+|.+... .....++.+.+.....+.+.+.               ...+.+||+||...
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~   97 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   97 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccccc
Confidence            3457999999999999999999999766 3444444444444555555541               13578999999432


Q ss_pred             -------hccchhhhhcCCcEEEEEEeCCC
Q 042687           74 -------YRAITSAYYRGAVGALLVYDITK   96 (217)
Q Consensus        74 -------~~~~~~~~~~~~d~ii~v~d~~~   96 (217)
                             +...+...++.+|++++|+|+.+
T Consensus        98 ~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           98 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                   23345566789999999999863

>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=99.38  E-value=3.4e-13  Score=98.36  Aligned_cols=103  Identities=8%  Similarity=-0.041  Sum_probs=68.2

Q ss_pred             CChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHH---HHHHHhhc-CCCCeEEEEEeCC-CCccccccCHHHHHHH
Q 042687           69 AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW---LRELRDHA-DSNIVIMMAGNKS-DLNHLRAVAAEDAQIL  143 (217)
Q Consensus        69 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~---~~~i~~~~-~~~~p~ivv~nK~-Dl~~~~~~~~~~~~~~  143 (217)
                      +|++.++..|+.|+.++|++|||+|.+|.+.++.-.++   ...+.+.. ..++|++|++||. |++.  ..+..++.+.
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~e~  187 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAHE  187 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHHHH
Confidence            37889999999999999999999999987544322222   22222222 2589999999995 6643  3444444332


Q ss_pred             HH----HcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          144 AE----KEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       144 ~~----~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ..    ...+.+..|||.+|+|+.+.++||.+.+
T Consensus       188 L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l  221 (227)
T 3l82_B          188 LHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEV  221 (227)
T ss_dssp             TTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTT
T ss_pred             cCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHH
Confidence            21    2346799999999999999999998765

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.36  E-value=9.2e-13  Score=105.98  Aligned_cols=87  Identities=16%  Similarity=0.138  Sum_probs=52.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChhhhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQERYR   75 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~   75 (217)
                      ..++|+|+|.+|||||||+|+|.+..+.....++.+.+.....+.+.+.               ...+.+||+||.....
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~a  100 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGA  100 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCccccc
Confidence            4589999999999999999999988764444444444444444444432               2358899999976543


Q ss_pred             c-------chhhhhcCCcEEEEEEeCCCh
Q 042687           76 A-------ITSAYYRGAVGALLVYDITKR   97 (217)
Q Consensus        76 ~-------~~~~~~~~~d~ii~v~d~~~~   97 (217)
                      .       .+..+++.+|++++|+|+++.
T Consensus       101 s~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A          101 HNGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             ------CCHHHHHHHTSSSEEEEEEC---
T ss_pred             chhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence            3       456778999999999999753

>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=99.25  E-value=1.2e-11  Score=94.50  Aligned_cols=104  Identities=7%  Similarity=-0.039  Sum_probs=73.2

Q ss_pred             cCChhhhccchhhhhcCCcEEEEEEeCCChhhHH---HHHHHHHHHHhhc-CCCCeEEEEEeC-CCCccccccCHHHHHH
Q 042687           68 TAGQERYRAITSAYYRGAVGALLVYDITKRQTFD---NVTRWLRELRDHA-DSNIVIMMAGNK-SDLNHLRAVAAEDAQI  142 (217)
Q Consensus        68 ~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~---~~~~~~~~i~~~~-~~~~p~ivv~nK-~Dl~~~~~~~~~~~~~  142 (217)
                      .+|++..+..|+.|+.++|++|||+|.+|++.++   ++.++...+.+.. ..++|++|++|| .|++.  .....++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~--Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC--BCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC--CCCHHHHHH
Confidence            3567889999999999999999999999986543   2222223332322 248999999996 57754  334444433


Q ss_pred             HHH----HcCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          143 LAE----KEGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       143 ~~~----~~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ...    ...+.+..|||.+|+|+.+.++||.+.+
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l  306 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEV  306 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHS
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHH
Confidence            221    2346799999999999999999999876

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.05  E-value=6.6e-10  Score=89.21  Aligned_cols=96  Identities=20%  Similarity=0.260  Sum_probs=72.6

Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH----HHHH
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ----ILAE  145 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~  145 (217)
                      ..+.|...+..+.+.+|++++|+|++++.     ..|...+.+... +.|+++|+||+|+.... ...++..    .++.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            45788889999999999999999999854     345555555444 78999999999996532 2233333    3356


Q ss_pred             HcCC---eEEEecCCCCCCHHHHHHHHHHH
Q 042687          146 KEGL---SFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       146 ~~~~---~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ..++   +++.+||++|.|++++++.|.+.
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   79999999999999999998653

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.04  E-value=3.8e-11  Score=96.48  Aligned_cols=139  Identities=14%  Similarity=0.114  Sum_probs=80.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC------ccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-------cchh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN------EFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-------AITS   79 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~   79 (217)
                      .+|+++|.+|+|||||+|+|.+.      .......+.  ++.....+.++..   +.++||||.....       ....
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            47999999999999999999875      221222222  2233334444432   5799999943111       1111


Q ss_pred             hhh---cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecC
Q 042687           80 AYY---RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        80 ~~~---~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                      ..+   ...+.++++++....-.+..+.    .+......+.|+++++||.|....... ....+.+.+..+..+.+.++
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~----~l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  312 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLA----RLDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSK  312 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCG
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEE----EEEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCc
Confidence            122   6789999999874321111111    012222347899999999998664433 23344556667766666655


Q ss_pred             CCCCC
Q 042687          157 LEALN  161 (217)
Q Consensus       157 ~~~~g  161 (217)
                      .+..+
T Consensus       313 ~~~~~  317 (369)
T 3ec1_A          313 RYAAE  317 (369)
T ss_dssp             GGTTT
T ss_pred             hhhhh
Confidence            54333

>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=98.98  E-value=1.6e-09  Score=87.93  Aligned_cols=60  Identities=27%  Similarity=0.483  Sum_probs=34.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCC--CcceeeEEEEEEE--CCeEEEEEEEecCCh
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKS--TIGVEFATRTLQV--EGKTVKAQIWDTAGQ   71 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~--~~~~~~~~i~D~~G~   71 (217)
                      .++++|+|++|+|||||++.|.+..+......  ..+.......+..  .+....++++|++|.
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~  105 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGF  105 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhh
Confidence            36799999999999999999998754321111  1111121222222  222346889999884

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.96  E-value=4.2e-11  Score=96.21  Aligned_cols=135  Identities=10%  Similarity=0.132  Sum_probs=75.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc-----CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc----ch----h
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL-----ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA----IT----S   79 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~-----~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~~----~   79 (217)
                      .+|+++|.+|+|||||+|+|.+.....     ......+++.....+.++..   +.++||||......    +.    .
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            579999999999999999998753111     11112222333333444432   67999999432111    11    1


Q ss_pred             hh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEec
Q 042687           80 AY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus        80 ~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vS  155 (217)
                      .+  ....+.++++++......+..+.    .+......+.|+++++||.|....... ....+.+.+..+..+.+.+
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~----~~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLA----RFDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSC
T ss_pred             HhccccccCceEEEEcCCCEEEEcceE----EEEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCc
Confidence            11  25678888888874221111110    111222347899999999998764432 2334455566665555444

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.95  E-value=6.5e-10  Score=92.31  Aligned_cols=151  Identities=15%  Similarity=0.154  Sum_probs=83.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHh------cCccc---cCC-CCCc-----------ceeeEEEEEE-------------E
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFT------RNEFC---LES-KSTI-----------GVEFATRTLQ-------------V   56 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~------~~~~~---~~~-~~t~-----------~~~~~~~~~~-------------~   56 (217)
                      ....|+|+|.+||||||++++|.      +....   .+. .+..           +..+......             .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999997      33221   100 0000           0111110000             0


Q ss_pred             CCeEEEEEEEecCChhhhc-cch---hhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeE-EEEEeCCCC
Q 042687           57 EGKTVKAQIWDTAGQERYR-AIT---SAY--YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI-MMAGNKSDL  129 (217)
Q Consensus        57 ~~~~~~~~i~D~~G~~~~~-~~~---~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~Dl  129 (217)
                      ....+.+.|+||||..... ..+   ...  +..+|.+++|+|+.......   .....+..    .+|+ ++|+||.|.
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~----~~~i~gvVlNK~D~  252 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKD----KVDVASVIVTKLDG  252 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHH----HHCCCCEEEECTTS
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHh----hcCceEEEEeCCcc
Confidence            0022467799999964221 111   111  23789999999997653311   11222322    2564 789999997


Q ss_pred             ccccccCHHHHHHHHHHcCCeE------------------EEecCCCCCC-HHHHHHHHHHH
Q 042687          130 NHLRAVAAEDAQILAEKEGLSF------------------LETSALEALN-VEKAFQTILLD  172 (217)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~------------------~~vSa~~~~g-v~~~~~~l~~~  172 (217)
                      ....  .  .+.......++|+                  +.+|+..|.| +.++++++.+.
T Consensus       253 ~~~~--g--~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          253 HAKG--G--GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCCC--T--HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ccch--H--HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            6321  1  1222333445543                  3368888988 88888888654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.90  E-value=3.1e-09  Score=81.75  Aligned_cols=137  Identities=20%  Similarity=0.241  Sum_probs=71.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCC-------CCcceeeEEEEEEEC--CeEEEEEEEecCChhhhc-------
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESK-------STIGVEFATRTLQVE--GKTVKAQIWDTAGQERYR-------   75 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-------~t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~-------   75 (217)
                      .++++|+|+.|+|||||++.|.+...+....       ...........+...  +....++++|++|.....       
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            4799999999999999999998754322110       000000111111111  222367899999832100       


Q ss_pred             cc-------hh--------------hhhcCCcEEEEEEeCC-ChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           76 AI-------TS--------------AYYRGAVGALLVYDIT-KRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        76 ~~-------~~--------------~~~~~~d~ii~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      .+       ..              ..+..+++.++++|.. .+-.... ...+..+.   . .+++++|++|+|.....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~---~-~~~vI~Vi~K~D~lt~~  156 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLS---K-VVNIIPVIAKADTMTLE  156 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHH---T-TSEEEEEETTGGGSCHH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHH---h-cCcEEEEEeccccCCHH
Confidence            00       00              0123468888999864 2222122 22333333   2 38999999999976533


Q ss_pred             ccC--HHHHHHHHHHcCCeEEE
Q 042687          134 AVA--AEDAQILAEKEGLSFLE  153 (217)
Q Consensus       134 ~~~--~~~~~~~~~~~~~~~~~  153 (217)
                      +..  ...+.......++.+|+
T Consensus       157 e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          157 EKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHcCccccC
Confidence            221  12334445566777664

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.89  E-value=2.8e-09  Score=85.66  Aligned_cols=96  Identities=20%  Similarity=0.209  Sum_probs=70.4

Q ss_pred             ChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHH----HHH
Q 042687           70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQI----LAE  145 (217)
Q Consensus        70 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~~~  145 (217)
                      .++.|......++..++++++|+|++++.+     .|...+..... +.|+++|+||+|+.... ...+....    ++.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-DNPILLVGNKADLLPRS-VKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-TSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-CCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHH
Confidence            467888989888899999999999999763     23333333333 78999999999996532 22333333    355


Q ss_pred             HcCC---eEEEecCCCCCCHHHHHHHHHHH
Q 042687          146 KEGL---SFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       146 ~~~~---~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ..++   +++.+||++|.|++++++.+.+.
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   78999999999999999988653

>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=98.85  E-value=5.2e-08  Score=79.06  Aligned_cols=156  Identities=12%  Similarity=0.191  Sum_probs=83.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCc-cee--eEEEEEEECCeEEEEEEEecCChhhhccchhhh-----hc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTI-GVE--FATRTLQVEGKTVKAQIWDTAGQERYRAITSAY-----YR   83 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~-~~~--~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~-----~~   83 (217)
                      ...|+|+|++|||||||+|.+.+.........+. +.+  .....+... ..-.+.++|++|..........+     +.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~-~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~  147 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKFY  147 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecccc-ccCCeeehHhhcccchHHHHHHHHHHcCCC
Confidence            3589999999999999999999854322211111 100  001111111 11146799999853211111111     33


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc-------cccccCHHH----HHHHH----HHcC
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN-------HLRAVAAED----AQILA----EKEG  148 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~~----~~~~~----~~~~  148 (217)
                      ..+..++ ++....+. .. ..+...+...   +.|+++|.||.|+.       .-......+    +..+.    ...+
T Consensus       148 ~~~~~~~-lS~G~~~k-qr-v~la~aL~~~---~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g  221 (413)
T 1tq4_A          148 EYDFFII-ISATRFKK-ND-IDIAKAISMM---KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENG  221 (413)
T ss_dssp             GCSEEEE-EESSCCCH-HH-HHHHHHHHHT---TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccCCeEE-eCCCCccH-HH-HHHHHHHHhc---CCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcC
Confidence            4455555 77652111 11 1222223332   78999999999962       111112222    33332    1222


Q ss_pred             ---CeEEEecC--CCCCCHHHHHHHHHHHHH
Q 042687          149 ---LSFLETSA--LEALNVEKAFQTILLDIY  174 (217)
Q Consensus       149 ---~~~~~vSa--~~~~gv~~~~~~l~~~~~  174 (217)
                         ..++.+|+  .++.|++++.+.+.+.+-
T Consensus       222 ~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lp  252 (413)
T 1tq4_A          222 IAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  252 (413)
T ss_dssp             CSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             CCCCcEEEEecCcCCccCHHHHHHHHHHhCc
Confidence               36788999  566679999999887653

>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=98.84  E-value=8.5e-09  Score=79.78  Aligned_cols=102  Identities=13%  Similarity=0.020  Sum_probs=70.7

Q ss_pred             EEecCChh-hhccchhhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHH
Q 042687           65 IWDTAGQE-RYRAITSAYYRGAVGALLVYDITKRQTFD--NVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQ  141 (217)
Q Consensus        65 i~D~~G~~-~~~~~~~~~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  141 (217)
                      |-..|||. .........+..+|+++.|+|+.++.+..  .+..|+        .++|.++|+||+|+.+...  .+...
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 44555667789999999999999887654  333332        2799999999999976221  12233


Q ss_pred             HHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          142 ILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       142 ~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      .+....+++++.+||.++.|++++++.+.+.+.+.
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            44445578999999999999999999888766543

>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=98.52  E-value=8e-08  Score=74.31  Aligned_cols=57  Identities=21%  Similarity=0.416  Sum_probs=35.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ..++|+++|.+|||||||+|+|.+........ ..+++.....+..+.   .+.++||||.
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~-~~g~T~~~~~~~~~~---~~~l~DtpG~  175 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKNIAKTGD-RPGITTSQQWVKVGK---ELELLDTPGI  175 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCceeecCC-CCCeeeeeEEEEeCC---CEEEEECcCc
Confidence            45899999999999999999999876432221 112222222233333   4679999995

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.49  E-value=4.1e-08  Score=75.11  Aligned_cols=56  Identities=20%  Similarity=0.344  Sum_probs=34.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      ++|+++|.+|+|||||+|+|.+...... .++.+.+.....+..+.   .+.+|||||..
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtpG~~  155 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSV-GAQPGITKGIQWFSLEN---GVKILDTPGIL  155 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEEC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccccc-CCCCCCccceEEEEeCC---CEEEEECCCcc
Confidence            6999999999999999999998765322 22222222222223332   46799999964

>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=98.48  E-value=4.8e-07  Score=73.82  Aligned_cols=86  Identities=17%  Similarity=0.049  Sum_probs=51.2

Q ss_pred             EEEEEEecCChhhhccc----hh--hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRAI----TS--AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~----~~--~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.|+||+|.......    ..  .....+|.+++|+|+.......   .....+...   -.+..||+||.|...   
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~---~~a~~f~~~---~~i~gVIlTKlD~~~---  253 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAY---NQALAFKEA---TPIGSIIVTKLDGSA---  253 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH---HHHHHHHHS---CTTEEEEEECCSSCS---
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHH---HHHHHHHhh---CCCeEEEEECCCCcc---
Confidence            45779999994321110    11  1234678999999987643322   222334333   234678999999754   


Q ss_pred             cCHHHHHHHHHHcCCeEEEecC
Q 042687          135 VAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                       ....+..+....++|+..++.
T Consensus       254 -~gG~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          254 -KGGGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             -SHHHHHHHHHTTCCCEEEEEC
T ss_pred             -cccHHHHHHHHHCCCEEEEEc
Confidence             122344555677889888875

>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=98.42  E-value=1e-07  Score=74.32  Aligned_cols=90  Identities=13%  Similarity=0.083  Sum_probs=60.8

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHHHHHHcCCeE
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQT-FDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQILAEKEGLSF  151 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~  151 (217)
                      ..+.+..+.++|.+++|+|+.+|.. ...+.+++.....   .++|.+||+||+|+.+....  ...+...+....|.++
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v  153 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDV  153 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCE
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeE
Confidence            3444557899999999999987653 3344444433322   38899999999999764320  1223444445568899


Q ss_pred             EEecCCCCCCHHHHHH
Q 042687          152 LETSALEALNVEKAFQ  167 (217)
Q Consensus       152 ~~vSa~~~~gv~~~~~  167 (217)
                      +.+||.++.|+++++.
T Consensus       154 ~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          154 YLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EECCHHHHTTCTTTGG
T ss_pred             EEEecCCCCCHHHHHh
Confidence            9999998888765544

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.40  E-value=1.6e-07  Score=71.83  Aligned_cols=93  Identities=11%  Similarity=-0.021  Sum_probs=62.0

Q ss_pred             cCChhh-hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH
Q 042687           68 TAGQER-YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK  146 (217)
Q Consensus        68 ~~G~~~-~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~  146 (217)
                      .|||.. ........+.++|++|.|+|+.++.+.....  +.    ..  ++|.++|+||+|+.+...  .+....+...
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~--l~----ll--~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG--VD----FS--RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT--SC----CT--TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH--HH----hc--CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            366642 2334566789999999999999876543210  11    11  789999999999976321  1233344455


Q ss_pred             cCCeEEEecCCCCCCHHHHHHHHHH
Q 042687          147 EGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus       147 ~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      .++++ .+||.++.|++++++.+.+
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 9999999999999887754

>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=98.31  E-value=2.5e-06  Score=69.71  Aligned_cols=83  Identities=16%  Similarity=0.035  Sum_probs=46.8

Q ss_pred             EEEEEEecCChhhhc----cchhh--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCC-e-EEEEEeCCCCccc
Q 042687           61 VKAQIWDTAGQERYR----AITSA--YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNI-V-IMMAGNKSDLNHL  132 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~----~~~~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p-~ivv~nK~Dl~~~  132 (217)
                      +.+.|+||||.....    .....  .+..+|.+++|+|+.....   .......+..    .. | ..+|+||.|....
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~----~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFKE----AVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHHT----TSCSCEEEEEECSSSCST
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHhh----cccCCeEEEEeCCCCccc
Confidence            456799999954211    11111  1236899999999865432   1122222222    34 5 7899999997531


Q ss_pred             cccCHHHHHHHHHHcCCeEEEe
Q 042687          133 RAVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~v  154 (217)
                          ...+..+....+.|+..+
T Consensus       254 ----~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          254 ----GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             ----THHHHHHHHHSSCCEEEE
T ss_pred             ----hHHHHHHHHHHCCCEEEe
Confidence                112334566667766554

>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=98.31  E-value=8.2e-07  Score=75.07  Aligned_cols=63  Identities=13%  Similarity=0.109  Sum_probs=38.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCC-CcceeeEEEEE--EE-CCeEEEEEEEecCChh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKS-TIGVEFATRTL--QV-EGKTVKAQIWDTAGQE   72 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~-t~~~~~~~~~~--~~-~~~~~~~~i~D~~G~~   72 (217)
                      .+.++|+|+|.+|||||||+|+|.+......... +.+.+......  .. ......+.++||||..
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            4568999999999999999999998764322111 11111112111  11 1122357799999953

>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=98.24  E-value=1.8e-06  Score=70.34  Aligned_cols=90  Identities=14%  Similarity=0.027  Sum_probs=53.0

Q ss_pred             EEEEEEecCChhh--hcc----chhh--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           61 VKAQIWDTAGQER--YRA----ITSA--YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        61 ~~~~i~D~~G~~~--~~~----~~~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      +.+.++||||...  ...    ....  .....|.+++|+|+...+...   .....+.+.   -.+..||+||.|... 
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~---~~a~~f~~~---~~~~gVIlTKlD~~a-  252 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAY---DLASRFHQA---SPIGSVIITKMDGTA-  252 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGH---HHHHHHHHH---CSSEEEEEECGGGCS-
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHH---HHHHHHhcc---cCCcEEEEecccccc-
Confidence            4567999999532  111    1111  122568999999997643322   223344433   245778999999653 


Q ss_pred             cccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687          133 RAVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                         ....+..+....+.|+..++.  |.++
T Consensus       253 ---~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ---KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ---CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ---cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence               223455556667899888875  4443

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.19  E-value=3.8e-06  Score=71.70  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      ..|+|+|+.|||||||++.+.+-..
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~   70 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVAL   70 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCC
Confidence            3599999999999999999988643

>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=98.15  E-value=9.3e-06  Score=64.59  Aligned_cols=85  Identities=13%  Similarity=0.115  Sum_probs=56.4

Q ss_pred             hhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC-HHHHHHHHHHcCCeEEEecCCC
Q 042687           81 YYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA-AEDAQILAEKEGLSFLETSALE  158 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~vSa~~  158 (217)
                      ...++|.+++|... +|. +...+.+++......   ++|.+||+||+|+.+..... ..+........|++++.+|+.+
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 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            46899999988665 454 334445554433333   78889999999997633210 1122233345688999999999


Q ss_pred             CCCHHHHHHHH
Q 042687          159 ALNVEKAFQTI  169 (217)
Q Consensus       159 ~~gv~~~~~~l  169 (217)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99999877643

>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=98.13  E-value=4.5e-06  Score=64.95  Aligned_cols=91  Identities=15%  Similarity=0.048  Sum_probs=54.4

Q ss_pred             EEEEEEecCChhh--hc-cchh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcc
Q 042687           61 VKAQIWDTAGQER--YR-AITS-----AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNH  131 (217)
Q Consensus        61 ~~~~i~D~~G~~~--~~-~~~~-----~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~  131 (217)
                      +.+.++||||...  .. .+..     .....+|.+++|+|+....   ........+..    ..+ ..+|+||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            4577999999654  21 1111     1245789999999986432   22222223332    244 678899999643


Q ss_pred             ccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687          132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                          ....+..+....++|+..++  .|.++++
T Consensus       254 ----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          254 ----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             ----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence                12345567777888988876  4555543

>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=98.05  E-value=3e-07  Score=76.20  Aligned_cols=113  Identities=14%  Similarity=0.118  Sum_probs=64.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh--hhccch--------hh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE--RYRAIT--------SA   80 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~--~~~~~~--------~~   80 (217)
                      ..+.|+++|.+||||||+.++|....... ...+.............+......+||..|.+  ..+..+        ..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~  116 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRK  116 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            45789999999999999999987543211 11111100000000001111233578988873  223333        45


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      ++...++.++|+|.++. ..+....|+..+...   +.+++.+-..++
T Consensus       117 ~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~---~~~vv~l~~~~~  160 (469)
T 1bif_A          117 FLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN---GYKTFFVESICV  160 (469)
T ss_dssp             HHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH---TCEEEEEEECCC
T ss_pred             HHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc---CCcEEEEEEECC
Confidence            56667888999999987 455666777666654   445555543333

>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=97.91  E-value=1.4e-05  Score=62.96  Aligned_cols=90  Identities=13%  Similarity=0.057  Sum_probs=50.4

Q ss_pred             EEEEecCChhhhccch----hh--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC
Q 042687           63 AQIWDTAGQERYRAIT----SA--YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA  136 (217)
Q Consensus        63 ~~i~D~~G~~~~~~~~----~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~  136 (217)
                      +.++|++|........    ..  ..-..|-.+++.|+....   .+......+....   -..++++||.|... +   
T Consensus       214 ~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~---~it~iilTKlD~~a-~---  283 (328)
T 3e70_C          214 VVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAV---KIDGIILTKLDADA-R---  283 (328)
T ss_dssp             EEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHS---CCCEEEEECGGGCS-C---
T ss_pred             hhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhc---CCCEEEEeCcCCcc-c---
Confidence            4579999953221111    11  112468889999976543   3333334444332   22467789999532 1   


Q ss_pred             HHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687          137 AEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus       137 ~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      .-.+..+....+.|+..++  +|.++++
T Consensus       284 ~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          284 GGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             CHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             hhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            2235566777889988886  5555543

>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=97.65  E-value=5.9e-05  Score=61.73  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=22.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+..-|.|+|++++|||||+|+|++
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhh
Confidence            3567899999999999999999986

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=97.49  E-value=0.0013  Score=48.14  Aligned_cols=85  Identities=14%  Similarity=0.096  Sum_probs=55.5

Q ss_pred             EEEEEEecCCh-hhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHH
Q 042687           61 VKAQIWDTAGQ-ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAED  139 (217)
Q Consensus        61 ~~~~i~D~~G~-~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  139 (217)
                      +.+.++|+|+. ..  ......+..+|.+|++...+ ..++..+..++..+....  +.++.+|+|+.|.....  ...+
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~--~~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPSK--DGDE  140 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTSC--HHHH
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccch--HHHH
Confidence            45779999886 32  23445677899999998875 556677777777766633  45688999999864301  1234


Q ss_pred             HHHHHHHcCCeEE
Q 042687          140 AQILAEKEGLSFL  152 (217)
Q Consensus       140 ~~~~~~~~~~~~~  152 (217)
                      ..+.....+.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            4555555666554

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.48  E-value=0.00058  Score=55.82  Aligned_cols=83  Identities=18%  Similarity=0.109  Sum_probs=45.0

Q ss_pred             EEEEEEecCChhhhc-cchh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccc
Q 042687           61 VKAQIWDTAGQERYR-AITS-----AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLR  133 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~-~~~~-----~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~  133 (217)
                      +.+.|+||||..... ....     .....++.+++|+|+......   ......+..    ..+ ..+|+||.|... +
T Consensus       184 ~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~---~~~~~~f~~----~l~i~gvVlnK~D~~~-~  255 (433)
T 2xxa_A          184 YDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDA---ANTAKAFNE----ALPLTGVVLTKVDGDA-R  255 (433)
T ss_dssp             CSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTH---HHHHHHHHH----HSCCCCEEEECTTSSS-C
T ss_pred             CCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHH---HHHHHHHhc----cCCCeEEEEecCCCCc-c
Confidence            457799999954321 1111     124478899999998754322   122223332    233 347889999743 1


Q ss_pred             ccCHHHHHHHHHHcCCeEEEe
Q 042687          134 AVAAEDAQILAEKEGLSFLET  154 (217)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~v  154 (217)
                       ..  .+..+....+.|+..+
T Consensus       256 -~g--~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          256 -GG--AALSIRHITGKPIKFL  273 (433)
T ss_dssp             -CT--HHHHHHHHHCCCEEEE
T ss_pred             -HH--HHHHHHHHHCCCeEEE
Confidence             11  3334555566664443

>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=97.48  E-value=6.2e-05  Score=53.99  Aligned_cols=23  Identities=30%  Similarity=0.793  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+++|+|++|+|||||++.+.+.
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988764

>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=97.43  E-value=0.00026  Score=55.08  Aligned_cols=22  Identities=64%  Similarity=0.871  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++++|++|||||||+|.|. ..
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

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.39  E-value=8.5e-05  Score=53.24  Aligned_cols=22  Identities=32%  Similarity=0.668  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|+|++|||||||++.|.+.
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            6899999999999999999763

>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=97.37  E-value=4e-05  Score=59.72  Aligned_cols=24  Identities=38%  Similarity=0.559  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.++|+|++|||||||+|.|.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            478999999999999999998754

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.34  E-value=0.00011  Score=53.64  Aligned_cols=23  Identities=39%  Similarity=0.638  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|+|++|||||||++.|.+.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46899999999999999998763

>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=97.32  E-value=0.00013  Score=57.93  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++|+|++|||||||+|.|.+...
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            589999999999999999987654

>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=97.29  E-value=0.00019  Score=51.68  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|+|++|||||||++.|.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            46999999999999999999775

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.23  E-value=0.00017  Score=52.53  Aligned_cols=23  Identities=17%  Similarity=0.421  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --|+|+|++|||||||++.|.+.
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            35899999999999999999764

>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=97.21  E-value=0.00018  Score=53.28  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .--++|+|++|||||||++.|.+..
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            3468999999999999999998743

>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=97.20  E-value=0.00019  Score=52.26  Aligned_cols=23  Identities=43%  Similarity=0.661  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --|+|+|++|||||||+++|.+.
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            46899999999999999999864

>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=52.55  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =-++|+|++|||||||++.+.+..
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            358999999999999999987643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.18  E-value=0.00018  Score=51.04  Aligned_cols=20  Identities=45%  Similarity=0.669  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHh
Q 042687           14 KIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~   33 (217)
                      -++++|++|||||||++.+.
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            58999999999999999754

>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=97.17  E-value=0.00024  Score=55.32  Aligned_cols=24  Identities=33%  Similarity=0.387  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++++|++|||||||+|.|.+...
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             eEEEECCCCCcHHHHHHHhccccc
Confidence            578999999999999999987543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.17  E-value=0.00021  Score=50.79  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+|+|++||||||+.+.|..
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            699999999999999998864

>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=97.17  E-value=0.00022  Score=51.47  Aligned_cols=21  Identities=43%  Similarity=0.719  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|+||+|||||||+++|...
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            799999999999999999754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.16  E-value=0.0002  Score=52.93  Aligned_cols=24  Identities=29%  Similarity=0.661  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.++|+|++|||||||++.|.+..
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            358999999999999999988743

>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=97.16  E-value=0.0017  Score=52.82  Aligned_cols=85  Identities=20%  Similarity=0.128  Sum_probs=46.9

Q ss_pred             EEEEEEecCChhhhcc-chh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRA-ITS-----AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~-~~~-----~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      +.+.|+||||...... ...     ...-.+|.+++|+|+....   ........+....   ....+|+||.|... + 
T Consensus       181 ~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tgq---~av~~a~~f~~~l---~i~GVIlTKlD~~~-~-  252 (425)
T 2ffh_A          181 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQ---EALSVARAFDEKV---GVTGLVLTKLDGDA-R-  252 (425)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHT---CCCEEEEESGGGCS-S-
T ss_pred             CCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccchH---HHHHHHHHHHhcC---CceEEEEeCcCCcc-c-
Confidence            3577999999532211 111     1123678899999986432   2222223333321   12467889998642 1 


Q ss_pred             cCHHHHHHHHHHcCCeEEEec
Q 042687          135 VAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vS  155 (217)
                        ...+..+....+.|+..+.
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              1234455667788877665

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.15  E-value=0.00024  Score=52.08  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .....|+|+|++|||||||++.|.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44578999999999999999988764

>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=97.13  E-value=0.00025  Score=52.05  Aligned_cols=24  Identities=38%  Similarity=0.571  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      --|+|+|++|||||||++.|....
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            468999999999999999998653

>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=97.09  E-value=0.00036  Score=49.47  Aligned_cols=22  Identities=41%  Similarity=0.546  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++|||||||.+.|.+
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            5799999999999999998865

>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=97.05  E-value=0.00033  Score=49.13  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =-++++|+.|+|||||++.+.+..
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            358999999999999999998754

>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=97.04  E-value=0.00031  Score=52.62  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            47999999999999999887643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.01  E-value=0.00039  Score=49.14  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++|||||||.+.|.+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999865

>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=97.01  E-value=0.00041  Score=48.87  Aligned_cols=20  Identities=30%  Similarity=0.421  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHH
Q 042687           13 FKIVLIGDSGVGKSNILSRF   32 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l   32 (217)
                      ..|+|.|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999999

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.01  E-value=0.00037  Score=50.72  Aligned_cols=24  Identities=42%  Similarity=0.624  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ..|+|+|++|||||||++.|.+..
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            479999999999999999997754

>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=96.99  E-value=0.00044  Score=51.50  Aligned_cols=26  Identities=27%  Similarity=0.584  Sum_probs=22.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....-|+|.|+.|||||||++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            45578999999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.98  E-value=0.00036  Score=51.84  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            47899999999999999987643

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.98  E-value=0.00038  Score=50.77  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...-|+|+|++|||||||++.|...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3457899999999999999998753

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.98  E-value=0.00041  Score=50.74  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....|+|+|+.|||||||++.|.+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999988763

>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=96.97  E-value=0.00041  Score=49.88  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|++|||||||++.|.+
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            578999999999999999975

>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=96.96  E-value=0.0019  Score=47.05  Aligned_cols=22  Identities=23%  Similarity=0.525  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|.|++|+|||+|++.+...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999988753

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.96  E-value=0.00044  Score=51.95  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            47899999999999999988753

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.95  E-value=0.00042  Score=50.10  Aligned_cols=22  Identities=27%  Similarity=0.619  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|+|||||++.+.+.
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            5899999999999999998764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.95  E-value=0.0018  Score=44.35  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..|+|.|++|+|||++.+.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            46999999999999999988653

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.95  E-value=0.00053  Score=48.66  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++||||||+.+.|..
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            4689999999999999999976

>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=96.94  E-value=0.00049  Score=48.43  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|++||||||+.+.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999864

>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=96.93  E-value=0.00047  Score=50.89  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            47899999999999999987753

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.93  E-value=0.00048  Score=50.08  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-.|+|+|++|||||||++.|.+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999865

>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=96.92  E-value=0.00054  Score=51.52  Aligned_cols=21  Identities=29%  Similarity=0.692  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      ..|+|+|++|||||||++.|.
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            579999999999999999998

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.92  E-value=0.00051  Score=50.96  Aligned_cols=22  Identities=36%  Similarity=0.709  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++||||||+.+.|..
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            6899999999999999998863

>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=96.91  E-value=0.00047  Score=52.88  Aligned_cols=23  Identities=30%  Similarity=0.576  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47999999999999999987744

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.91  E-value=0.00047  Score=52.49  Aligned_cols=23  Identities=43%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
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            47899999999999999987753

>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=96.91  E-value=0.00068  Score=49.11  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...|+|.|++||||||+.+.|...
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC
Confidence            368999999999999999998764

>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=96.91  E-value=0.00048  Score=51.65  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            58999999999999999987753

>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=96.90  E-value=0.00055  Score=48.81  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-++|+|++|||||||+++|...
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

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.90  E-value=0.00053  Score=50.36  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>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=96.89  E-value=0.00052  Score=52.39  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            47899999999999999988754

>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=96.88  E-value=0.00057  Score=50.19  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999854

>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=96.88  E-value=0.00051  Score=52.15  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            58899999999999999987754

>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=96.87  E-value=0.0006  Score=51.32  Aligned_cols=23  Identities=43%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            68999999999999999987753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.87  E-value=0.00054  Score=52.15  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =.++|+|+.|||||||++.+.+-
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            46899999999999999998763

>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=96.87  E-value=0.00055  Score=51.02  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            57899999999999999987753

>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=96.86  E-value=0.00076  Score=48.85  Aligned_cols=35  Identities=23%  Similarity=0.261  Sum_probs=23.1

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687            1 MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus         1 m~~~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |++.+-+..-.-+.|+|.|..||||||+.+.|...
T Consensus         1 ~~~~~~~~~~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A            1 MGSDKIHHHHHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             ---------CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcccccccccceEEEEECCCCCCHHHHHHHHHHh
Confidence            55555555667789999999999999999988653

>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=96.86  E-value=0.00061  Score=48.53  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|.|++||||||+.+.|..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>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=96.86  E-value=0.00057  Score=52.09  Aligned_cols=23  Identities=43%  Similarity=0.585  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            57899999999999999987653

>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=96.85  E-value=0.00062  Score=51.38  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            58899999999999999987753

>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=96.85  E-value=0.00058  Score=51.32  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            57899999999999999988753

>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=96.84  E-value=0.00055  Score=48.81  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .-.++|+|++|+|||||++.+.+..
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3568999999999999999987643

>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=96.84  E-value=0.0006  Score=51.75  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            57899999999999999988753

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.83  E-value=0.00071  Score=49.11  Aligned_cols=22  Identities=36%  Similarity=0.628  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|+|+|++||||||+.+.|..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>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=96.83  E-value=0.00068  Score=49.69  Aligned_cols=22  Identities=27%  Similarity=0.625  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|+|+|||||+|...+|..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>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=96.83  E-value=0.00062  Score=51.45  Aligned_cols=23  Identities=35%  Similarity=0.628  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            57899999999999999987753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.83  E-value=0.0007  Score=49.05  Aligned_cols=21  Identities=38%  Similarity=0.707  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|.+||||||+.+.|..
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            689999999999999998865

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.83  E-value=0.00064  Score=49.41  Aligned_cols=22  Identities=36%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|.+|||||||.+.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>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=96.82  E-value=0.00064  Score=51.39  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|+|||||++.+.+-
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            5789999999999999999875

>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=96.82  E-value=0.00064  Score=49.44  Aligned_cols=22  Identities=36%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+|+|+|++||||||+.+.|.+
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            4799999999999999999876

>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=96.81  E-value=0.00067  Score=52.75  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =.++|+|++|+|||||++.|.+-
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhh
Confidence            36899999999999999998763

>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=96.81  E-value=0.0039  Score=49.25  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|.|++|+|||||++.+.+.
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999988763

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.80  E-value=0.00048  Score=50.60  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|+|||||++.+.+.
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            5889999999999999999876

>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=96.80  E-value=0.00069  Score=51.73  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|||||||++.+.+-
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            5789999999999999999875

>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=96.80  E-value=0.00087  Score=52.36  Aligned_cols=27  Identities=26%  Similarity=0.219  Sum_probs=23.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .....-|+|+|++|||||||++.|.+-
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhh
Confidence            345678999999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.80  E-value=0.00072  Score=51.44  Aligned_cols=22  Identities=36%  Similarity=0.534  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|||||||++.+.+-
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            5899999999999999998874

>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=96.79  E-value=0.00095  Score=48.68  Aligned_cols=25  Identities=20%  Similarity=0.368  Sum_probs=22.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....|+|+|++|||||||.+.|.+.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4568999999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.79  E-value=0.00067  Score=51.93  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            57999999999999999987753

>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=96.79  E-value=0.00073  Score=47.91  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++||||||+.+.|..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999875

>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=96.79  E-value=0.0009  Score=48.73  Aligned_cols=22  Identities=36%  Similarity=0.594  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.|+|+|++||||||+.+.|.+
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            5799999999999999999976

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.78  E-value=0.00082  Score=48.17  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            3699999999999999998865

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.78  E-value=0.00076  Score=51.84  Aligned_cols=23  Identities=35%  Similarity=0.569  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            57999999999999999987754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.78  E-value=0.001  Score=47.49  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|.|++||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999864

>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=96.76  E-value=0.0008  Score=49.72  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++||||||+.+.|.+
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            5799999999999999998865

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.76  E-value=0.00073  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            47899999999999999988754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.76  E-value=0.00046  Score=51.37  Aligned_cols=23  Identities=26%  Similarity=0.527  Sum_probs=15.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh-cC
Q 042687           13 FKIVLIGDSGVGKSNILSRFT-RN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~-~~   35 (217)
                      --|+|+|++|||||||++.|. +.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            368999999999999999998 54

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.75  E-value=0.00075  Score=51.52  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            57899999999999999987653

>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=96.73  E-value=0.00092  Score=47.85  Aligned_cols=22  Identities=23%  Similarity=0.250  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++||||||+.+.|..
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            5799999999999999998864

>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=96.73  E-value=0.00097  Score=48.73  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999999865

>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=96.73  E-value=0.001  Score=48.30  Aligned_cols=24  Identities=21%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+.|+|.|.+||||||+.+.|..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998864

>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=96.73  E-value=0.0011  Score=49.87  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..++|+|.|++||||||+.+.|..
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            457999999999999999999864

>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=96.72  E-value=0.00088  Score=49.40  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|+|.+||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998854

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.70  E-value=0.0013  Score=47.71  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....|+|.|.+||||||+.+.|..
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            446899999999999999998864

>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=96.70  E-value=0.00098  Score=47.83  Aligned_cols=22  Identities=18%  Similarity=0.400  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999999864

>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=96.69  E-value=0.001  Score=47.61  Aligned_cols=24  Identities=21%  Similarity=0.458  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..+|+|+|++||||||+.+.|...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999998654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.69  E-value=0.00099  Score=50.74  Aligned_cols=23  Identities=26%  Similarity=0.593  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+..
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            58999999999999999988754

>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=96.69  E-value=0.00091  Score=49.10  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998864

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.68  E-value=0.0011  Score=49.92  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....|+|+|+.|||||||++.|.+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998876

>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=96.68  E-value=0.00083  Score=49.62  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =-++|+|++|+|||||++.+.+.
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999874

>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=96.68  E-value=0.0011  Score=48.05  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...|+|+|++|||||||.+.|.+.
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999988653

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.67  E-value=0.001  Score=47.43  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+++|++||||||+.+.|..
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            4799999999999999999864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.65  E-value=0.00043  Score=49.20  Aligned_cols=22  Identities=23%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|+|++|||||||++.|.+.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.65  E-value=0.0012  Score=48.07  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            6799999999999999999865

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.64  E-value=0.0013  Score=47.16  Aligned_cols=22  Identities=23%  Similarity=0.552  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.64  E-value=0.0012  Score=50.91  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...-|+|.|++|||||||.++|..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999999864

>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=96.64  E-value=0.0014  Score=50.57  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=21.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+|+|++|||||||++.|..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4557899999999999999998754

>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=96.63  E-value=0.0012  Score=46.76  Aligned_cols=22  Identities=14%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++|||||||+.+|..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999876

>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=96.60  E-value=0.0015  Score=49.53  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999999865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.59  E-value=0.0015  Score=51.18  Aligned_cols=26  Identities=23%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....+-|+|+|++|||||||++.|.+
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34557899999999999999998854

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.59  E-value=0.00078  Score=46.69  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|++|+|||+|++.+.+..
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            58899999999999999987643

>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=96.59  E-value=0.00093  Score=53.36  Aligned_cols=24  Identities=17%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-+++|+|++|+|||||++.|.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999998774

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.59  E-value=0.0014  Score=45.98  Aligned_cols=21  Identities=43%  Similarity=0.488  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+|.|.+||||||+.+.|..
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            699999999999999998865

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.58  E-value=0.0015  Score=47.59  Aligned_cols=23  Identities=26%  Similarity=0.083  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            36799999999999999999865

>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=96.57  E-value=0.0011  Score=52.71  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999988754

>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=96.56  E-value=0.0012  Score=52.57  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|+|+.|||||||++.+.+.
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            7999999999999999998763

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.56  E-value=0.0012  Score=50.51  Aligned_cols=21  Identities=24%  Similarity=0.514  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999998763

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.56  E-value=0.0014  Score=48.45  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|++||||||+.+.|..
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            699999999999999998854

>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=96.55  E-value=0.0012  Score=51.36  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-.|+|+|+.|||||||++.+.+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            34789999999999999999864

>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=96.55  E-value=0.00077  Score=52.48  Aligned_cols=22  Identities=45%  Similarity=0.673  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|||||||++.+.+-
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCchHHHHHHHHHcC
Confidence            6899999999999999988764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.55  E-value=0.002  Score=47.59  Aligned_cols=21  Identities=24%  Similarity=0.531  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|+|+|||||+|...+|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366799999999999998864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.55  E-value=0.0015  Score=47.45  Aligned_cols=25  Identities=16%  Similarity=0.214  Sum_probs=21.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+|+|++|||||||++.|.+
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999998865

>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=96.55  E-value=0.0012  Score=50.94  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            57999999999999999987753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.54  E-value=0.0013  Score=52.26  Aligned_cols=23  Identities=39%  Similarity=0.544  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999988754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.52  E-value=0.0014  Score=51.02  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..--++++|+.|||||||++.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999998865

>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=96.51  E-value=0.0015  Score=47.32  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..|+|.|.+||||||+.+.|...
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            57999999999999999998764

>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=96.50  E-value=0.0014  Score=52.16  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
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            47899999999999999988754

>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=96.50  E-value=0.0014  Score=52.17  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            47899999999999999988754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.49  E-value=0.0015  Score=52.14  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999988754

>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=96.49  E-value=0.0016  Score=50.71  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+|+|+.|||||||++.|.+
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999998876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.49  E-value=0.0021  Score=45.97  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....|+|+|.+||||||+.+.|..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            346799999999999999998865

>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=96.49  E-value=0.0015  Score=49.28  Aligned_cols=21  Identities=29%  Similarity=0.670  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ++|+|++|+|||||++.+.+.
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            999999999999999998763

>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=96.49  E-value=0.0018  Score=46.27  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999998864

>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=96.49  E-value=0.0015  Score=52.39  Aligned_cols=23  Identities=39%  Similarity=0.603  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|++|||||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999998754

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.48  E-value=0.0012  Score=48.71  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++||||||+.+.|..
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            5799999999999999998864

>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=96.48  E-value=0.0017  Score=49.03  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...+.|+|.|++||||||+.+.|..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.48  E-value=0.0018  Score=46.01  Aligned_cols=23  Identities=39%  Similarity=0.676  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988664

>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=96.45  E-value=0.0014  Score=51.57  Aligned_cols=23  Identities=17%  Similarity=0.440  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
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            68999999999999999988743

>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=96.45  E-value=0.0016  Score=52.10  Aligned_cols=23  Identities=39%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47899999999999999988753

>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=96.45  E-value=0.0016  Score=52.18  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999988754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.45  E-value=0.0014  Score=52.22  Aligned_cols=24  Identities=25%  Similarity=0.527  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.|+|+|+.|||||||++.+.+-.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            479999999999999999998743

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.44  E-value=0.0016  Score=49.19  Aligned_cols=21  Identities=14%  Similarity=0.344  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|+|++|||||||.+.|..
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            589999999999999999864

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.44  E-value=0.0018  Score=46.37  Aligned_cols=21  Identities=24%  Similarity=0.354  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|.+||||||+.+.|..
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            589999999999999999865

>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=96.43  E-value=0.0017  Score=52.05  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|+|++|||||||++.+.+.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46999999999999999998763

>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=96.43  E-value=0.0019  Score=48.10  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+|+|+|.+||||||+.+.|..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.40  E-value=0.002  Score=50.75  Aligned_cols=22  Identities=27%  Similarity=0.607  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+|+|++|||||||..+|..
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            5799999999999999998864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.40  E-value=0.0014  Score=49.48  Aligned_cols=25  Identities=32%  Similarity=0.394  Sum_probs=21.5

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+++|++||||||+.+.|..
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            3457899999999999999998864

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.39  E-value=0.0019  Score=46.41  Aligned_cols=22  Identities=23%  Similarity=0.444  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999998864

>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=96.39  E-value=0.00061  Score=49.82  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|.|.+||||||+++.|..
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            489999999999999999865

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.37  E-value=0.002  Score=47.45  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.|+|+|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998854

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.36  E-value=0.0019  Score=46.47  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|.|.+||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998865

>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=96.33  E-value=0.0019  Score=52.45  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|+|+.|||||||++.+.+.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998764

>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=96.31  E-value=0.0034  Score=46.67  Aligned_cols=25  Identities=20%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...-|+|.|++||||||+++.|...
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            4578999999999999999998753

>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=96.31  E-value=0.0018  Score=46.19  Aligned_cols=22  Identities=45%  Similarity=0.600  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998864

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.30  E-value=0.0021  Score=49.11  Aligned_cols=21  Identities=29%  Similarity=0.670  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|+|++|+|||||++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999998763

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.30  E-value=0.0025  Score=48.13  Aligned_cols=21  Identities=29%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHh
Q 042687           13 FKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~   33 (217)
                      ..|+|+|++|||||||++.|.
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            579999999999999999987

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.29  E-value=0.0022  Score=51.05  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..--|+|+|+.|||||||++.|.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            345789999999999999998865

>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=96.29  E-value=0.0013  Score=52.10  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            47899999999999999988754

>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=96.29  E-value=0.0024  Score=44.94  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998864

>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=96.29  E-value=0.0028  Score=46.52  Aligned_cols=22  Identities=32%  Similarity=0.638  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.|+|.|.+||||||+.+.|..
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            6899999999999999999865

>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=96.29  E-value=0.0021  Score=50.60  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++++|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999998764

>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=96.28  E-value=0.002  Score=48.89  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .....|+|.|..||||||+++.|...
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHh
Confidence            34578999999999999999988653

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.27  E-value=0.0023  Score=47.18  Aligned_cols=22  Identities=32%  Similarity=0.501  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|+|++|+|||||++.+.+.
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            5789999999999999998754

>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=96.25  E-value=0.003  Score=44.84  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998865

>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=96.25  E-value=0.0022  Score=51.67  Aligned_cols=22  Identities=45%  Similarity=0.773  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5899999999999999998764

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.23  E-value=0.0022  Score=53.48  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.|+|+|++|||||||++.+.+-.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            359999999999999999997643

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.22  E-value=0.0017  Score=46.22  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=15.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.+.|..
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            5799999999999999999864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.21  E-value=0.0021  Score=45.49  Aligned_cols=23  Identities=35%  Similarity=0.634  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|.|++|+|||+|++.+...
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988654

>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=96.21  E-value=0.012  Score=48.13  Aligned_cols=25  Identities=16%  Similarity=0.169  Sum_probs=20.9

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~   33 (217)
                      ..+..-|.|+|+.++|||+|+|.|.
T Consensus        64 ~~~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           64 DKEVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             TSBEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCchhHHHHHHH
Confidence            3466788899999999999999554

>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=96.21  E-value=0.0026  Score=45.23  Aligned_cols=21  Identities=33%  Similarity=0.425  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.+|+|+.|+|||||+.++..
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            468999999999999999854

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.19  E-value=0.0032  Score=44.17  Aligned_cols=23  Identities=35%  Similarity=0.509  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-.|+|.|.+||||||+.+.|..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998854

>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=96.17  E-value=0.0026  Score=52.59  Aligned_cols=23  Identities=35%  Similarity=0.778  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .--|+|+|+.|||||||++.|.+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHH
Confidence            35789999999999999998865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.16  E-value=0.0029  Score=47.69  Aligned_cols=23  Identities=17%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|+|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35999999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.15  E-value=0.004  Score=48.71  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++|||||||...|..
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            4799999999999999998864

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=96.15  E-value=0.013  Score=43.41  Aligned_cols=87  Identities=10%  Similarity=0.034  Sum_probs=45.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEE-ec-CChhhhccc-----hhhh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW-DT-AGQERYRAI-----TSAY   81 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~-D~-~G~~~~~~~-----~~~~   81 (217)
                      +..++-|++.|+++.|||+|++++.+......      ................+-|| |. +....+...     ....
T Consensus        26 P~nkilvl~~~~~~~~~~~~~~~lf~~~~~~~------~i~k~v~w~TKYYsa~V~IwVDe~~~l~~W~~EF~SdEA~EV   99 (233)
T 3uc9_A           26 PQNKILVLSDHPHNFLKTQFLQDLFHCSSTGI------SIVKDQTWENRYYKVHFDLYIDSCKDIPVWVEEFITPECEPL   99 (233)
T ss_dssp             CCCEEEEEEEGGGHHHHHHHHHHHHCCCCCSS------CEEEEEEEECSSCEEEEEEEEEEESCHHHHHHHHTSGGGHHH
T ss_pred             CCCceEEEecCcccccHHHHHHHHhccccccc------ccccCCeeeeceEEEEcceEEEecCCHHHHHHHhcCHHHHHH
Confidence            34445566669999999999999987632111      11122233334444444443 44 322211111     1112


Q ss_pred             hcCCcEEEEEEeCCChhhHH
Q 042687           82 YRGAVGALLVYDITKRQTFD  101 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~  101 (217)
                      ....+++|+|++...+...+
T Consensus       100 R~viggII~~f~~p~~~~~~  119 (233)
T 3uc9_A          100 RNVMAGIILITDIRQTKPQE  119 (233)
T ss_dssp             HHTEEEEEEEECHHHHCGGG
T ss_pred             HHhcceEEEEEeCCCcchHH
Confidence            23458899999865444333

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.14  E-value=0.0033  Score=45.46  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..|+|.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988753

>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=96.14  E-value=0.0036  Score=48.07  Aligned_cols=24  Identities=38%  Similarity=0.542  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+.|+|.|.+||||||+.+.|..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999863

>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=96.14  E-value=0.0033  Score=46.52  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.++|.|++|+|||+|++.+...
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999988653

>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=96.13  E-value=0.0013  Score=52.25  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999988754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.13  E-value=0.0023  Score=52.67  Aligned_cols=24  Identities=21%  Similarity=0.440  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -.++|+|+.|||||||++.|.+-.
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCcc
Confidence            479999999999999999987743

>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=96.12  E-value=0.11  Score=40.30  Aligned_cols=21  Identities=19%  Similarity=0.406  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +++.|++|+|||++++.+...
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            455566999999999998653

>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=96.10  E-value=0.0022  Score=50.23  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      --++|+|+.|||||||++.+.+..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            467899999999999999998653

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.10  E-value=0.0031  Score=50.01  Aligned_cols=24  Identities=33%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =+++|+|+.|+|||||++.+.+..
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            378999999999999999998764

>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=96.09  E-value=0.0036  Score=49.89  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=20.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHH
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRF   32 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l   32 (217)
                      ...+||+|+|..|||||||++++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            35689999999999999999876

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.08  E-value=0.0031  Score=47.62  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|+|+|++||||||+.+.|..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>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=96.07  E-value=0.0036  Score=46.72  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+.|+|.|++||||||+.+.|..
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            47899999999999999998863

>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=96.06  E-value=0.003  Score=48.76  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|++|+|||||+..+.+..
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            58899999999999999887643

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.04  E-value=0.0036  Score=45.79  Aligned_cols=21  Identities=14%  Similarity=0.124  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|++|+|||||+..+..
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            589999999999999999987

>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=96.03  E-value=0.0043  Score=45.37  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...|+|+|.+||||||+.+.|..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998865

>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=96.03  E-value=0.0036  Score=46.49  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|+|++|+|||||+..+...
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            5899999999999999999874

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.01  E-value=0.025  Score=45.09  Aligned_cols=19  Identities=32%  Similarity=0.618  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHhHHh
Q 042687           15 IVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~   33 (217)
                      .+|+|+.|+|||||++.++
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            5699999999999999986

>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=95.95  E-value=0.0048  Score=42.65  Aligned_cols=19  Identities=37%  Similarity=0.686  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHhHHh
Q 042687           15 IVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~   33 (217)
                      .+|+|+.|+|||||+.++.
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            5789999999999999975

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.93  E-value=0.0059  Score=47.13  Aligned_cols=25  Identities=24%  Similarity=0.213  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...-|++.|++|+|||+|.+.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3356788899999999999998753

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.92  E-value=0.0036  Score=45.69  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+++.|++|+|||+++.++..
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            599999999999999988865

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.92  E-value=0.0066  Score=47.17  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+|+|++|||||+|...|..
T Consensus        11 ~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHH
Confidence            4588999999999999999864

>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=95.89  E-value=0.0053  Score=47.38  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|.+||||||+.++|..
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            4699999999999999999875

>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=95.87  E-value=0.0044  Score=49.67  Aligned_cols=22  Identities=14%  Similarity=0.196  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|+|+|++|+|||||++.+.+
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999999875

>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=95.86  E-value=0.0048  Score=45.42  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|.|++|+|||+|++.+...
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            5899999999999999988653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.85  E-value=0.005  Score=51.79  Aligned_cols=24  Identities=21%  Similarity=0.414  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =.++|+|+.|+|||||++.+.+..
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999998754

>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=95.85  E-value=0.022  Score=41.09  Aligned_cols=85  Identities=11%  Similarity=-0.042  Sum_probs=54.6

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCccccccCHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNHLRAVAAE  138 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~  138 (217)
                      +.+.++|+|+..  .......+..+|.+|++...+.. + ..+..++..+....  ..+.++.+|+|+.|....  . ..
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~--~-~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT--M-LN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE--E-EH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch--H-HH
Confidence            456799999865  23345566779999999987643 3 56666666665543  235677999999995431  1 23


Q ss_pred             HHHHHHHHcCCeEE
Q 042687          139 DAQILAEKEGLSFL  152 (217)
Q Consensus       139 ~~~~~~~~~~~~~~  152 (217)
                      +..++...++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            44555555565544

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.85  E-value=0.0053  Score=42.07  Aligned_cols=23  Identities=17%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..|+|.|++|+|||++.+.+...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            46999999999999999998764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.83  E-value=0.0046  Score=50.57  Aligned_cols=24  Identities=38%  Similarity=0.526  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =+++|+|++|+|||||++.+.+..
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            378999999999999999988754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.82  E-value=0.0048  Score=47.48  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-.|+|.|++|+|||+|++.+..
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            35799999999999999999876

>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=95.82  E-value=0.0047  Score=51.05  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|+.|+|||||++.+.+
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            578999999999999998865

>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=95.78  E-value=0.0053  Score=46.17  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++|+|||+|++.+..
T Consensus        40 ~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.78  E-value=0.0057  Score=45.53  Aligned_cols=25  Identities=20%  Similarity=0.295  Sum_probs=21.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+|+|++||||||+.+.|..
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            3457899999999999999998864

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.77  E-value=0.0056  Score=46.78  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|.|++|+|||+|++.+...
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            46999999999999999998653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.77  E-value=0.015  Score=45.64  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|.|++|+|||+|++.+..
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            4699999999999999999854

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.75  E-value=0.0062  Score=47.08  Aligned_cols=25  Identities=16%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .....|+|.|++|+|||+|++.+..
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3446799999999999999987654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.74  E-value=0.0052  Score=51.63  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|+|||||++.+.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            58999999999999999998754

>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=95.73  E-value=0.0052  Score=52.20  Aligned_cols=23  Identities=48%  Similarity=0.612  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            68999999999999999987643

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.73  E-value=0.0068  Score=45.06  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-++++|+|++||||||+..+|..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            457999999999999999998854

>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=95.71  E-value=0.0056  Score=47.44  Aligned_cols=23  Identities=17%  Similarity=0.391  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|.|++|+|||+|++.+.+.
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            46999999999999999998763

>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=95.70  E-value=0.0059  Score=51.82  Aligned_cols=23  Identities=48%  Similarity=0.680  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999987753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.68  E-value=0.0058  Score=52.08  Aligned_cols=23  Identities=30%  Similarity=0.575  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+..
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

>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=95.65  E-value=0.0059  Score=47.67  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|.|++|+|||+|++.+.+.
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998763

>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=95.64  E-value=0.0058  Score=46.74  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|++|+|||||+..+..
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            588999999999999998876

>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=95.61  E-value=0.0094  Score=45.29  Aligned_cols=25  Identities=20%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....++|.|++|+|||+|++.+...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4568999999999999999998763

>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=95.61  E-value=0.0074  Score=43.79  Aligned_cols=24  Identities=33%  Similarity=0.610  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ..|+|+|++|+|||+|...|....
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            468999999999999999997653

>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=95.60  E-value=0.0061  Score=47.19  Aligned_cols=85  Identities=13%  Similarity=0.111  Sum_probs=47.4

Q ss_pred             EEEEEEecCChhhhcc--c--hhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           61 VKAQIWDTAGQERYRA--I--TSAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~--~--~~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      ..+.|+||+|......  +  ....+.  ..+.+++|+|.+..  ...+..+...+...   + ..-+|+||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~l---~-~~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSSV---P-VNQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSSS---C-CCEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhcC---C-CCEEEEeCCCcccc--
Confidence            3577999999653221  1  112222  36778889987643  23444433333211   2 23466799996531  


Q ss_pred             cCHHHHHHHHHHcCCeEEEec
Q 042687          135 VAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vS  155 (217)
                        ...+.......++|+..++
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2255566777888876654

>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=95.57  E-value=0.007  Score=49.18  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..-|+|+|.+||||||+.++|..
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999875

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.57  E-value=0.0098  Score=45.95  Aligned_cols=25  Identities=20%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +.-.++|+|++|+|||+|++.+...
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHH
Confidence            3357999999999999999988764

>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=95.56  E-value=0.0072  Score=51.53  Aligned_cols=24  Identities=17%  Similarity=0.404  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =.++|+|+.|+|||||++.+.+..
T Consensus       118 e~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          118 MVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            368999999999999999988754

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.54  E-value=0.0053  Score=52.09  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|+|||||++.+.+-
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            6899999999999999988764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.51  E-value=0.0071  Score=50.81  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++|+|+.|+|||||++.+.+...
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~~  319 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEIT  319 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999987543

>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=95.51  E-value=0.0077  Score=46.85  Aligned_cols=86  Identities=20%  Similarity=0.149  Sum_probs=47.5

Q ss_pred             EEEEEecCChhhhccc-------hhhh-----hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           62 KAQIWDTAGQERYRAI-------TSAY-----YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~-------~~~~-----~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      .+.++|+||.......       ....     ....+.+++|.|.....  +.+.. ...+.+..  + ..-+|+||.|.
T Consensus       188 dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~~-a~~~~~~~--~-i~gvVlTk~D~  261 (306)
T 1vma_A          188 DVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQ-AKIFKEAV--N-VTGIILTKLDG  261 (306)
T ss_dssp             SEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHH-HHHHHHHS--C-CCEEEEECGGG
T ss_pred             CEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHHH-HHHHHhcC--C-CCEEEEeCCCC
Confidence            4679999995211110       0111     12478889999986332  22222 22233221  2 23567799995


Q ss_pred             ccccccCHHHHHHHHHHcCCeEEEecCC
Q 042687          130 NHLRAVAAEDAQILAEKEGLSFLETSAL  157 (217)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~vSa~  157 (217)
                      ..  .  .-.+..+....+.|+..+..-
T Consensus       262 ~~--~--gG~~l~~~~~~~~Pi~~i~~G  285 (306)
T 1vma_A          262 TA--K--GGITLAIARELGIPIKFIGVG  285 (306)
T ss_dssp             CS--C--TTHHHHHHHHHCCCEEEEECS
T ss_pred             cc--c--hHHHHHHHHHHCCCEEEEeCC
Confidence            32  1  224667778889998877543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.50  E-value=0.0082  Score=50.47  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++|+|+.|+|||||++.+.+...
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            588999999999999999987543

>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=95.48  E-value=0.007  Score=48.03  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|.|++|+|||||++.+.+.
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998763

>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=95.47  E-value=0.0091  Score=43.18  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|++||||||+.+.|..
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            699999999999999998855

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.44  E-value=0.0061  Score=51.94  Aligned_cols=23  Identities=35%  Similarity=0.625  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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            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=95.43  E-value=0.0088  Score=51.01  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++|+|+.|+|||||++.+.+...
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            589999999999999999987543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.42  E-value=0.0069  Score=45.00  Aligned_cols=24  Identities=29%  Similarity=0.264  Sum_probs=17.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...-|+|.|++||||||+++.|..
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998865

>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=95.39  E-value=0.0088  Score=46.09  Aligned_cols=22  Identities=41%  Similarity=0.792  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+++.|++|+|||+|++.+..
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.38  E-value=0.0086  Score=44.51  Aligned_cols=21  Identities=29%  Similarity=0.514  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -++|+|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999887754

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.38  E-value=0.0087  Score=46.86  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.|+|.|++|+|||+|++.+...
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHH
Confidence            357999999999999999998763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.37  E-value=0.0089  Score=48.65  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      --|++.|+||+|||+|++++.+
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999876

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.36  E-value=0.0069  Score=51.48  Aligned_cols=22  Identities=27%  Similarity=0.632  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|+.|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999988764

>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=95.35  E-value=0.0098  Score=47.36  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|.|++|+|||||++.+.+.
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998764

>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=95.34  E-value=0.0083  Score=47.58  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --+.|+|++|+|||||+..+...
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999998864

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.34  E-value=0.18  Score=37.20  Aligned_cols=86  Identities=12%  Similarity=0.056  Sum_probs=58.1

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.+.++|+|+..  .......+..+|.+|++.... ..+...+..++..+.........+.+|+|+.+...  ....   
T Consensus       119 yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~--~~~~---  190 (245)
T 3ea0_A          119 YDYIIVDFGASI--DHVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNS--RITS---  190 (245)
T ss_dssp             CSEEEEEEESSC--CTTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCT--TSCH---
T ss_pred             CCEEEEeCCCCC--chHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCC--CCCH---
Confidence            457799998754  223455677899999998875 66777777777777765433456789999998643  2222   


Q ss_pred             HHHHHHcCCeEEEe
Q 042687          141 QILAEKEGLSFLET  154 (217)
Q Consensus       141 ~~~~~~~~~~~~~v  154 (217)
                      +.+...++.+++.+
T Consensus       191 ~~~~~~~~~~v~~~  204 (245)
T 3ea0_A          191 DEIEKVIGRPISKR  204 (245)
T ss_dssp             HHHHHHHTSCEEEE
T ss_pred             HHHHHHhCCCeEEE
Confidence            33444567777655

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.31  E-value=0.0094  Score=48.61  Aligned_cols=24  Identities=17%  Similarity=0.256  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.|++.||||+|||+|++++.+.
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHHH
Confidence            357999999999999999998763

>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=95.31  E-value=0.0092  Score=46.97  Aligned_cols=22  Identities=23%  Similarity=0.613  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+++.|++|+||||+++.+.+.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998764

>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=95.28  E-value=0.013  Score=45.69  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +...|+|.|++|+|||+|++.+...
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            3457999999999999999998653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.27  E-value=0.013  Score=43.39  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...-|+|.|.+||||||+++.|..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.26  E-value=0.0099  Score=50.67  Aligned_cols=23  Identities=22%  Similarity=0.563  Sum_probs=20.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCcc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      ++|+|+.|+|||||++.+.+...
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            79999999999999999987543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.26  E-value=0.013  Score=46.37  Aligned_cols=23  Identities=30%  Similarity=0.586  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+|+|+|++|+||||+...|..
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            46899999999999999987654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.25  E-value=0.011  Score=45.94  Aligned_cols=23  Identities=35%  Similarity=0.570  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998865

>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=95.24  E-value=0.011  Score=45.95  Aligned_cols=23  Identities=17%  Similarity=0.397  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-|+|+|++|||||||..+|...
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHh
Confidence            35889999999999999998653

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.22  E-value=0.011  Score=48.36  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .--|++.|+||+|||+|++++.+.
T Consensus       215 prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          215 PKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            357999999999999999998763

>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=95.17  E-value=0.013  Score=42.70  Aligned_cols=20  Identities=35%  Similarity=0.617  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHh
Q 042687           14 KIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~   33 (217)
                      -.+|+|+.|+|||||+.++.
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            35788999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.15  E-value=0.013  Score=46.15  Aligned_cols=23  Identities=30%  Similarity=0.520  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-|+|+|++|||||||...|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999998653

>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=95.11  E-value=0.0052  Score=46.56  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|++.|++|+|||+|++.+...
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            4889999999999999998763

>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=95.11  E-value=0.012  Score=46.33  Aligned_cols=22  Identities=23%  Similarity=0.590  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+++.|++|+|||+|++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999988764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.08  E-value=0.01  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.++|.|++|+|||+|++.+...
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            347999999999999999998753

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.06  E-value=0.012  Score=47.36  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|++.|+||+|||.|.+++.+.
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEeCCCCCCHHHHHHHHHHh
Confidence            46999999999999999998763

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=95.06  E-value=0.093  Score=41.68  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.+|+|+.|+|||||++.+..
T Consensus        28 ~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            578999999999999999864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.06  E-value=0.015  Score=41.24  Aligned_cols=24  Identities=17%  Similarity=0.459  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .-|+|.|++|+|||||...|....
T Consensus        17 ~gvli~G~SGaGKStlal~L~~rG   40 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDRG   40 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            468999999999999999998744

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.02  E-value=0.015  Score=43.42  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..|+|.|..||||||+++.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            56999999999999999988653

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.00  E-value=0.014  Score=42.83  Aligned_cols=22  Identities=27%  Similarity=0.381  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+|.|.+||||||+++.|..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5789999999999999998854

>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=94.99  E-value=0.013  Score=46.44  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|+|.|++|+|||+|++.+...
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            46999999999999999998763

>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=94.97  E-value=0.015  Score=52.08  Aligned_cols=24  Identities=21%  Similarity=0.490  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .++|+|+.|+|||||++.+.++..
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            589999999999999999987544

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=94.96  E-value=0.014  Score=45.68  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|.|+.|+|||||++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5899999999999999998753

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.96  E-value=0.013  Score=46.34  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.++|.|++|+|||+|++.+...
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            47999999999999999998653

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.95  E-value=0.0018  Score=48.18  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ++|+|+.|+|||||++.+.+-.
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            4689999999999999987643

---

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	217
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	1e-56
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-56
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-53
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	8e-52
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	1e-51
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-51
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-50
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	7e-49
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	6e-48
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	7e-47
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	3e-46
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	6e-44
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-42
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-40
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	6e-40
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-39
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-38
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-37
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-36
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	8e-36
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	7e-35
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	7e-35
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-34
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	5e-34
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	9e-34
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-33
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	6e-33
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	9e-33
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	9e-33
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-31
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	8e-31
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-30
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	4e-30
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	6e-30
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-30
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	1e-29
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	4e-29
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-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	2e-26
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-25
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	1e-24
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-24
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-24
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-24
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-23
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-22
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-21
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	5e-21
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	5e-20
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-19
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	7e-19
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	4e-17
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	1e-15
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-15
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	9e-13
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	5e-11
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	5e-08
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	5e-07
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	1e-05
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	1e-05
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	2e-05
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	1e-04
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	1e-04
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	7e-04
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	0.001
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	0.001

>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 =  175 bits (445), Expect = 1e-56
 Identities = 134/175 (76%), Positives = 156/175 (89%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YDYLFK+VLIGDSGVGKSN+LSRFTRNEF LESKSTIGVEFATR++QV+GKT+KAQIWDT
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR ITSAYYRGAVGALLVYDI K  T++NV RWL+ELRDHADSNIVIM+ GNKSD
Sbjct: 61  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALA 183
           L HLRAV  ++A+  AEK  LSF+ETSAL++ NVE+AF+ IL +IY I+S+K +A
Sbjct: 121 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIA 175

>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 =  175 bits (444), Expect = 1e-56
 Identities = 88/172 (51%), Positives = 123/172 (71%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
            YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT++++GK +K QIWD
Sbjct: 2   TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 61

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R IT+AYYRGA+G +LVYDIT  ++FDN+  W+R + +HA +++  M+ GNK 
Sbjct: 62  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKC 121

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
           D+N  R V+ E  + LA   G+ F+ETSA   +NVE AF T+  DI   + K
Sbjct: 122 DVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 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 =  168 bits (426), Expect = 1e-53
 Identities = 86/175 (49%), Positives = 127/175 (72%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           EYDYLFK++LIG+SGVGKS +L RF+ + +  +  STIGV+F  +T++++GKTVK QIWD
Sbjct: 2   EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWD 61

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R ITS+YYRG+ G ++VYD+T +++F+ V  WL+E+  +A S ++ ++ GNK 
Sbjct: 62  TAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKC 121

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL 182
           DL   R V  + A+  A+   + FLETSAL++ NVE AF T+   I   +S++ L
Sbjct: 122 DLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNL 176

>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 =  163 bits (412), Expect = 8e-52
 Identities = 86/166 (51%), Positives = 116/166 (69%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y Y+FK ++IGD GVGKS +L +FT  +F  +   TIGVEF TR ++V G+ +K QIWDT
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDT 60

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+RA+T +YYRGA GAL+VYDIT+R T+++++ WL + R+  + N VI++ GNK+D
Sbjct: 61  AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKAD 120

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V  E+A+  AE+ GL FLE SA    NVE AF      IY
Sbjct: 121 LEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 166

>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 =  162 bits (411), Expect = 1e-51
 Identities = 78/168 (46%), Positives = 112/168 (66%), Gaps = 1/168 (0%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIW 66
            YD  FK++L+GDSGVGK+ +L RF    F   +  ST+G++F  + L V+G  VK Q+W
Sbjct: 2   FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 61

Query: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
           DTAGQER+R++T AYYR A   LL+YD+T + +FDN+  WL E+ ++A  ++ +M+ GNK
Sbjct: 62  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNK 121

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            D  H R V  ED + LA++ GL F+ETSA   LNV+ AF  I  ++ 
Sbjct: 122 VDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK 169

>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 = 4e-51
 Identities = 77/163 (47%), Positives = 112/163 (68%), Gaps = 1/163 (0%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           + KI+LIGDSGVGKS +L RF  ++F     +TIG++F  +T+ + GK VK QIWDTAGQ
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH 131
           ER+R IT+AYYRGA+G +LVYDIT  +TF N+ +W + + +HA+    +++ GNKSD+  
Sbjct: 62  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 121

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            R V A+  + LA++ G+ F+E+SA    NV + F T+   I 
Sbjct: 122 -RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQ 163

>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 =  159 bits (403), Expect = 2e-50
 Identities = 75/166 (45%), Positives = 114/166 (68%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWD 67
           +YD+LFKIVLIG++GVGK+ ++ RFT+  F     +TIGV+F  +T+++ G+ VK QIWD
Sbjct: 1   DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWD 60

Query: 68  TAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS 127
           TAGQER+R+IT +YYR A   +L YDIT  ++F  +  WLRE+  +A + ++ ++ GNK 
Sbjct: 61  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKI 120

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           DL   R V+ + A+  +E + + +LETSA E+ NVEK F  +   +
Sbjct: 121 DLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>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 =  155 bits (393), Expect = 7e-49
 Identities = 69/166 (41%), Positives = 111/166 (66%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           +DY+FKI++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIWDT
Sbjct: 2   FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQERYR IT+AYYRGA+G +L+YDIT  ++F+ V  W  +++ ++  N  +++ GNK D
Sbjct: 62  AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           +   R V++E  + LA+  G  F E SA + +NV++ F+ ++  I 
Sbjct: 122 MEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVIC 167

>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 =  153 bits (387), Expect = 6e-48
 Identities = 91/169 (53%), Positives = 119/169 (70%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           YLFK ++IGD+GVGKS +L +FT   F      TIGVEF  R + ++GK +K QIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QE +R+IT +YYRGA GALLVYDIT+R+TF+++T WL + R H+ SN+VIM+ GNKSDL 
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 121

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
             R V  E+ +  A + GL F+ETSA  A NVE+AF     +IY  I +
Sbjct: 122 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 170

>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 =  151 bits (381), Expect = 7e-47
 Identities = 72/184 (39%), Positives = 115/184 (62%), Gaps = 11/184 (5%)

Query: 8   EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK-------- 59
           +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +    +        
Sbjct: 1   DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 60

Query: 60  --TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN 117
              V  Q+WDTAGQER+R++T+A++R A+G LL++D+T +Q+F NV  W+ +L+ +A   
Sbjct: 61  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCE 120

Query: 118 -IVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
              I++ GNK+DL   R V    A+ LA+K G+ + ETSA    NVEKA +T+L  I   
Sbjct: 121 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKR 180

Query: 177 ISKK 180
           + + 
Sbjct: 181 MEQC 184

>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 =  148 bits (375), Expect = 3e-46
 Identities = 87/172 (50%), Positives = 116/172 (67%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           YD+LFK ++IG++G GKS +L +F   +F  +S  TIGVEF ++ + V GK VK QIWDT
Sbjct: 2   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 61

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
           AGQER+R++T +YYRGA GALLVYDIT R+T++ +T WL + R  A  NIVI++ GNK D
Sbjct: 62  AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
           L+  R V   +A   A++  L FLETSAL   NVE+AF      I + I   
Sbjct: 122 LDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESG 173

>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 =  143 bits (360), Expect = 6e-44
 Identities = 70/170 (41%), Positives = 99/170 (58%), Gaps = 2/170 (1%)

Query: 8   EYDYL--FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65
           + D L   KI++IG+SGVGKS++L RFT + F  E  +TIGV+F  +T+ V+G   K  I
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

Query: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           WDTAGQER+R +T +YYRGA G +LVYD+T+R TF  +  WL EL  +   N ++ M   
Sbjct: 61  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVG 120

Query: 126 KSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
                  R V   +    A K  + F+E SA     V+ AF+ ++  I  
Sbjct: 121 NKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ 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 =  139 bits (351), Expect = 1e-42
 Identities = 59/161 (36%), Positives = 109/161 (67%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+V +G+  VGK+++++RF  + F    ++TIG++F ++T+ +E +T++ Q+WDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+R++  +Y R +  A++VYDIT   +F   T+W+ ++R    S+++IM+ GNK+DL   
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           R V+ E+ +  A++  + F+ETSA    NV++ F+ +   +
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>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 = 64/164 (39%), Positives = 97/164 (59%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y FK+VL+G+  VGK++++ R+  N+F  +  +T+G  F T+ L + GK V   IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN 130
           QER+ A+   YYR + GA+LVYDIT   +F  V  W++ELR    + I + + GNK DL 
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 121

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
             R V+ ++A+  AE  G     TSA +   +E+ F  +   + 
Sbjct: 122 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 165

>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 =  132 bits (333), Expect = 6e-40
 Identities = 74/162 (45%), Positives = 109/162 (67%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+G+S VGKS+++ RF + +F    +STIG  F T+T+ ++  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           RY ++   YYRGA  A++VYDIT  ++F     W++EL+  A  NIVI ++GNK+DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           RAV  ++AQ  A+   L F+ETSA  ++NV + F  I   + 
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>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 =  131 bits (330), Expect = 2e-39
 Identities = 46/164 (28%), Positives = 87/164 (53%), Gaps = 2/164 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F    F  +   TI  +F  + ++V+      +I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDLNH 131
           ++ ++   Y +   G +LVY +  +Q+F ++     ++        + +++ GNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYH 175
            R V++ + + LAE+ G  F+ETSA     V++ F  I+  + +
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166

>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 =  129 bits (325), Expect = 1e-38
 Identities = 66/169 (39%), Positives = 104/169 (61%), Gaps = 6/169 (3%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
             LFK++L+GD GVGKS++++R+  N+F  +   TIGVEF  + L+V+G  V  QIWDTA
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGN 125
           GQER+R++ + +YRG+   LL + +   Q+F N++ W +E   +AD     +   ++ GN
Sbjct: 64  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 123

Query: 126 KSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTILLDI 173
           K D++  R V+ E+AQ      G   + ETSA +A NV  AF+  +  +
Sbjct: 124 KIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>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 (318), Expect = 2e-37
 Identities = 43/188 (22%), Positives = 74/188 (39%), Gaps = 17/188 (9%)

Query: 1   MAYKVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT 60
           MA         + K V++GD  VGK+ +L  +  + F  E   T+  +    ++ V GK 
Sbjct: 1   MA---HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQ 56

Query: 61  VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI 120
               ++DTAGQE Y  +    Y      L+ + +    +F NV             N+  
Sbjct: 57  YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPF 116

Query: 121 MMAGNKSDLNHLRA------------VAAEDAQILAEKEG-LSFLETSALEALNVEKAFQ 167
           ++ G + DL                 +  E  Q LA++ G   ++E SAL    ++  F 
Sbjct: 117 LLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFD 176

Query: 168 TILLDIYH 175
             ++ I  
Sbjct: 177 EAIIAILT 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 =  124 bits (312), Expect = 2e-36
 Identities = 42/181 (23%), Positives = 73/181 (40%), Gaps = 14/181 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N+F  E   T+  +    T+ + G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
            Y  +    Y      L+ + +    +F+NV         H       ++ G + DL   
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 133 RAVAA------------EDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDIYHIISK 179
            +               E A+ LA   + + ++E SAL    ++  F   +L        
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEP 182

Query: 180 K 180
           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 =  122 bits (306), Expect = 8e-36
 Identities = 56/164 (34%), Positives = 94/164 (57%), Gaps = 2/164 (1%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++G  GVGKS +  +F  +EF  + + T    +  +   ++G+ V+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKV-VLDGEEVQIDILDTAGQ 62

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLN 130
           E Y AI   Y+R   G L V+ IT+ ++F     +  + LR   D N+  ++ GNKSDL 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
             R V+ E+A+  A++  ++++ETSA    NV+K F  ++ +I 
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR 166

>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 (300), Expect = 7e-35
 Identities = 45/176 (25%), Positives = 76/176 (43%), Gaps = 14/176 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K V++GD  VGK+ +L  +T N F  E   T+  +  +  + V+GK V   +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
            Y  +    Y     +L+ + +    +F+NV         H   N  I++ G K DL   
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD 124

Query: 133 RAVAAE------------DAQILAEKEG-LSFLETSALEALNVEKAFQTILLDIYH 175
           +    +                +A++ G + +LE SAL    ++  F   +  +  
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 180

>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 =  119 bits (299), Expect = 7e-35
 Identities = 60/163 (36%), Positives = 94/163 (57%), Gaps = 5/163 (3%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           +FKI++IGDS VGK+ +  RF    F   +++TIGV+F  R + ++G+ +K Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 72  ERY-RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN-IVIMMAGNKSDL 129
           ER+ +++   YYR     + VYD+T   +F ++  W+ E + H  +N I  ++ GNK DL
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 121

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEAL---NVEKAFQTI 169
                V  + AQ  A+   +   ETSA       +VE  F T+
Sbjct: 122 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>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 =  118 bits (295), Expect = 3e-34
 Identities = 73/161 (45%), Positives = 101/161 (62%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ L+GD+GVGKS+I+ RF  + F      TIG  F T+T+Q + +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           R+RA+   YYRG+  A++VYDITK +TF  +  W+RELR H   +IV+ +AGNK DL  +
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 124

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           R V   DA+  A+     F+ETSA  A+N+ + F  I   I
Sbjct: 125 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 165

>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 =  117 bits (294), Expect = 5e-34
 Identities = 72/163 (44%), Positives = 101/163 (61%), Gaps = 3/163 (1%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+VL+G++ VGKS+I+ RF  N+F    + TIG  F T+ + +   TVK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH-- 131
           + ++   YYR A  AL+VYD+TK Q+F     W++EL + A  +I+I + GNK D+    
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 132 -LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             R VA E+ + LAE++GL F ETSA    NV   F  I   I
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 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 =  117 bits (293), Expect = 9e-34
 Identities = 63/167 (37%), Positives = 100/167 (59%), Gaps = 4/167 (2%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L K++++GDSGVGK+++++++   +F  + K+TIG +F T+ + V+ + V  QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS----NIVIMMAGNKS 127
           ER++++  A+YRGA   +LV+D+T   TF  +  W  E    A      N   ++ GNK 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 128 DLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           DL + +            K  + + ETSA EA+NVE+AFQTI  +  
Sbjct: 122 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNAL 168

>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 =  115 bits (288), Expect = 4e-33
 Identities = 50/166 (30%), Positives = 83/166 (50%), Gaps = 2/166 (1%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
               K+V++G  GVGKS +  +F ++ F          +  T+   V+G   +  I DTA
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFV-SDYDPTIEDSYTKICSVDGIPARLDILDTA 62

Query: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSD 128
           GQE + A+   Y R   G LLV+ I  RQ+F+ V +   + LR     +  +++ GNK+D
Sbjct: 63  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 122

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
           L   R V   +A        +++ E SA   LNV++AF+ ++  + 
Sbjct: 123 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVR 168

>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 =  114 bits (286), Expect = 6e-33
 Identities = 53/163 (32%), Positives = 88/163 (53%), Gaps = 3/163 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +  +N F  E   TI   +  + +    +T    I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDG-ETCLLDILDTAGQE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
            Y A+   Y R   G L V+ I   ++F+++ ++  +++   D  ++ +++ GNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            R V +  AQ LA   G+ ++ETSA     VE AF T++ +I 
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 =  114 bits (285), Expect = 9e-33
 Identities = 52/165 (31%), Positives = 94/165 (56%), Gaps = 2/165 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++V++G  GVGKS +  +F ++ F  +   TI  +  T+   ++ +  +  I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQE 64

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
            + A+   Y R   G LLV+ +T R +F+ + ++ R+ LR        +++ GNK+DL+H
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH 124

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHI 176
            R V  E+ Q LA +  ++++E SA   +NV++AF  ++  I   
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF 169

>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 =  114 bits (285), Expect = 9e-33
 Identities = 51/164 (31%), Positives = 86/164 (52%), Gaps = 3/164 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++G  GVGKS +  +F +  F  +   TI  +   + ++V+ +    +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLR-ELRDHADSNIVIMMAGNKSDLNH 131
           ++ A+   Y +   G  LVY IT + TF+++       LR     ++ +++ GNK DL  
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 132 LRAVAAEDAQILAEK-EGLSFLETSALEALNVEKAFQTILLDIY 174
            R V  E  Q LA +    +FLE+SA   +NV + F  ++  I 
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>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 (276), Expect = 2e-31
 Identities = 53/164 (32%), Positives = 91/164 (55%), Gaps = 3/164 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K+V++GD GVGKS +  +F +  F  +   TI   +   T +++ +     + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQE 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLR-ELRDHADSNIVIMMAGNKSDLNH 131
            + A+   Y R   G L+VY +T + +F++V R+ +  LR     +  +++  NK DL H
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEA-LNVEKAFQTILLDIY 174
           LR V  +  + +A K  + ++ETSA +  LNV+K F  ++  I 
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR 167

>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 =  109 bits (273), Expect = 8e-31
 Identities = 41/170 (24%), Positives = 74/170 (43%), Gaps = 14/170 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+V++GD   GK+ +L   ++++F      T+  E     ++V+GK V+  +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
            Y  +    Y      L+ + I    + +N+         H   N+ I++ GNK DL + 
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 133 RAV------------AAEDAQILAEKEG-LSFLETSALEALNVEKAFQTI 169
                            E+ + +A + G   ++E SA     V + F+  
Sbjct: 122 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMA 171

>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 =  108 bits (270), Expect = 2e-30
 Identities = 34/165 (20%), Positives = 61/165 (36%), Gaps = 9/165 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G    GK+ IL +    +    +  T+G    T T     K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVETVT----YKNVKFNVWDVGGQD 67

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLREL-RDHADSNIVIMMAGNKSDLNH 131
           + R +   YY G  G + V D   R   D   + L  +  D    + +I++  NK DL  
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 132 LR---AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
                 +  +               + A     + +    +  + 
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>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 =  107 bits (267), Expect = 4e-30
 Identities = 59/161 (36%), Positives = 94/161 (58%), Gaps = 1/161 (0%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV  + V+  +WDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR 133
           + AIT AYYRGA   +LV+  T R++F+ ++ W  ++      +I   +  NK DL    
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDS 122

Query: 134 AVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIY 174
            +  E+A+ LA++  L F  TS  E LNV + F+ +     
Sbjct: 123 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL 163

>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 =  107 bits (266), Expect = 6e-30
 Identities = 59/171 (34%), Positives = 100/171 (58%), Gaps = 7/171 (4%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV-KAQIWDTAG 70
           + K++++GDSGVGK++++ R+  +++  + K+TIG +F T+ + V+G  V   Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 71  QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSN----IVIMMAGNK 126
           QER++++  A+YRGA   +LVYD+T   +F+N+  W  E   HA+ N       ++ GNK
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 127 SDLNHLRAVAAEDAQILAEKE--GLSFLETSALEALNVEKAFQTILLDIYH 175
            D    + + +E +     K    +    TSA  A+NV+ AF+ I      
Sbjct: 122 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 172

>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 =  106 bits (265), Expect = 6e-30
 Identities = 28/164 (17%), Positives = 57/164 (34%), Gaps = 9/164 (5%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           +I+++G    GK+ IL +    E       T           VE K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKS---DL 129
            R +   Y++   G + V D   R+  +     L   L +    + V+++  NK    + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            +   +  +               T A     + +    +   +
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>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 =  106 bits (265), Expect = 1e-29
 Identities = 43/174 (24%), Positives = 83/174 (47%), Gaps = 15/174 (8%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           KIV++GDS  GK+ +L  F ++ F      T+  E  T + +++ + ++  +WDT+G   
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL---- 129
           Y  +    Y  +   L+ +DI++ +T D+V +  +        N  +++ G KSDL    
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV 122

Query: 130 --------NHLRAVAAEDAQILAEKEG-LSFLETSALEALN-VEKAFQTILLDI 173
                   +    V+ +    +A++ G  +++E SAL++ N V   F    L  
Sbjct: 123 STLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 176

>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 (261), Expect = 4e-29
 Identities = 53/161 (32%), Positives = 82/161 (50%), Gaps = 3/161 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           FK+VL+GD G GK+  + R    EF  +  +T+GVE            +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
           ++  +   YY  A  A++++D+T R T+ NV  W R+L    + NI I++ GNK D+   
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDR 122

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           +  A         K+ L + + SA    N EK F  +   +
Sbjct: 123 KVKAKSIVF--HRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>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 =  103 bits (256), Expect = 2e-28
 Identities = 45/173 (26%), Positives = 83/173 (47%), Gaps = 7/173 (4%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +++ + G  GVGKS+++ RF +  F      T+   +       +      QI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDK-SICTLQITDTTGSH 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD--SNIVIMMAGNKSDLN 130
           ++ A+           +LVY IT RQ+ + +     ++ +      +I IM+ GNK D +
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 131 HLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKALA 183
             R V + +A+ LA     +F+ETSA    NV++ FQ +L    ++  ++ ++
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL----NLEKRRTVS 170

>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 = 37/174 (21%), Positives = 70/174 (40%), Gaps = 13/174 (7%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ IL R    E    +K TIG    T    +  K +K  +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNH 131
             R     YY      + V D T +      ++ L  +    +  +  +++  NK D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 132 ---LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL 182
                 V+ E   +  +    S + +SA++   + +    ++     +I ++ L
Sbjct: 133 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLI----DVIKEEQL 182

>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 = 98.3 bits (243), Expect = 2e-26
 Identities = 52/162 (32%), Positives = 81/162 (50%), Gaps = 2/162 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            KI ++G   VGKS++  +F   +F      TI   F T+ + V G+    Q+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQD 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNH 131
            Y      Y     G +LVY +T  ++F+ +     + L       I IM+ GNK DL+ 
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
            R ++ E+ + LAE    +FLE+SA E       F+ I+L+ 
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 = 97.8 bits (242), Expect = 2e-26
 Identities = 49/164 (29%), Positives = 81/164 (49%), Gaps = 4/164 (2%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ + G +GVGKS ++ RF    F  E   T+   +  +   ++ + V  +I DTAGQE
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQE 61

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLR-ELRDHADSNIVIMMAGNKSDLNH 131
                   + R   G +LVYDIT R +F+ V              N+ +++ GNK+DL+H
Sbjct: 62  DTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH 120

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEA-LNVEKAFQTILLDIY 174
            R V+ E+ + LA +   +F E SA     N+ + F  +  ++ 
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 = 95.2 bits (235), Expect = 2e-25
 Identities = 42/169 (24%), Positives = 78/169 (46%), Gaps = 3/169 (1%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
           +K++L+G  GVGKS +   F   E     ++        R++ V+G+     ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVED--GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI-MMAGNKSDLNH 131
             R +           ++VY +T + +F+  +    +LR    ++ V  ++ GNKSDL  
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 132 LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
            R V+ ++ +  A      F+ETSA    NV+  F+ ++  I      K
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 168

>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 = 93.5 bits (231), Expect = 1e-24
 Identities = 34/173 (19%), Positives = 69/173 (39%), Gaps = 7/173 (4%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ ++GD+  GKS+++ RF    +  +       E   + + V+G+T    I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSY--QVLEKTESEQYKKEMLVDGQTHLVLIREEAGAP 63

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD--LN 130
             +          +    + D    Q    +   L  LR      + + + G +     +
Sbjct: 64  DAKFSGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISAS 121

Query: 131 HLRAVAAEDAQILA-EKEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL 182
             R V    A+ L  + +  S+ ET A   LNV++ FQ +   +  +  ++ L
Sbjct: 122 SPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQL 174

>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 = 92.8 bits (229), Expect = 2e-24
 Identities = 29/165 (17%), Positives = 62/165 (37%), Gaps = 9/165 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K++++G    GK+ IL +F+ NE              +   ++     +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEV-----VHTSPTIGSNVEEIVINNTRFLMWDIGGQE 70

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNH 131
             R+  + YY      ++V D T R+        L ++  H D     +++  NK D+  
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 132 ---LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
              +  ++        +          AL    + +  + ++  +
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>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 = 92.5 bits (228), Expect = 3e-24
 Identities = 46/167 (27%), Positives = 81/167 (48%), Gaps = 3/167 (1%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDT 68
           +  +++VLIG+ GVGKS + + F      ++S    +G +   RTL V+G++    + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 69  A-GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNK 126
              +     +     +     L+VY IT R +F+  +    +  R     +I I++ GNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
           SDL   R V+  + +  A      F+ETSA    NV++ F+ I+  +
Sbjct: 121 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>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 = 91.7 bits (226), Expect = 5e-24
 Identities = 34/165 (20%), Positives = 60/165 (36%), Gaps = 9/165 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +++++G    GK+ IL +F   +       TI          +E +  K  IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNH 131
             R+    Y+    G + V D   RQ   +  R L+  L +   +   +++  NK DL  
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 132 LRAVA---AEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             +                       SA+   ++      +L DI
Sbjct: 118 ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>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 = 89.6 bits (221), Expect = 4e-23
 Identities = 34/174 (19%), Positives = 63/174 (36%), Gaps = 9/174 (5%)

Query: 4   KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKA 63
           K+    D   +I+L+G    GK+ +L +    +    +  T G    +       +  K 
Sbjct: 8   KLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKSVQ----SQGFKL 62

Query: 64  QIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMM 122
            +WD  GQ + R    +Y+      + V D   R+ F+   + L EL +    S + +++
Sbjct: 63  NVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLI 122

Query: 123 AGNKSDL---NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLDI 173
             NK DL        +A                  SAL    V+     +  ++
Sbjct: 123 FANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 86.7 bits (213), Expect = 3e-22
 Identities = 31/162 (19%), Positives = 64/162 (39%), Gaps = 8/162 (4%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            ++ L+G    GK+  ++     +F  +   T+G        ++    V  ++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR----KITKGNVTIKLWDIGGQP 58

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDL-- 129
           R+R++   Y RG    + + D   ++  +     L  L D      I +++ GNK DL  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 130 -NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
               + +  +      +   +     S  E  N++   Q ++
Sbjct: 119 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI 160

>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 = 84.6 bits (208), Expect = 4e-21
 Identities = 26/207 (12%), Positives = 60/207 (28%), Gaps = 47/207 (22%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K++L+G    GKS  + +            T G+         + ++V  ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP----FDLQSVIFRMVDVGGQR 56

Query: 73  RYRAITSAYYRGAVGALLVYDIT-----------KRQTFDNVTRWLRELRDHADSNIVIM 121
             R      +      + +  ++           + +  ++   +   +      N  ++
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKEG--------------------------LSFLETS 155
           +  NK DL   + + +       E +G                          +    T 
Sbjct: 117 LFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTC 176

Query: 156 ALEALNVEKAFQTILLDIYHIISKKAL 182
           A +  N+   F      +   I +  L
Sbjct: 177 ATDTENIRFVFA----AVKDTILQLNL 199

>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 = 83.6 bits (205), Expect = 5e-21
 Identities = 28/167 (16%), Positives = 63/167 (37%), Gaps = 16/167 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
           K++ +G    GK+ +L     +       +T+   +   + ++    +K   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADS-NIVIMMAGNKSDLNH- 131
            R +   Y+    G + + D    + FD     L  L + A+  ++  ++ GNK D  + 
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 132 ---------LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
                    L  +    +Q +  +  +     S +      +AFQ +
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWL 163

>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 = 82.5 bits (203), Expect = 5e-20
 Identities = 22/143 (15%), Positives = 45/143 (31%), Gaps = 19/143 (13%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y    +++L+G    GKS I+ +            T G+         +   V   ++D 
Sbjct: 3   YRATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFETK----FQVDKVNFHMFDV 54

Query: 69  AGQERYRAITSAYYRGAVGALLVY-----------DITKRQTFDNVTRWLRELRDHADSN 117
            GQ   R      +      + V            D    +  + +  +     +     
Sbjct: 55  GGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRT 114

Query: 118 IVIMMAGNKSDLNHLRAVAAEDA 140
           I +++  NK DL   + +A +  
Sbjct: 115 ISVILFLNKQDLLAEKVLAGKSK 137

>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 = 80.1 bits (196), Expect = 1e-19
 Identities = 32/172 (18%), Positives = 60/172 (34%), Gaps = 12/172 (6%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            +I+++G  G GK+ IL R    E       T           V  K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNH 131
             R     YY      + V D   R         L  + +       ++++  NK D+  
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 132 LRAVAA---EDAQILAEKEGLSFLETSALEALNVEKAFQTILLDIYHIISKK 180
               +           +       +TSA +   +++A + +   +  + S++
Sbjct: 121 AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWL---VETLKSRQ 169

>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 = 78.8 bits (193), Expect = 7e-19
 Identities = 30/158 (18%), Positives = 48/158 (30%), Gaps = 18/158 (11%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L KI+L+G    GKS  L +            T G+         E K V  ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQ 54

Query: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-----------LRDHADSNIVI 120
              R      +      L +   ++        R               + +   SN+ I
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE 158
           ++  NK+DL   +           E EG         +
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK 152

>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 = 74.2 bits (181), Expect = 4e-17
 Identities = 26/194 (13%), Positives = 53/194 (27%), Gaps = 46/194 (23%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K++L+G    GKS I+ +           +  G+           K +  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHE-----AGTGIV----ETHFTFKDLHFKMFDVGGQR 53

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTR-----------WLRELRDHADSNIVIM 121
             R      + G    +    ++                     +     +   ++  I+
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKEGLSFL--------------------------ETS 155
           +  NK DL   +   +       E  G +                             T 
Sbjct: 114 LFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTC 173

Query: 156 ALEALNVEKAFQTI 169
           A +  NV+  F  +
Sbjct: 174 ATDTKNVQFVFDAV 187

>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 = 70.1 bits (170), Expect = 1e-15
 Identities = 26/181 (14%), Positives = 52/181 (28%), Gaps = 21/181 (11%)

Query: 9   YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT 68
           Y    K+V +G    GK+ +L     +                 + ++    +    +D 
Sbjct: 10  YKKTGKLVFLGLDNAGKTTLLHMLKDDRLG-----QHVPTLHPTSEELTIAGMTFTTFDL 64

Query: 69  AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKS 127
            G  + R +   Y     G + + D    +        L   + D   +N+ I++ GNK 
Sbjct: 65  GGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKI 124

Query: 128 DLNHLRAVA---------------AEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD 172
           D     +                    +        L     S L+     + F+ +   
Sbjct: 125 DRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY 184

Query: 173 I 173
           I
Sbjct: 185 I 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 = 70.0 bits (170), Expect = 2e-15
 Identities = 27/173 (15%), Positives = 62/173 (35%), Gaps = 17/173 (9%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73
            ++ +G    GK+ +  R    ++  +++++I    A   +          I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQY-RDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 74  YRAITSAYYRGAVGALLVYDITKRQTF-DNVTRWLRELRDHAD---SNIVIMMAGNKSDL 129
              +   +   A   + V D    Q    +V  +L ++   +    ++  +++A NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 130 NHLRAVAAEDAQILAEKE----------GLSFLETSALEALNVEKAFQTILLD 172
               A +A+  Q   EKE            S L++S+     + K  +     
Sbjct: 121 --AMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFS 171

>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 = 62.7 bits (151), Expect = 9e-13
 Identities = 32/199 (16%), Positives = 62/199 (31%), Gaps = 27/199 (13%)

Query: 11  YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70
           Y   I++ G    GK+++L+  T +      + T+  +        +G  V   + D  G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSGV--TLVDFPG 55

Query: 71  QERYRAITSAYYRGAVGA-----LLVYDITKRQTFDNVTRWLREL----RDHADSNIVIM 121
             + R   S Y +           +V      +       +L ++        ++ I I+
Sbjct: 56  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 122 MAGNKSDLNHLRAVAAEDAQILAEKE----------GLSFLETSALEALNVEKAFQTILL 171
           +A NKS+L    A      +   E E           L+ +E    E    E     +  
Sbjct: 116 IACNKSEL--FTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQS 173

Query: 172 DIYHIISKKALAAQEAASS 190
                 +    +      S
Sbjct: 174 TDGFKFANLEASVVAFEGS 192

>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 = 57.1 bits (136), Expect = 5e-11
 Identities = 24/157 (15%), Positives = 46/157 (29%), Gaps = 1/157 (0%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+V+ G    GKS++L+     E  + +    G         +    +   I DTAG  
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHIDGMPLHIIDTAGLR 60

Query: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL 132
                            +          D  T    +  +     I  + A     +   
Sbjct: 61  EASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRN 120

Query: 133 RAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           +A    +   ++E  G + +  SA     V+     +
Sbjct: 121 KADITGETLGMSEVNGHALIRLSARTGEGVDVLRNHL 157

>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 = 50.2 bits (119), Expect = 5e-08
 Identities = 20/152 (13%), Positives = 43/152 (28%), Gaps = 8/152 (5%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI--WDTAG 70
             + + G++G GKS+ ++         E  +  GV   T             +  WD  G
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPG 116

Query: 71  QERYRAITSAYYR--GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
                     Y              I+  +   N     + +         +     K D
Sbjct: 117 IGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKKEFYFVR---TKVD 173

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEAL 160
            + +   A  + Q   +++ L  +  + +   
Sbjct: 174 -SDITNEADGEPQTFDKEKVLQDIRLNCVNTF 204

>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 = 46.3 bits (108), Expect = 5e-07
 Identities = 23/170 (13%), Positives = 52/170 (30%), Gaps = 10/170 (5%)

Query: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69
           D   ++   G S  GKS+ L+  T  +    +  T G        +V        +    
Sbjct: 14  DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYG 73

Query: 70  GQ-------ERYRAITSAYYRGAVGALLVYDITKRQTF--DNVTRWLRELRDHADSNIVI 120
                     +++     Y         +  +   +    D   + +    D   + +V+
Sbjct: 74  YAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVL 133

Query: 121 MMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEKAFQTI 169
           +   +K      +A      + +    G +     S+L+   V+K  Q +
Sbjct: 134 LTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKL 183

>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 = 41.9 bits (97), Expect = 1e-05
 Identities = 29/166 (17%), Positives = 59/166 (35%), Gaps = 19/166 (11%)

Query: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG--- 70
           ++V++G   VGKS +L+R    +  + +    G      + ++  + +  +I DTAG   
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTD-IPGTTRDVISEEIVIRGILFRIVDTAGVRS 60

Query: 71  ------QERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAG 124
                 +      T      A   L V D +     ++     R         I  +   
Sbjct: 61  ETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVV 120

Query: 125 NKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            K +   ++     D  +         ++ SAL+   +EK  ++I 
Sbjct: 121 EKINEEEIKNKLGTDRHM---------VKISALKGEGLEKLEESIY 157

>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 = 42.0 bits (97), Expect = 1e-05
 Identities = 25/172 (14%), Positives = 49/172 (28%), Gaps = 14/172 (8%)

Query: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72
            K+ ++G   VGKS + +     E  L S    G        +V     K    DTAG  
Sbjct: 9   IKVAIVGRPNVGKSTLFNAILNKERALVSP-IPGTTRDPVDDEVFIDGRKYVFVDTAGLR 67

Query: 73  RYRAITSAYYRG-----------AVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI- 120
           R   +                      +++     +       R    +     +++V+ 
Sbjct: 68  RKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVF 127

Query: 121 -MMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL 171
                                + L   +    + TSA +  N+++    + L
Sbjct: 128 NKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNL 179

>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 = 41.2 bits (95), Expect = 2e-05
 Identities = 22/161 (13%), Positives = 52/161 (32%), Gaps = 7/161 (4%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ--- 71
           + L+G    GKS++L+  TR    +       +           +  +  + D  G    
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGV-VEVSEEERFTLADIPGIIEG 62

Query: 72  -ERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRW--LRELRDHADSNIVIMMAGNKSD 128
               + +   + R      ++  +         T     +E+  +  + +        + 
Sbjct: 63  ASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNK 122

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           ++ L   A +       +EGL+ L  SAL    +    + +
Sbjct: 123 VDLLEEEAVKALADALAREGLAVLPVSALTGAGLPALKEAL 163

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

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]

 Score = 39.3 bits (90), Expect = 1e-04
 Identities = 21/160 (13%), Positives = 41/160 (25%), Gaps = 5/160 (3%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           + ++G   VGKS +L+     +    S              +     +    DT G  + 
Sbjct: 8   VAIVGKPNVGKSTLLNNLLGVKVAPISP-RPQTTRKRLRGILTEGRRQIVFVDTPGLHKP 66

Query: 75  RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA 134
                 +    V   L          D       E    A +   ++       + +   
Sbjct: 67  MDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLD 126

Query: 135 VAAEDAQILAEKE----GLSFLETSALEALNVEKAFQTIL 170
            A    + +               SAL+   V +    +L
Sbjct: 127 AAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLL 166

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} 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: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 38.9 bits (89), Expect = 1e-04
 Identities = 23/164 (14%), Positives = 48/164 (29%), Gaps = 12/164 (7%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDT------ 68
           I ++G   VGKS +L++    +  + S+           +  EG      +         
Sbjct: 8   IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEE 67

Query: 69  --AGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNK 126
             A         S+        + V + T+    D +               VI+     
Sbjct: 68  KRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKL----REGKAPVILAVNKV 123

Query: 127 SDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
            ++     +      + ++   L  +  SA   LNV+     + 
Sbjct: 124 DNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVR 167

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} 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: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 37.0 bits (84), Expect = 7e-04
 Identities = 22/167 (13%), Positives = 45/167 (26%), Gaps = 9/167 (5%)

Query: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71
           L +I L G S VGKS+ ++     +    + S  G         +  +     +      
Sbjct: 23  LPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFA 82

Query: 72  ERYRAITS------AYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGN 125
           +  ++           Y      L                 ++         I +++   
Sbjct: 83  KVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIAT 142

Query: 126 KSDL---NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI 169
           K+D          A    Q L        +  S+      ++A+  I
Sbjct: 143 KADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAI 189

>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 = 36.6 bits (83), Expect = 0.001
 Identities = 27/176 (15%), Positives = 48/176 (27%), Gaps = 20/176 (11%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           I+  G S VGKS ++ R T  +     +  +  +      +              G  + 
Sbjct: 3   IIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKE 62

Query: 75  RAITSAYYRGAVGALLVY---------------DITKRQTFDNVTRWLRELRDHA-DSNI 118
                                            +I KR           E      + +I
Sbjct: 63  VQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDI 122

Query: 119 VIMMAGNKSDL----NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
             ++A NK D       +    AE  ++   +    F+  SA    N+E+    I 
Sbjct: 123 PTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIF 178

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 36.3 bits (82), Expect = 0.001
 Identities = 26/162 (16%), Positives = 52/162 (32%), Gaps = 10/162 (6%)

Query: 15  IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY 74
           ++++G   VGKS + ++  + +  +      GV        VE      ++ DT G    
Sbjct: 3   VLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDN 61

Query: 75  RAITSAYYRGAV------GALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSD 128
                +     V       A LV  +   +                 +   I++A    +
Sbjct: 62  PQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAEN 121

Query: 129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL 170
           L         +   L   E    +  SA   +N++   +TI+
Sbjct: 122 LREFEREVKPELYSLGFGE---PIPVSAEHNINLDTMLETII 160

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	217
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2ew1a1	171	Rab30 {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
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	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
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {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
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.92
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.92
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.92
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.92
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.9
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.89
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.89
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.89
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.88
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.88
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.87
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.87
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.86
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.86
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.86
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.85
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.83
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.81
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.79
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.78
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.76
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.73
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.71
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.7
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.69
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.68
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.68
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.59
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.56
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.51
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.43
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.39
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.38
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.33
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.27
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.19
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.06
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.05
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.64
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.59
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.44
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.43
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.33
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.32
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.28
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.24
d1okkd2	207	GTPase domain of the signal recognition particle r	98.24
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.23
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.15
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.13
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.09
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.68
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.65
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.63
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.6
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.57
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.5
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.48
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.47
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.44
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.4
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.38
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.35
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.34
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.33
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.31
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.31
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.28
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.21
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.19
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.18
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.15
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.15
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.14
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.12
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.1
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.09
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.07
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.05
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.04
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.04
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.03
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.02
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.0
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.98
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.98
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.97
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.96
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.96
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.95
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.94
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.93
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.93
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.91
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.9
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.89
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.89
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.88
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.83
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.81
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.79
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.79
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.79
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.79
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.77
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.77
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.76
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.75
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.75
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.72
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.72
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.71
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.7
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.69
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.62
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.61
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.59
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.59
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.57
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.56
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.52
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.5
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.5
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.45
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.36
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.35
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.31
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.25
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.22
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.21
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.18
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.07
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.07
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.05
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.04
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.02
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.91
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.81
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.77
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.74
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.71
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.7
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.62
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.6
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.53
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.52
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.51
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.45
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.4
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.38
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.24
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.19
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.1
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.09
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.07
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.96
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.94
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.93
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.92
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.89
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.87
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.84
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.79
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.78
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.67
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.61
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.53
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.51
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.48
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.44
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.43
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.37
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.31
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.24
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	94.17
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.17
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.14
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.09
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.93
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.62
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.42
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.31
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.1
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.8
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.73
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.54
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.52
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.36
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.98
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.73
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.93
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	90.55
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	90.45
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.67
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.41
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	88.58
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.38
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	87.83
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	87.42
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	86.87
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	86.73
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	85.51
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.3
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	85.27
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	85.16
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	85.15
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	85.13
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.73
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	84.6
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.54
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	84.26
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.88
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.75
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	83.47
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	83.31
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	83.23
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	83.15
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	82.67
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	81.83
d1t2da1	150	Lactate dehydrogenase {Malaria parasite (Plasmodiu	80.98

>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=3.7e-38  Score=226.56  Aligned_cols=167  Identities=41%  Similarity=0.778  Sum_probs=156.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      +++.+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+...+..+.+.+|||||++.+..++..+++.+|++
T Consensus         2 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~   81 (169)
T d3raba_           2 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   81 (169)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEE
T ss_pred             CCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            57889999999999999999999999999888888888888888888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||+++++++..+..|+..+........|+++++||+|+...+.+..++++.+++.+++++++|||++|.|++++|++
T Consensus        82 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~  161 (169)
T d3raba_          82 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFER  161 (169)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHH
Confidence            99999999999999999988887777778999999999999888888889999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          169 ILLDIYH  175 (217)
Q Consensus       169 l~~~~~~  175 (217)
                      |++.+.+
T Consensus       162 l~~~i~e  168 (169)
T d3raba_         162 LVDVICE  168 (169)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            9998764

>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=6.1e-38  Score=225.85  Aligned_cols=168  Identities=45%  Similarity=0.764  Sum_probs=157.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      +++.+||+|+|.+|||||||+++|..+.+...+.++.+.++....+.+++..+++.+|||+|++.+..++..+++++|++
T Consensus         2 ~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~   81 (171)
T d2ew1a1           2 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL   81 (171)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceE
Confidence            56789999999999999999999999999888888888899999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      ++|||++++.++..+..|+..+........|+++|+||+|+...+.+..++++.++...++++++|||++|.|++++|.+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~  161 (171)
T d2ew1a1          82 ILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLD  161 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHH
Confidence            99999999999999999999988877778999999999999887888888999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          169 ILLDIYHI  176 (217)
Q Consensus       169 l~~~~~~~  176 (217)
                      |++.+++.
T Consensus       162 l~~~l~~~  169 (171)
T d2ew1a1         162 LACRLISE  169 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99887654

>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=7.2e-38  Score=223.99  Aligned_cols=162  Identities=36%  Similarity=0.631  Sum_probs=152.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||+++|.++.+...+.+|.+.+........++..+.+.+||++|++.+..++..+++.+|++++|
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            48999999999999999999999999888899998888888899999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||++++++++.+..|+..+..... ++|+++|+||+|+.+.+.+..++++.+++.++++++++||++|.|++++|++|++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHC-SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccCC-CceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHH
Confidence            999999999999999999887765 7999999999999888888889999999999999999999999999999999999


Q ss_pred             HHH
Q 042687          172 DIY  174 (217)
Q Consensus       172 ~~~  174 (217)
                      .++
T Consensus       161 ~~l  163 (164)
T d1z2aa1         161 KHL  163 (164)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            875

>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=6.2e-38  Score=224.97  Aligned_cols=165  Identities=39%  Similarity=0.693  Sum_probs=148.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|.+|||||||+++|.++.+...+.+|.+.+........++..+.+.+||++|++.+..++..+++++|++|+
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            67999999999999999999999999999999999988988889999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++++++.+..|+..+........|+++++||+|+...+.+..++++.+++.+++++++|||++|.|++++|.+|+
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            99999999999999999888777666899999999999988888999999999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          171 LDIYH  175 (217)
Q Consensus       171 ~~~~~  175 (217)
                      +.+++
T Consensus       162 ~~i~~  166 (167)
T d1z08a1         162 KRMIE  166 (167)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            98753

>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=2.5e-37  Score=221.54  Aligned_cols=165  Identities=52%  Similarity=0.887  Sum_probs=155.3

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      +++.+||+|+|.+|||||||+++|.++.+...+.++.+.+.......+++..+.+.+||++|++.+..++..+++.+|++
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~   80 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   80 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEE
Confidence            36789999999999999999999999999988888888888888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||+++++++..+..|+..+........|+++++||+|+...+....++++.+++..++++++|||++|.|++++|.+
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~  160 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLE  160 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998887778999999999999887888888999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |++.+
T Consensus       161 i~~~i  165 (166)
T d1z0fa1         161 AAKKI  165 (166)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            99876

>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=5.4e-37  Score=221.66  Aligned_cols=170  Identities=77%  Similarity=1.184  Sum_probs=155.1

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ++.+||+|+|.+|||||||+++|.++.+...+.++.+.......+.+++..+.+.+||++|++.+...+..++..+|++|
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            67899999999999999999999999998888888888888888999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      +|||.++++++..+..|+..+......++|+++|+||+|+.+.+....+....+....+.+++++||++|.|++++|++|
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            99999999999999999999988887789999999999998777777777888888999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          170 LLDIYHIISK  179 (217)
Q Consensus       170 ~~~~~~~~~~  179 (217)
                      ++.+.+...+
T Consensus       162 ~~~i~~~~~~  171 (175)
T d2f9la1         162 LTEIYRIVSQ  171 (175)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhh
Confidence            9998776554

>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=3.8e-37  Score=222.23  Aligned_cols=170  Identities=51%  Similarity=0.826  Sum_probs=158.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      +++.+||+|+|.+|||||||+++|..+.+.+.+.++.+.......+..++..+.+.+||+||++.+..++..++..+|++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            57889999999999999999999999999888888888888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |+|||+++++++..+..|+..+......++|+++|+||+|+.........++..++...+++++++||++|.|++++|.+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~  161 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQ  161 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHH
Confidence            99999999999999999999988877778999999999999887888888899999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          169 ILLDIYHIIS  178 (217)
Q Consensus       169 l~~~~~~~~~  178 (217)
                      |++.+.+...
T Consensus       162 l~~~i~~~~~  171 (174)
T d2bmea1         162 CARKILNKIE  171 (174)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999876543

>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=8.8e-37  Score=220.12  Aligned_cols=169  Identities=54%  Similarity=0.894  Sum_probs=153.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|++|||||||+++|.++.+.+.+.++.+...........+..+.+.+||++|++.+..++..++..+|++|+
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            67899999999999999999999999988888888888888888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++++++.+..|+..+......++|++||+||+|+...+....+++..++...+++++++||++|.|++++|.+|+
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            99999999999999999998888777899999999999988788888899999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          171 LDIYHIISK  179 (217)
Q Consensus       171 ~~~~~~~~~  179 (217)
                      +.+.+...+
T Consensus       162 ~~i~~~~~~  170 (173)
T d2a5ja1         162 KEIYRKIQQ  170 (173)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            998765543

>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=4.4e-37  Score=221.73  Aligned_cols=168  Identities=30%  Similarity=0.504  Sum_probs=151.9

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ++...+||+|+|.+|||||||+++|+++.+...+.++. .+.....+.+++..+.+.+||++|++.+...+..+++++|+
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            45577999999999999999999999999988887775 45556778889999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      +|+|||++++.++..+..|+..+.... ..++|++||+||+|+...+....+++..++...++++++|||++|.|++++|
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            999999999999999999999876643 4589999999999998878888889999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          167 QTILLDIYHI  176 (217)
Q Consensus       167 ~~l~~~~~~~  176 (217)
                      ++|++.+.+.
T Consensus       161 ~~l~~~i~k~  170 (173)
T d2fn4a1         161 EQLVRAVRKY  170 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988553

>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=8.2e-37  Score=219.29  Aligned_cols=163  Identities=26%  Similarity=0.377  Sum_probs=132.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|.+|||||||+++|.+..+... .++.+ +.....+.+++..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~~~-~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAG-HTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCc-CCeee-eeecceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            7999999999999999999998776433 33333 344566788999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      |++++++++.+..|+..+.... ...+|+++|+||+|+.+.+.+...+++.++..+++++++|||++|.|++++|++|++
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            9999999999999999987654 357899999999999888888899999999999999999999999999999999998


Q ss_pred             HHHHHH
Q 042687          172 DIYHII  177 (217)
Q Consensus       172 ~~~~~~  177 (217)
                      .+..+.
T Consensus       160 ~i~~~~  165 (168)
T d2gjsa1         160 QIRLRR  165 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            876543

>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=1.7e-36  Score=222.48  Aligned_cols=176  Identities=49%  Similarity=0.834  Sum_probs=162.3

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      +++..+||+|+|.+|||||||+++|..+.+...+.++.+..+....+.+++..+.+.+|||+|++.+..++..+++++|+
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            46788999999999999999999999999988889998888888889999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||+++++++..+..|+..+.......+|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
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            99999999999999999998888877777999999999999998888888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 042687          168 TILLDIYHIISKKALA  183 (217)
Q Consensus       168 ~l~~~~~~~~~~~~~~  183 (217)
                      +|++.+.+...+....
T Consensus       162 ~l~~~i~~~~~~~~~~  177 (194)
T d2bcgy1         162 TMARQIKESMSQQNLN  177 (194)
T ss_dssp             HHHHHHHHHCCHHHHH
T ss_pred             HHHHHHHHHhhhcccC
Confidence            9999887765554444

>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=4e-37  Score=221.95  Aligned_cols=171  Identities=51%  Similarity=0.881  Sum_probs=129.6

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      .+++.+||+|+|.+|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|+
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~   81 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   81 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCE
Confidence            36788999999999999999999999999888888888888888999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+|||++++.++..+..|+..+......+.|+++|+||.|+...+....+++..++...++++++|||++|.|++++|+
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~  161 (173)
T d2fu5c1          82 IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFF  161 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999998877777899999999999988777878889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          168 TILLDIYHIIS  178 (217)
Q Consensus       168 ~l~~~~~~~~~  178 (217)
                      +|++.+.+++.
T Consensus       162 ~l~~~i~~k~~  172 (173)
T d2fu5c1         162 TLARDIKAKMD  172 (173)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99998866654

>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=8.8e-37  Score=218.26  Aligned_cols=161  Identities=37%  Similarity=0.738  Sum_probs=151.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|.+|||||||+++|.++.+...+.++.+..........++..+.+.+||++|++.+...+..++..+|++++||
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            69999999999999999999999999999999888888888888999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      |++++.++..+..|+..+......++|+++|+||+|+.+.+....+++..+++.+++++++|||++|.|++++|++|++.
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            99999999999999999888777789999999999998878888889999999999999999999999999999999886


Q ss_pred             H
Q 042687          173 I  173 (217)
Q Consensus       173 ~  173 (217)
                      +
T Consensus       161 l  161 (164)
T d1yzqa1         161 L  161 (164)
T ss_dssp             S
T ss_pred             h
Confidence            5

>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=7.3e-37  Score=219.54  Aligned_cols=163  Identities=33%  Similarity=0.565  Sum_probs=146.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+|+|.+|||||||+++|+.+.+...+.+|.+..+ ...+.+++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            568999999999999999999999999888888887665 4567789999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++++.+++..+++++++||++|.|++++|++|
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 4589999999999998888888999999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      ++.+.
T Consensus       162 ~~~i~  166 (168)
T d1u8za_         162 MREIR  166 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98774

>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=1.7e-36  Score=217.84  Aligned_cols=164  Identities=30%  Similarity=0.526  Sum_probs=149.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+++|.+|||||||+++|.++.+.+.+.+|.+..+ ...+..++..+.+.+||++|++.+..++..+++.+|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            469999999999999999999999999888888876444 5567789999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCC-CHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEAL-NVEKAFQT  168 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~-gv~~~~~~  168 (217)
                      |||+++++++..+..|+..+.... ..++|+++++||+|+...+.+..+++.++++.++++++++||+++. ||+++|..
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            999999999999999999987654 4589999999999998888888999999999999999999999875 99999999


Q ss_pred             HHHHHHH
Q 042687          169 ILLDIYH  175 (217)
Q Consensus       169 l~~~~~~  175 (217)
                      |++.+.+
T Consensus       162 l~~~i~~  168 (169)
T d1x1ra1         162 LVRVIRQ  168 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998765

>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=3.6e-36  Score=215.69  Aligned_cols=163  Identities=45%  Similarity=0.738  Sum_probs=153.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|..+.+...+.+|.+..........++....+.+||++|++.+..++..++..+|++|+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            35899999999999999999999999999999998888888888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++++++.+..|+..+........|+++|+||+|+.+.+.+..++++.++...++++++|||++|.|++++|.+|+
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~  162 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEIS  162 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999999988888878999999999999988888899999999999999999999999999999999998


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +.+
T Consensus       163 ~~i  165 (167)
T d1z0ja1         163 RRI  165 (167)
T ss_dssp             HHC
T ss_pred             HhC
Confidence            865

>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=2.3e-36  Score=216.69  Aligned_cols=163  Identities=33%  Similarity=0.475  Sum_probs=149.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|++|||||||+++|+++.+...+.+|.+.++ ...+.+++..+.+.+||++|.+.+..+...++..+|++|+
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            458999999999999999999999999888888887665 4667889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+.... ..++|+++|+||+|+...+.+..+++..++..+++++++|||++|.|++++|+.|
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            999999999999999999887654 4579999999999998888888999999999999999999999999999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      ++.+.
T Consensus       162 i~~~~  166 (167)
T d1xtqa1         162 ILEAE  166 (167)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88764

>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=4.3e-36  Score=218.74  Aligned_cols=168  Identities=26%  Similarity=0.463  Sum_probs=145.4

Q ss_pred             CCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcC
Q 042687            5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (217)
Q Consensus         5 ~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   84 (217)
                      ...+....+||+|+|.+|||||||+++|+.+.+...+.+|.+ +.....+..++..+.+.+||++|++.+..++..++..
T Consensus         2 ~~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~   80 (185)
T d2atxa1           2 AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPM   80 (185)
T ss_dssp             SSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTT
T ss_pred             CCCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccc
Confidence            344667889999999999999999999999999888888876 4456667788889999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcC-Ce
Q 042687           85 AVGALLVYDITKRQTFDNVT-RWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEG-LS  150 (217)
Q Consensus        85 ~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~  150 (217)
                      +|++++|||++++++++.+. .|+..+... ..+.|+++|+||+|+.+            .+.+..+++.++++.++ ++
T Consensus        81 a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~  159 (185)
T d2atxa1          81 TDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACC  159 (185)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSC
T ss_pred             cceeeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCE
Confidence            99999999999999999875 455545544 44899999999999854            35677888999999988 69


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~~~~  174 (217)
                      |++|||++|.|++++|+.+++.++
T Consensus       160 ~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         160 YVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHc
Confidence            999999999999999999998774

>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=2.5e-36  Score=220.19  Aligned_cols=170  Identities=43%  Similarity=0.725  Sum_probs=150.6

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECC----------eEEEEEEEecCChhhhccch
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG----------KTVKAQIWDTAGQERYRAIT   78 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~~~~~~~   78 (217)
                      +++.+||+|+|.+|||||||+++|+++.+...+.++.+.++....+.+++          ..+++.+||++|++.+..++
T Consensus         2 ~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~   81 (186)
T d2f7sa1           2 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT   81 (186)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHH
Confidence            57789999999999999999999999999888888877777666655533          34679999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCC
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL  157 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~  157 (217)
                      ..+++++|++|+|||++++.+++.+..|+..+.... ....|+++|+||+|+...+.+..+++..+++.++++++++||+
T Consensus        82 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak  161 (186)
T d2f7sa1          82 TAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAA  161 (186)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTT
T ss_pred             HHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCC
Confidence            999999999999999999999999999988765543 3578899999999998888899999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      +|.|++++|++|++.+.++..
T Consensus       162 ~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         162 TGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             TTBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999998876543

>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=1e-35  Score=213.91  Aligned_cols=163  Identities=45%  Similarity=0.767  Sum_probs=153.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|..+.+...+.++.+...........+..+.+.+||++|++.+..++..+++++|++|+
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   84 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEE
Confidence            45899999999999999999999999999999999988888888899999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      |||++++++++.+..|+..+......++|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|.+|+
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~  164 (170)
T d1r2qa_          85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIA  164 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999998877777899999999999988888899999999999999999999999999999999998


Q ss_pred             HHH
Q 042687          171 LDI  173 (217)
Q Consensus       171 ~~~  173 (217)
                      +.+
T Consensus       165 ~~i  167 (170)
T d1r2qa_         165 KKL  167 (170)
T ss_dssp             HTS
T ss_pred             HHH
Confidence            765

>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=1.2e-35  Score=213.74  Aligned_cols=164  Identities=30%  Similarity=0.554  Sum_probs=144.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|+++.+...+.+|.+ +.....+.+++..+.+.+||++|.+.+......++..+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            348999999999999999999999999888888865 5556777889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      |||++++++++.+..|+..+.... ....|++||+||+|+...+.+..+++..+++.+++++++|||++|.|++++|.+|
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999998766543 4578999999999998888888999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          170 LLDIYH  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      ++.+.+
T Consensus       163 ~~~i~k  168 (171)
T d2erya1         163 VRVIRK  168 (171)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998743

>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=4.7e-36  Score=215.86  Aligned_cols=161  Identities=28%  Similarity=0.411  Sum_probs=145.1

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|.+|||||||+++|+++.+...+.+|.+..+ .....+++..+.+.+||++|.+.+...+..++..+|++|+|
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            48999999999999999999999999888888877544 44567899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc--CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA--DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      ||++++++++.+..|+..+....  ..++|+++|+||+|+...+.+..++++.+++.+++++++|||++|.|++++|+.|
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            99999999999999988876543  3578999999999998888888899999999999999999999999999999999


Q ss_pred             HHHH
Q 042687          170 LLDI  173 (217)
Q Consensus       170 ~~~~  173 (217)
                      ++.+
T Consensus       161 ~~~~  164 (171)
T d2erxa1         161 LNLE  164 (171)
T ss_dssp             HHTC
T ss_pred             HHHH
Confidence            8754

>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=2.4e-35  Score=211.96  Aligned_cols=166  Identities=47%  Similarity=0.826  Sum_probs=144.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   87 (217)
                      ++..+||+|+|+++||||||+++|.++.+...+ .++.+.+.....+..++..+.+.+|||+|++.+..++..+++++|+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~   82 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   82 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCce
Confidence            577899999999999999999999999876544 4556777888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           88 ALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        88 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +++|||+++++++..+..|+..+........|+++++||+|+.....+..+++..++..++++++++||++|.|++++|+
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~  162 (170)
T d2g6ba1          83 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFT  162 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             eEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHH
Confidence            99999999999999999998888777777899999999999988888888999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 042687          168 TILLDIY  174 (217)
Q Consensus       168 ~l~~~~~  174 (217)
                      +|++.+.
T Consensus       163 ~l~~~i~  169 (170)
T d2g6ba1         163 AIAKELK  169 (170)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcC
Confidence            9998764

>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=2.6e-35  Score=211.37  Aligned_cols=163  Identities=30%  Similarity=0.470  Sum_probs=142.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|+.+.+...+.+|.+.++. .....++..+.+.+||++|.+.+. ....++..+|++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            389999999999999999999999999999999876654 444578899999999999998764 456788999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALN-VEKAFQTI  169 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~g-v~~~~~~l  169 (217)
                      ||+++++++..+..|+..+.... ..+.|+++|+||+|+...+.+..++++.+++.++++++++||++|.| |+++|..|
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            99999999999988876654433 35899999999999988888899999999999999999999999985 99999999


Q ss_pred             HHHHHHH
Q 042687          170 LLDIYHI  176 (217)
Q Consensus       170 ~~~~~~~  176 (217)
                      ++.+.++
T Consensus       160 ~~~i~~~  166 (168)
T d2atva1         160 CREVRRR  166 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9987654

>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=3.6e-35  Score=212.38  Aligned_cols=162  Identities=26%  Similarity=0.406  Sum_probs=141.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      ..||+|+|++|||||||+++|..+.+...+.+|.+ +.......+++..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            47999999999999999999999999888888866 44556677889999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeEEEecCCC
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSFLETSALE  158 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~vSa~~  158 (217)
                      ||++++++++.+..|+..+......++|++||+||+|+.+.            +.+..+++..++...+ .++++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            99999999999866555544444458999999999998542            3467788999999988 5899999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDIY  174 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~~  174 (217)
                      |.|++++|+.+++.++
T Consensus       161 ~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         161 KDGVREVFEMATRAAL  176 (177)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHh
Confidence            9999999999998875

>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=4.4e-35  Score=210.59  Aligned_cols=163  Identities=44%  Similarity=0.723  Sum_probs=150.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+||++|++.+..++..++..+|++|+
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            36899999999999999999999999999999999988888889999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc---ccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH---LRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |||++++.+++.+..|+..+........|+++++||+|+.+   .+.+..+++..+++..+++++++||++|.|++++|.
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            99999999999999999888777777899999999999854   367788899999999999999999999999999999


Q ss_pred             HHHHHH
Q 042687          168 TILLDI  173 (217)
Q Consensus       168 ~l~~~~  173 (217)
                      .|++.+
T Consensus       162 ~i~~~i  167 (170)
T d1ek0a_         162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHh
Confidence            998754

>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=7.9e-35  Score=213.04  Aligned_cols=161  Identities=25%  Similarity=0.381  Sum_probs=139.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|+.+.+...+.+|.+. ........++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFD-NYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceee-ecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            489999999999999999999999998888888764 4456667888999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcC-CeEEEecCCC
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEG-LSFLETSALE  158 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~vSa~~  158 (217)
                      ||+++++||+.+..|+.........+.|+++|+||+|+.+            .+.+..+++..++...+ .++++|||++
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  161 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALT  161 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTT
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCC
Confidence            9999999999997655544444445899999999999853            23477888999998865 7999999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 042687          159 ALNVEKAFQTILLDI  173 (217)
Q Consensus       159 ~~gv~~~~~~l~~~~  173 (217)
                      |.|++++|+.+++.+
T Consensus       162 ~~~V~e~f~~l~~~~  176 (191)
T d2ngra_         162 QKGLKNVFDEAILAA  176 (191)
T ss_dssp             CTTHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHH
Confidence            999999999998765

>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=2.2e-36  Score=217.38  Aligned_cols=160  Identities=33%  Similarity=0.598  Sum_probs=141.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+||++|++.+..++..+++++|++++|
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            58999999999999999999999999888889999888888888899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||++++++++.+..|+..+..... ++|+++|+||+|+...+..  ++...++...+++++++||++|.|++++|.+|++
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHHC-SCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhhccC-CCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            999999999999999998877665 8999999999999764433  3456778888999999999999999999999999


Q ss_pred             HHH
Q 042687          172 DIY  174 (217)
Q Consensus       172 ~~~  174 (217)
                      .+.
T Consensus       160 ~l~  162 (170)
T d1i2ma_         160 KLI  162 (170)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            885

>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=2.7e-35  Score=211.07  Aligned_cols=162  Identities=28%  Similarity=0.518  Sum_probs=147.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|.+|||||||+++|+++.+...+.++.+ +.......+++..+.+.+||++|++.+......+++++|++++|
T Consensus         3 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   81 (167)
T d1kaoa_           3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeee
Confidence            48999999999999999999999999888888866 45566777899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||+++++++..+..|+..+.... ..++|++||+||+|+...+.+..+++..++..+++++++|||++|.|++++|.+|+
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~  161 (167)
T d1kaoa_          82 YSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV  161 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHH
T ss_pred             eeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHH
Confidence            99999999999999998876644 35799999999999988788888999999999999999999999999999999999


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      +.+.
T Consensus       162 ~~i~  165 (167)
T d1kaoa_         162 RQMN  165 (167)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            8764

>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=4.5e-35  Score=209.74  Aligned_cols=163  Identities=47%  Similarity=0.836  Sum_probs=145.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|.+|||||||+++|+.+.+...+.+|.+.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|
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            58999999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTILL  171 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~~  171 (217)
                      ||++++++++.+..|+..+........|++++++|.|+.. +....+++..++..+++++++|||++|.|++++|++|++
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            9999999999999998888888877899999999999865 556678899999999999999999999999999999999


Q ss_pred             HHHH
Q 042687          172 DIYH  175 (217)
Q Consensus       172 ~~~~  175 (217)
                      .+.+
T Consensus       161 ~i~~  164 (166)
T d1g16a_         161 LIQE  164 (166)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8865

>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=7e-35  Score=208.92  Aligned_cols=162  Identities=30%  Similarity=0.515  Sum_probs=145.7

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|.+|||||||+++|..+.+...+.++.+..+ ...+..++..+.+.+||++|++.+...+..+++++|++|+|
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   81 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEEe
Confidence            48999999999999999999999999888888876554 55567788899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHc-CCeEEEecCCCCCCHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE-GLSFLETSALEALNVEKAFQTI  169 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~vSa~~~~gv~~~~~~l  169 (217)
                      ||++++++++.+..|+..+.+.. ..++|++||+||+|+........+++..++... ++++++|||++|.|++++|++|
T Consensus        82 ~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l  161 (167)
T d1c1ya_          82 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDL  161 (167)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHH
Confidence            99999999999999999876643 457999999999999888888888888988874 6899999999999999999999


Q ss_pred             HHHHH
Q 042687          170 LLDIY  174 (217)
Q Consensus       170 ~~~~~  174 (217)
                      ++.+.
T Consensus       162 ~~~i~  166 (167)
T d1c1ya_         162 VRQIN  166 (167)
T ss_dssp             HHHHT
T ss_pred             HHHhc
Confidence            98763

>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=2.4e-34  Score=208.05  Aligned_cols=166  Identities=44%  Similarity=0.738  Sum_probs=152.1

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      .-+.+||+|+|.+|||||||+++|.++.+...+.++.+.......+.+++..+.+.+||+||++.+..++..++..+|++
T Consensus         4 ~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~i   83 (177)
T d1x3sa1           4 VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGV   83 (177)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEE
T ss_pred             ccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            34679999999999999999999999999888888888888888889999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      |+|||++++.+++.+..|+..+.... ....|+++++||.|... +.+...++..++..++++++++||++|.|++++|+
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~  162 (177)
T d1x3sa1          84 ILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFE  162 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999987755 34789999999999755 67778899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 042687          168 TILLDIYH  175 (217)
Q Consensus       168 ~l~~~~~~  175 (217)
                      +|++.+.+
T Consensus       163 ~l~~~l~~  170 (177)
T d1x3sa1         163 ELVEKIIQ  170 (177)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHcc
Confidence            99998865

>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=1.7e-34  Score=206.70  Aligned_cols=161  Identities=34%  Similarity=0.577  Sum_probs=145.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|+++.+...+.++.+..+.. .+...+..+.+.+||++|.+.+...+..++..++++++|
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv   81 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRK-QVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEE-EEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeecc-ceeeeceeeeeeeeeccCccccccchhhhhhccccccee
Confidence            4899999999999999999999999988888887765544 456788889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcC-CCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHAD-SNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKAFQTIL  170 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~l~  170 (217)
                      ||++++.+++.+..|+..+..... .++|+++|+||+|+.. +.+..++++.+++.++++++++||++|.|++++|.+|+
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~  160 (166)
T d1ctqa_          82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             ecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHH
Confidence            999999999999999999877653 4799999999999865 56677889999999999999999999999999999999


Q ss_pred             HHHH
Q 042687          171 LDIY  174 (217)
Q Consensus       171 ~~~~  174 (217)
                      +.+.
T Consensus       161 ~~i~  164 (166)
T d1ctqa_         161 REIR  164 (166)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8774

>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=5.1e-34  Score=205.31  Aligned_cols=164  Identities=28%  Similarity=0.424  Sum_probs=140.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCC---hhhhccchhhhhcCCc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAG---QERYRAITSAYYRGAV   86 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G---~~~~~~~~~~~~~~~d   86 (217)
                      ..|||+++|.+|||||||+++|.+..+.. ...++.+.+.....+.+++..+.+.+||+++   ++++  ++..+++.+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            35899999999999999999999887653 3445666777788888999999999999765   4444  5667889999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ++|+|||++++++++.+..|+..+.... ..++|+++|+||+|+.+.+.+..++++.++..++++++++||++|.|++++
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~  159 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKEL  159 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHH
Confidence            9999999999999999999998877653 358999999999999888888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 042687          166 FQTILLDIYHI  176 (217)
Q Consensus       166 ~~~l~~~~~~~  176 (217)
                      |++|++.+..+
T Consensus       160 f~~l~~~i~~r  170 (172)
T d2g3ya1         160 FEGIVRQVRLR  170 (172)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            99999987543

>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=7.1e-34  Score=206.74  Aligned_cols=171  Identities=40%  Similarity=0.686  Sum_probs=149.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|.+|||||||+++|+++.+...+.+|.+.+.....+...+..+.+.+||++|+..+...+..++..+|+++++
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            48999999999999999999999999999999998888888888899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-KEGLSFLETSALEALNVEKAF  166 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~vSa~~~~gv~~~~  166 (217)
                      ||.+++.++..+..|+..+....    ..++|+++|+||+|+.+ +....++...++. ..++++++|||++|.|++++|
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            99999999999999998876653    24689999999999876 4455666666665 457899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042687          167 QTILLDIYHIISKKALA  183 (217)
Q Consensus       167 ~~l~~~~~~~~~~~~~~  183 (217)
                      ++|++.+.+...+....
T Consensus       161 ~~l~~~i~~~~~~~~~~  177 (184)
T d1vg8a_         161 QTIARNALKQETEVELY  177 (184)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccccc
Confidence            99999887765554433

>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=1.6e-33  Score=203.04  Aligned_cols=164  Identities=40%  Similarity=0.725  Sum_probs=145.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      .+.+||+|+|.+|||||||+++|..+.+...+.+|.+..........++..+.+.+||++|...+...+..++..+|+++
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   83 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCL   83 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEE
Confidence            46789999999999999999999999999889899888888888889999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCCCHHH
Q 042687           90 LVYDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEALNVEK  164 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~  164 (217)
                      ++||.+++.+++.+..|+..+....    ..++|+++|+||+|+.+ +.+..+++..+++..+ ++++++||++|.|+++
T Consensus        84 ~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e  162 (174)
T d1wmsa_          84 LTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAA  162 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHH
T ss_pred             EEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHH
Confidence            9999999999999999998876543    24789999999999865 6778889999998875 8999999999999999


Q ss_pred             HHHHHHHHHH
Q 042687          165 AFQTILLDIY  174 (217)
Q Consensus       165 ~~~~l~~~~~  174 (217)
                      +|++|++.++
T Consensus       163 ~f~~l~~~il  172 (174)
T d1wmsa_         163 AFEEAVRRVL  172 (174)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999875

>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=6.5e-34  Score=206.77  Aligned_cols=163  Identities=29%  Similarity=0.497  Sum_probs=140.7

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      +..+||+|+|.+|||||||+++|+.+.+...+.+|.+ +.....+..++..+.+.+||++|++.+..++..+++.+|+++
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            4569999999999999999999999999888888876 445566778999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHH-HHHHHHhhcCCCCeEEEEEeCCCCccc------------cccCHHHHHHHHHHcC-CeEEEec
Q 042687           90 LVYDITKRQTFDNVTR-WLRELRDHADSNIVIMMAGNKSDLNHL------------RAVAAEDAQILAEKEG-LSFLETS  155 (217)
Q Consensus        90 ~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~vS  155 (217)
                      +|||++++++++.+.. |...+... ..++|++||+||+|+...            ......++..+++.++ ++|++||
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            9999999999999865 55555544 448999999999998543            2345667888888887 7999999


Q ss_pred             CCCCCCHHHHHHHHHHHHH
Q 042687          156 ALEALNVEKAFQTILLDIY  174 (217)
Q Consensus       156 a~~~~gv~~~~~~l~~~~~  174 (217)
                      |++|.||+++|+.|++.++
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            9999999999999998774

>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=5.9e-34  Score=205.51  Aligned_cols=165  Identities=37%  Similarity=0.684  Sum_probs=131.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEE-CCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      .+||+|+|++|||||||+++|+++.+...+.++.+.......... +...+.+.+||++|++.+...+..+++.+|++++
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            589999999999999999999999998888887776666665554 3455678999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc----CCCCeEEEEEeCCCCcccc-ccCHHHHHHHHHHcC-CeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA----DSNIVIMMAGNKSDLNHLR-AVAAEDAQILAEKEG-LSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~Dl~~~~-~~~~~~~~~~~~~~~-~~~~~vSa~~~~gv~~  164 (217)
                      |||++++.+++.+..|+..+....    ..++|+++++||+|+.+.+ .+..+++++++..++ ++++++||++|.|+++
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            999999999999999998876543    3478999999999997654 367788899998886 7899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHI  176 (217)
Q Consensus       165 ~~~~l~~~~~~~  176 (217)
                      +|++|++.++++
T Consensus       162 ~f~~l~~~~l~~  173 (175)
T d1ky3a_         162 AFEEIARSALQQ  173 (175)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999988765

>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=1.4e-33  Score=201.64  Aligned_cols=159  Identities=38%  Similarity=0.693  Sum_probs=143.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhcc-chhhhhcCCcEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA-ITSAYYRGAVGALL   90 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~   90 (217)
                      .+||+|+|.+|||||||+++|..+.+...+.++.+.........+......+.+||++|...+.. .+..++.++|++|+
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~il   81 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEE
Confidence            58999999999999999999999999999988888888888888999999999999999876654 46788999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCC---CCCHHHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALE---ALNVEKAF  166 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~---~~gv~~~~  166 (217)
                      |||++++++++.+..|+..+.... ..++|++||+||+|+.+.+.+..++++.+++.++++++++||++   +.||+++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F  161 (165)
T d1z06a1          82 VYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIF  161 (165)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHH
T ss_pred             EEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHH
Confidence            999999999999999999987654 45899999999999988888899999999999999999999987   56999999


Q ss_pred             HHHH
Q 042687          167 QTIL  170 (217)
Q Consensus       167 ~~l~  170 (217)
                      ++|+
T Consensus       162 ~~lA  165 (165)
T d1z06a1         162 MTLA  165 (165)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            9873

>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=2.4e-33  Score=203.03  Aligned_cols=163  Identities=26%  Similarity=0.434  Sum_probs=140.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|.+|||||||+++|..+.+...+.+|.+ +.....+..++..+.+.+||++|++.+...+..+++.+|++|+|
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            47999999999999999999999999888888865 44455667788999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcc------------ccccCHHHHHHHHHHcCC-eEEEecCCC
Q 042687           92 YDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNH------------LRAVAAEDAQILAEKEGL-SFLETSALE  158 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~vSa~~  158 (217)
                      ||+++++||+.+..|+.........+.|+++|+||+|+..            .+.+..++...+++..+. +|++|||++
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            9999999999987655554444444899999999999853            345778899999998874 899999999


Q ss_pred             CC-CHHHHHHHHHHHHHH
Q 042687          159 AL-NVEKAFQTILLDIYH  175 (217)
Q Consensus       159 ~~-gv~~~~~~l~~~~~~  175 (217)
                      |. |++++|+.+++.++.
T Consensus       161 ~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVN  178 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHhc
Confidence            97 599999999988764

>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=100.00  E-value=5.4e-32  Score=194.98  Aligned_cols=165  Identities=21%  Similarity=0.367  Sum_probs=137.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      +.+||+++|.+|||||||+++|+++.+.. +.++.+. .....+.+++..+.+.+||++|+..+     .+++.+|++|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~-~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~il   76 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIF   76 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCE-EEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccce-eEEEEeecCceEEEEEEeeccccccc-----ccccccceeEE
Confidence            45999999999999999999999999854 3444443 34566788999999999999998754     36888999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhhc---CCCCeEEEEEeCCCCcc--ccccCHHHHHHHHHH-cCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDHA---DSNIVIMMAGNKSDLNH--LRAVAAEDAQILAEK-EGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~Dl~~--~~~~~~~~~~~~~~~-~~~~~~~vSa~~~~gv~~  164 (217)
                      |||+++++||+.+..|+..+....   ...+|+++|+||.|+..  .+.+..+++..++.. .+++|++|||++|.|+++
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            999999999999999988876543   35789999999888743  456777888888655 468999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 042687          165 AFQTILLDIYHIISKKAL  182 (217)
Q Consensus       165 ~~~~l~~~~~~~~~~~~~  182 (217)
                      +|..+++.+.....++++
T Consensus       157 ~F~~l~~~i~~~~~~~~l  174 (175)
T d2bmja1         157 VFQEVAQKVVTLRKQQQL  174 (175)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhccc
Confidence            999999999888766653

>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=5.2e-32  Score=193.29  Aligned_cols=155  Identities=20%  Similarity=0.353  Sum_probs=126.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|++|||||||+++|..+.+...+.+|.+.++.  .+..++  +.+.+||+||++.+...+..++..++++++|
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            489999999999999999999999998888888765443  344554  6788999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ||+++++++.....|+..+... ...++|++||+||.|+.+...  ..++.+     .+...+++++++||++|.|++++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  155 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDIT  155 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHH
Confidence            9999999999998887776554 345899999999999865322  222222     22334568999999999999999


Q ss_pred             HHHHHHH
Q 042687          166 FQTILLD  172 (217)
Q Consensus       166 ~~~l~~~  172 (217)
                      |+||++.
T Consensus       156 ~~~l~~~  162 (164)
T d1zd9a1         156 LQWLIQH  162 (164)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHc
Confidence            9999874

>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=99.97  E-value=1.4e-30  Score=185.84  Aligned_cols=156  Identities=24%  Similarity=0.381  Sum_probs=121.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+|+|++|||||||+++|.+..+ ....+|.+..  ...+..++  +.+.+||+||++.++..+..++..+++++++
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeee--eeeccccc--cceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            48999999999999999999998766 4455665533  33444555  6788999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHH-hhcCCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHHH
Q 042687           92 YDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~i~-~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ||+++..++.....++.... .....++|++||+||+|+.+....  .+.....     ...++++++|||++|.|++++
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            99999999988866665543 333458999999999999753332  2222221     222467999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          166 FQTILLDIY  174 (217)
Q Consensus       166 ~~~l~~~~~  174 (217)
                      |+||++.+.
T Consensus       155 ~~~l~~~i~  163 (165)
T d1ksha_         155 IDWLLDDIS  163 (165)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998875

>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=99.97  E-value=2.5e-31  Score=192.83  Aligned_cols=161  Identities=22%  Similarity=0.360  Sum_probs=121.8

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   88 (217)
                      ....+||+++|.+|||||||+++|.++.+.. ..+|.+...  ......+  +.+.+||++|++.++..+..++..+|++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNV--ETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCE--EEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEE--EEEeeCC--EEEEEEecccccccchhHHhhhccceeE
Confidence            3456999999999999999999998887743 335544333  3334444  6788999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCH
Q 042687           89 LLVYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv  162 (217)
                      ++|||++++.++.....|+..+... ...+.|++||+||+|+.+..  ...++..     .+...++++++|||++|.|+
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv  166 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGEGI  166 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCCCH
Confidence            9999999999999988887665443 34579999999999986522  2333322     22334568999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 042687          163 EKAFQTILLDIYHI  176 (217)
Q Consensus       163 ~~~~~~l~~~~~~~  176 (217)
                      +++|+||++.+.+.
T Consensus       167 ~e~~~~l~~~i~~~  180 (182)
T d1moza_         167 TEGLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999987553

>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=99.97  E-value=2.3e-30  Score=186.61  Aligned_cols=159  Identities=22%  Similarity=0.349  Sum_probs=123.9

Q ss_pred             CCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCc
Q 042687            7 HEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAV   86 (217)
Q Consensus         7 ~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   86 (217)
                      .+++..+||+++|++|||||||+++|.++.+.... ++.+.  ....+...+  +.+.+||++|++.++..+..++..+|
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~-~~~~~--~~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~   85 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHIT-PTQGF--NIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTD   85 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE-EETTE--EEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCS
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcce-eeeee--eEEEeccCC--eeEeEeeccccccchhHHHHHhhccc
Confidence            34556799999999999999999999998875433 33333  333444554  67889999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCC
Q 042687           87 GALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEAL  160 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~  160 (217)
                      ++|+|||++++.++..+..|+..+.... ..++|++|++||+|+.+...  ..+..+     .+....++++++||++|.
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            9999999999999999977776655433 45799999999999975332  222222     122335679999999999


Q ss_pred             CHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLD  172 (217)
Q Consensus       161 gv~~~~~~l~~~  172 (217)
                      |++++|+||++.
T Consensus       164 gv~e~~~~l~~~  175 (176)
T d1fzqa_         164 GVQDGMNWVCKN  175 (176)
T ss_dssp             THHHHHHHHHHT
T ss_pred             CHHHHHHHHHhc
Confidence            999999999875

>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=99.96  E-value=2.3e-30  Score=186.23  Aligned_cols=156  Identities=21%  Similarity=0.363  Sum_probs=121.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+++|++|||||||+++|.++.+.. ..+|.+..  ........  +.+.+||+||.+.++..+..++..++++|+
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~   85 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFN--VETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   85 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEE--EEEEEETT--EEEEEEEESCCGGGHHHHGGGTTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeee--EEEeeccc--eeeEEecCCCcchhhhHHHhhhcccceEEE
Confidence            45999999999999999999999877643 33444433  23333343  677899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHh-hcCCCCeEEEEEeCCCCccccccCHHHHHH-----HHHHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRD-HADSNIVIMMAGNKSDLNHLRAVAAEDAQI-----LAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      |||+++.+++..+..|+..+.. ......|+++++||+|+.+...  ..++..     .+...++.+++|||++|.|+++
T Consensus        86 v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e  163 (173)
T d1e0sa_          86 VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  163 (173)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHH
Confidence            9999999999999877776544 3345899999999999965322  222222     2233456799999999999999


Q ss_pred             HHHHHHHHH
Q 042687          165 AFQTILLDI  173 (217)
Q Consensus       165 ~~~~l~~~~  173 (217)
                      +|+||.+.+
T Consensus       164 ~~~~l~~~~  172 (173)
T d1e0sa_         164 GLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            999998753

>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=99.96  E-value=6.4e-29  Score=175.87  Aligned_cols=156  Identities=19%  Similarity=0.272  Sum_probs=121.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEE
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVY   92 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   92 (217)
                      +||+|+|++|||||||+++|.++.+...+..+...   .  ...+...+.+.+||++|...+...+..++..+++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN---V--ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCC---E--EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeE---E--EEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            58999999999999999999998876554433221   1  223445578889999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccC---HHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Q 042687           93 DITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVA---AEDAQILAEKEGLSFLETSALEALNVEKAFQT  168 (217)
Q Consensus        93 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~~  168 (217)
                      |..++.++..+..|+..+.... ....|+++++||.|+.+.....   ......++...+++++++||++|.|++++|+|
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            9999999999877777765433 4578999999999986532211   11122234455678999999999999999999


Q ss_pred             HHHHH
Q 042687          169 ILLDI  173 (217)
Q Consensus       169 l~~~~  173 (217)
                      |.+++
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98753

>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=99.93  E-value=8.6e-26  Score=162.40  Aligned_cols=156  Identities=21%  Similarity=0.339  Sum_probs=115.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ..+||+|+|.+|||||||+++|.++.+.... ++.+..  .......+  +.+.+||+++.+.....+..++..++++++
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~~~--~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCccc-ccccee--EEEEeecc--eEEEEeccccccccccchhhhhccceeeee
Confidence            3489999999999999999999998876433 222222  22233333  577899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhh-cCCCCeEEEEEeCCCCccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Q 042687           91 VYDITKRQTFDNVTRWLRELRDH-ADSNIVIMMAGNKSDLNHLRAVAAEDAQILA-----EKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~vSa~~~~gv~~  164 (217)
                      ++|.++..++.....++...... .....|+++|+||+|+.....  ..+.....     ...+++++++||++|.|+++
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e  166 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  166 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHH
Confidence            99999999988876655544333 335899999999999865332  22332222     23456899999999999999


Q ss_pred             HHHHHHHHH
Q 042687          165 AFQTILLDI  173 (217)
Q Consensus       165 ~~~~l~~~~  173 (217)
                      +|+||.+.+
T Consensus       167 ~~~~L~~~l  175 (177)
T d1zj6a1         167 GLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>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=99.92  E-value=1.5e-24  Score=156.21  Aligned_cols=156  Identities=19%  Similarity=0.167  Sum_probs=108.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChhh--------hccchhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------YRAITSAY   81 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   81 (217)
                      +.-.|+|+|.+|||||||+|+|++....... .+..+...........+  ..+.+|||||...        +......+
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            4457999999999999999999987654322 23333344444444555  3567999999532        23333455


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCCC
Q 042687           82 YRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEAL  160 (217)
Q Consensus        82 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~~  160 (217)
                      +.++|++|+|+|++++..... ..|+..++... .+.|+++|+||+|+....   .+..+.+....+ ..++++||++|.
T Consensus        82 ~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~~-~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~  156 (178)
T d1wf3a1          82 LADVNAVVWVVDLRHPPTPED-ELVARALKPLV-GKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDER  156 (178)
T ss_dssp             TSSCSEEEEEEETTSCCCHHH-HHHHHHHGGGT-TTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHH
T ss_pred             cccccceeeeechhhhhcccc-cchhhheeccc-cchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCC
Confidence            789999999999987654332 34455554443 378999999999986532   223344445444 578999999999


Q ss_pred             CHHHHHHHHHHHH
Q 042687          161 NVEKAFQTILLDI  173 (217)
Q Consensus       161 gv~~~~~~l~~~~  173 (217)
                      |+++++++|++.+
T Consensus       157 gi~~L~~~i~~~l  169 (178)
T d1wf3a1         157 QVAELKADLLALM  169 (178)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHhC
Confidence            9999999998754

>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=99.92  E-value=3.5e-25  Score=157.57  Aligned_cols=158  Identities=22%  Similarity=0.346  Sum_probs=119.6

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|.+|||||||+++|+++.+... .++.+  ........++  +.+.+||.+|.+.+...+...+..+++++++
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIYV   79 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccc--eeeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhhh
Confidence            38999999999999999999999887543 23333  2333334444  5677999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHH-HHhhcCCCCeEEEEEeCCCCcccccc---CHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Q 042687           92 YDITKRQTFDNVTRWLRE-LRDHADSNIVIMMAGNKSDLNHLRAV---AAEDAQILAEKEGLSFLETSALEALNVEKAFQ  167 (217)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~-i~~~~~~~~p~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~~~  167 (217)
                      +|+.+..++.....++.. +........|+++++||.|+......   .......++...+++++++||++|.|++++|+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~  159 (169)
T d1upta_          80 VDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAME  159 (169)
T ss_dssp             EETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHH
T ss_pred             hhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHH
Confidence            999988887777554444 43334457899999999999753321   11112223445567899999999999999999


Q ss_pred             HHHHHHH
Q 042687          168 TILLDIY  174 (217)
Q Consensus       168 ~l~~~~~  174 (217)
                      +|++.+.
T Consensus       160 ~l~~~l~  166 (169)
T d1upta_         160 WLVETLK  166 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988763

>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=99.92  E-value=1.3e-25  Score=164.28  Aligned_cols=159  Identities=16%  Similarity=0.156  Sum_probs=122.2

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|..|||||||+++|..+.+.  +.||.|.+...  +..  ..+.+++||++|++.++..|..++..+++++++
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~~--~~~--~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYP--FDL--QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEEE--EEC--SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEEE--Eec--cceeeeeccccccccccccccccccccceeeEe
Confidence            489999999999999999999988773  56887755432  333  346788999999999999999999999999999


Q ss_pred             EeCCChh-----------hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc----------------ccCHHHHHHHH
Q 042687           92 YDITKRQ-----------TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR----------------AVAAEDAQILA  144 (217)
Q Consensus        92 ~d~~~~~-----------s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~----------------~~~~~~~~~~~  144 (217)
                      ||.++..           .++....|...+......+.|+++++||.|+...+                .........+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  155 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFI  155 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHH
Confidence            9998753           45667778888877776799999999999974321                11122222221


Q ss_pred             H----------HcCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          145 E----------KEGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       145 ~----------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      .          ...+.++++||++|.|++++|+.|.+.+.+.
T Consensus       156 ~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         156 LKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            1          1234578999999999999999998887653

>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=99.92  E-value=5e-24  Score=150.81  Aligned_cols=151  Identities=18%  Similarity=0.264  Sum_probs=115.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEe
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYD   93 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d   93 (217)
                      ||+++|++|||||||+++|.++.+. ...++.+...  ......+  +...+||++|...+...+..++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTS--EELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEE--EEECCTT--CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeE--EEeccCC--eeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            8999999999999999999998875 3445544333  2333333  456799999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhc-CCCCeEEEEEeCCCCccccccCHHHHHHHH------------HHcCCeEEEecCCCCC
Q 042687           94 ITKRQTFDNVTRWLRELRDHA-DSNIVIMMAGNKSDLNHLRAVAAEDAQILA------------EKEGLSFLETSALEAL  160 (217)
Q Consensus        94 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~------------~~~~~~~~~vSa~~~~  160 (217)
                      .++..++.....|+....... ....|+++++||.|+....  ...+.....            ....++++++||++|.
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            999998888877666655443 4678999999999986522  233332221            1223579999999999


Q ss_pred             CHHHHHHHHHH
Q 042687          161 NVEKAFQTILL  171 (217)
Q Consensus       161 gv~~~~~~l~~  171 (217)
                      |++++|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999965

>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=99.92  E-value=8.4e-25  Score=159.34  Aligned_cols=155  Identities=17%  Similarity=0.228  Sum_probs=113.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|..|||||||+++|..+.++     |.+.  ....+....  +.+.+||++|++.++..+..+++.++++++|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~-----t~~~--~~~~~~~~~--~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEA-----GTGI--VETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSC-----CCSE--EEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCC-----CccE--EEEEEEeee--eeeeeeccccccccccchhhcccCCceeeeE
Confidence            489999999999999999999877663     3232  223333444  6788999999999999999999999999999


Q ss_pred             EeCCChhhH-----------HHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc---------------ccCHHHHH----
Q 042687           92 YDITKRQTF-----------DNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR---------------AVAAEDAQ----  141 (217)
Q Consensus        92 ~d~~~~~s~-----------~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~---------------~~~~~~~~----  141 (217)
                      ||+++.+++           +....|...+........|+++++||+|+...+               .....+..    
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQ  152 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHH
Confidence            999887654           334455555655556689999999999963211               11112211    


Q ss_pred             -HHHH------HcCCeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          142 -ILAE------KEGLSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       142 -~~~~------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                       .+..      ...+.+++|||+++.|++++|+.+.+.+++
T Consensus       153 ~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         153 CQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence             1111      123567899999999999999999887754

>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=99.91  E-value=7.8e-25  Score=155.04  Aligned_cols=150  Identities=19%  Similarity=0.242  Sum_probs=108.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh--------ccchhhhhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY--------RAITSAYYR   83 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~   83 (217)
                      +||+++|.+|||||||+|+|++..... ...++.........+...+.  .+.++|+||....        ......++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCc--eeeeccccccccccccchhHHHHHHHHHHH
Confidence            799999999999999999999877653 23333344444445555664  5669999994221        122345578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .+|++++++|..+...+.....|...+.... .++|+++|+||+|+.......       ....+.+++++||++|.|++
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            9999999999998877666666655555443 479999999999985532211       11235689999999999999


Q ss_pred             HHHHHHHHH
Q 042687          164 KAFQTILLD  172 (217)
Q Consensus       164 ~~~~~l~~~  172 (217)
                      +++++|.+.
T Consensus       152 ~L~~~l~~~  160 (161)
T d2gj8a1         152 VLRNHLKQS  160 (161)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999999875

>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=99.91  E-value=5.9e-24  Score=153.28  Aligned_cols=156  Identities=17%  Similarity=0.124  Sum_probs=104.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhhhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAYYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   86 (217)
                      +|+|+|.+|||||||+|+|++...........+........ .......+.+|||||...       ........+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVV-EVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEE-ECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeecee-eecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            59999999999999999999876554433333333333222 222334677999999321       1122334568899


Q ss_pred             EEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687           87 GALLVYDITKRQ--TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus        87 ~ii~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      ++++++|.....  .+.....|+....... .++|+++|+||+|+.....  ..+..+.....+.+++++||++|.|+++
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPAL-LRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHHH-HHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhhcccccccccchhhhhhhhhcccccc-chhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            999999986532  3333334443322221 2689999999999976433  2344455566788999999999999999


Q ss_pred             HHHHHHHHH
Q 042687          165 AFQTILLDI  173 (217)
Q Consensus       165 ~~~~l~~~~  173 (217)
                      +++.|.+.+
T Consensus       159 L~~~i~~~l  167 (180)
T d1udxa2         159 LKEALHALV  167 (180)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987766

>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=99.90  E-value=5e-23  Score=148.20  Aligned_cols=159  Identities=14%  Similarity=0.121  Sum_probs=105.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcce-------eeEEEEEEECCeEEEEEEEecCChhhhccchhhhhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGV-------EFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR   83 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~-------~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   83 (217)
                      ..++|+++|++|+|||||+|+|++.........+...       ......+...+  ..+.++|++|+..+.......+.
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            3579999999999999999999864432222111111       11111222333  35679999999999888888999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHHH----cCCeEEEecCC
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAEK----EGLSFLETSAL  157 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~----~~~~~~~vSa~  157 (217)
                      .+|++++++|+.+....+..+ .+..+...   ++|+++|+||+|+.......  ....+.+...    .+.+++++||+
T Consensus        82 ~~d~~ilv~d~~~g~~~~~~~-~~~~~~~~---~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~  157 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQTGE-HMLILDHF---NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAK  157 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHHHH-HHHHHHHT---TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTT
T ss_pred             hccccccccccccccchhhhh-hhhhhhhc---CCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcc
Confidence            999999999998754433322 22333333   89999999999987643221  1122233222    23689999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIYH  175 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~~  175 (217)
                      +|.|++++++.|.+.+-+
T Consensus       158 ~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         158 TGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TCTTHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHhcCCc
Confidence            999999999999887643

>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=99.89  E-value=1e-22  Score=145.49  Aligned_cols=154  Identities=18%  Similarity=0.211  Sum_probs=98.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCC-CCCcceeeEEEEEEECCeEEEEEEEecCChh---------hhccchhhhhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLES-KSTIGVEFATRTLQVEGKTVKAQIWDTAGQE---------RYRAITSAYYR   83 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~   83 (217)
                      .|+|+|++|||||||+++|++....... .+..+.......+....  ..+.++|++|..         .+......++.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccc--cccccccccceeeeeccccccccccccccccc
Confidence            5899999999999999999986654221 22222222233344444  457799999931         22333445578


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCHH
Q 042687           84 GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNVE  163 (217)
Q Consensus        84 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~  163 (217)
                      .+|+++++.|.++...... ..++..+...   ++|+++|+||+|+.+..  ..+...++......+++++||++|.|++
T Consensus        80 ~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~---~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKED-ESLADFLRKS---TVDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             TCSEEEEEEETTTCCCHHH-HHHHHHHHHH---TCCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSHH
T ss_pred             cCcEEEEeecccccccccc-cccccccccc---cccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCHH
Confidence            9999999999876544332 4455555544   78999999999986422  1122223333333568999999999999


Q ss_pred             HHHHHHHHHHHH
Q 042687          164 KAFQTILLDIYH  175 (217)
Q Consensus       164 ~~~~~l~~~~~~  175 (217)
                      +++++|.+++.+
T Consensus       154 ~L~~~i~~~l~e  165 (171)
T d1mkya1         154 TMLETIIKKLEE  165 (171)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC
Confidence            999999987754

>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=99.89  E-value=1.2e-22  Score=146.46  Aligned_cols=156  Identities=19%  Similarity=0.261  Sum_probs=110.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALL   90 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   90 (217)
                      ...||+++|.+|||||||+++|.++.+... .++.+.+.  ..+.+++.  .+.+||+.++..+...+..+....+++++
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAGM--TFTTFDLGGHIQARRVWKNYLPAINGIVF   86 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETTE--EEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEeccc--ccccccccchhhhhhHHhhhhcccceeee
Confidence            448999999999999999999999887543 34433333  23445554  46699999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHH-hhcCCCCeEEEEEeCCCCccccccCHHHHHHHHH-----------------HcCCeEE
Q 042687           91 VYDITKRQTFDNVTRWLRELR-DHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAE-----------------KEGLSFL  152 (217)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~i~-~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----------------~~~~~~~  152 (217)
                      ++|.++...+.....++.... .....+.|+++++||.|++..  ....++.....                 ..+++++
T Consensus        87 ~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (186)
T d1f6ba_          87 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEVF  164 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEE
T ss_pred             eeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEE
Confidence            999999988887755444433 333458999999999998642  23334333332                 1234699


Q ss_pred             EecCCCCCCHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      +|||++|.|++++|+||++.+
T Consensus       165 ~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         165 MCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             ECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEeCCCCCCHHHHHHHHHHhh
Confidence            999999999999999998753

>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=99.89  E-value=2.5e-22  Score=145.31  Aligned_cols=157  Identities=20%  Similarity=0.180  Sum_probs=103.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcccc-CCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh------------ccc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY------------RAI   77 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------------~~~   77 (217)
                      ..+||+|+|++|||||||+|+|++..... ...+..+.......+..++.  .+.++|+||....            ...
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            45999999999999999999999876532 22222222333344556664  4568899995322            223


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH----c-CCeEE
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK----E-GLSFL  152 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----~-~~~~~  152 (217)
                      ....+..+|++++|+|+..+... ....++..+...   +.|+++|+||+|+.........+.......    . .++++
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~-~~~~~~~~~~~~---~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  160 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITR-QDQRMAGLMERR---GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLI  160 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT---TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhcCCEEEEeecccccchh-hHHHHHHHHHHc---CCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEE
Confidence            34456789999999999865432 223444444443   789999999999865444444444333322    2 35899


Q ss_pred             EecCCCCCCHHHHHHHHHHHH
Q 042687          153 ETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       153 ~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++||++|.|+++++++|.+.+
T Consensus       161 ~vSa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         161 FTSADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHH
Confidence            999999999999999996654

>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=99.89  E-value=4.6e-23  Score=150.73  Aligned_cols=158  Identities=21%  Similarity=0.272  Sum_probs=108.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLV   91 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   91 (217)
                      .+||+++|.+|||||||+++|   .+...+.||.|...  ..+....  +.+.+||++|++.++..+..+++.+++++++
T Consensus         2 ~iKivllG~~~vGKTsll~r~---~f~~~~~pTiG~~~--~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHE--YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH---HHHHSCCCCSSEEE--EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHH---hcCCCCCCeeeeEE--EEEeeee--eeeeeecccceeeecccccccccccceeEEE
Confidence            489999999999999999999   35567778877543  3444554  5678999999999999999999999999999


Q ss_pred             EeCCChh----------hHHHHHHHHHHH-HhhcCCCCeEEEEEeCCCCcccc----------------ccCHHHHHHHH
Q 042687           92 YDITKRQ----------TFDNVTRWLREL-RDHADSNIVIMMAGNKSDLNHLR----------------AVAAEDAQILA  144 (217)
Q Consensus        92 ~d~~~~~----------s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~Dl~~~~----------------~~~~~~~~~~~  144 (217)
                      ||.++..          .+.....++..+ ......++|+++++||+|+.+..                ....+.+.++.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  154 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHH
Confidence            9998743          233333344443 33344689999999999974211                01122222222


Q ss_pred             HH-----------cCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          145 EK-----------EGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       145 ~~-----------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                      ..           ..+.++++||+++.|++++|+.+.+.+.+.
T Consensus       155 ~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         155 VECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            11           125677899999999999999998877553

>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=99.88  E-value=2.5e-22  Score=144.95  Aligned_cols=150  Identities=23%  Similarity=0.207  Sum_probs=97.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh---------------hhccch
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE---------------RYRAIT   78 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------------~~~~~~   78 (217)
                      .|+|+|.+|||||||+|+|++........+..+.+  ...+...+    +.++||||..               .+....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~--~~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec--cccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            48999999999999999999877654433332322  22333333    4589999931               111223


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHH----------HHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC
Q 042687           79 SAYYRGAVGALLVYDITKRQTFDNV----------TRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG  148 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~s~~~~----------~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~  148 (217)
                      ...++.+|++++|+|+.+.......          ..++..+..   .++|+++|+||+|+.....   .....+....+
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            3446789999999998754322211          122333333   3899999999999764222   12222222222


Q ss_pred             -------CeEEEecCCCCCCHHHHHHHHHHHHHH
Q 042687          149 -------LSFLETSALEALNVEKAFQTILLDIYH  175 (217)
Q Consensus       149 -------~~~~~vSa~~~~gv~~~~~~l~~~~~~  175 (217)
                             ..++++||++|.|+++++++|.+.+-+
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                   348899999999999999999887754

>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=99.88  E-value=1.6e-22  Score=142.83  Aligned_cols=148  Identities=20%  Similarity=0.222  Sum_probs=100.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccC-CCCCcceeeEEEEEEECCeEEEEEEEecCChhh--------h-ccchhhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLE-SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER--------Y-RAITSAYY   82 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~-~~~~~~~~   82 (217)
                      +||+++|.+|||||||+|+|++...... ..+..+.......+...+  ..+.+|||||...        + .......+
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            6999999999999999999998665422 223333333344455665  4567999999321        1 01123346


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCCCCCCH
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSALEALNV  162 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv  162 (217)
                      ..+|++++|+|++++...+...-+. .+     ...++++++||.|+....  ..++.... ...+.+++++||++|.|+
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~-~~-----~~~~~i~~~~k~d~~~~~--~~~~~~~~-~~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILE-RI-----KNKRYLVVINKVDVVEKI--NEEEIKNK-LGTDRHMVKISALKGEGL  149 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHH-HH-----TTSSEEEEEEECSSCCCC--CHHHHHHH-HTCSTTEEEEEGGGTCCH
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhh-hc-----ccccceeeeeeccccchh--hhHHHHHH-hCCCCcEEEEECCCCCCH
Confidence            7899999999999876654432221 11     267899999999987633  23333221 234578999999999999


Q ss_pred             HHHHHHHHH
Q 042687          163 EKAFQTILL  171 (217)
Q Consensus       163 ~~~~~~l~~  171 (217)
                      ++++++|.+
T Consensus       150 ~~L~~~I~k  158 (160)
T d1xzpa2         150 EKLEESIYR  158 (160)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998865

>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=99.87  E-value=2.6e-21  Score=140.97  Aligned_cols=158  Identities=15%  Similarity=0.136  Sum_probs=96.2

Q ss_pred             CCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChh-------------hh
Q 042687            8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE-------------RY   74 (217)
Q Consensus         8 ~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------------~~   74 (217)
                      +.+...+|+|+|++|||||||+|+|++...........+.+..........   .+.+.|++|..             .+
T Consensus        19 p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~   95 (195)
T d1svia_          19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhH
Confidence            344556999999999999999999998653222222212222222223332   23366666621             11


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH----cCCe
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK----EGLS  150 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----~~~~  150 (217)
                      ...+...+..+|++++++|++++.. ....++++.+...   ++|+++|+||+|+....... +....+...    ...+
T Consensus        96 ~~~~~~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~~---~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~  170 (195)
T d1svia_          96 IETYITTREELKAVVQIVDLRHAPS-NDDVQMYEFLKYY---GIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDE  170 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHHT---TCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSE
T ss_pred             Hhhhhccccchhhhhhhhhcccccc-ccccccccccccc---cCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCC
Confidence            1222334567899999999976533 2223455555554   78999999999986533322 222333332    3467


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHH
Q 042687          151 FLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       151 ~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ++++||++|.|+++++++|.+.+
T Consensus       171 ~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         171 LILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999998865

>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=99.87  E-value=3e-22  Score=149.29  Aligned_cols=160  Identities=18%  Similarity=0.172  Sum_probs=103.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEE----------------ECCeEEEEEEEecCChhhhccc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ----------------VEGKTVKAQIWDTAGQERYRAI   77 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~----------------~~~~~~~~~i~D~~G~~~~~~~   77 (217)
                      .|+|+|++++|||||+++|.+...........+.........                +......+.++|||||..|...
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~   86 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTL   86 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTS
T ss_pred             EEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceeccccc
Confidence            399999999999999999987543322211111111111111                1222346789999999999888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--------------------H
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--------------------A  137 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--------------------~  137 (217)
                      ....+..+|++|+|+|+.+.-.... .+.+..+...   ++|+++++||+|+.......                    .
T Consensus        87 ~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~---~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~  162 (227)
T d1g7sa4          87 RKRGGALADLAILIVDINEGFKPQT-QEALNILRMY---RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLD  162 (227)
T ss_dssp             BCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHHT---TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHH
T ss_pred             chhcccccceEEEEEecccCcccch-hHHHHHhhcC---CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHH
Confidence            8888899999999999987543333 2333444443   88999999999985432111                    0


Q ss_pred             HHHHHHHH---Hc---------------CCeEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 042687          138 EDAQILAE---KE---------------GLSFLETSALEALNVEKAFQTILLDIYHII  177 (217)
Q Consensus       138 ~~~~~~~~---~~---------------~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~  177 (217)
                      ........   ..               .++++++||.+|.|++++++.|.....+.+
T Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~  220 (227)
T d1g7sa4         163 TKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (227)
T ss_dssp             HHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence            01111111   00               146899999999999999999887664433

>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=99.86  E-value=6.8e-21  Score=139.98  Aligned_cols=116  Identities=19%  Similarity=0.287  Sum_probs=85.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhc-cchhhhhcCCcEEEEEE
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYR-AITSAYYRGAVGALLVY   92 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~ii~v~   92 (217)
                      +|+|+|++|||||||+++|.++.+...+ ++.+.+.....+ .++..+.+.+||++|++.++ ..+..++..++++++|+
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            6999999999999999999998876543 454444433322 24455678899999998775 56678889999999999


Q ss_pred             eCCChhhH-HHHHHHHHH-HHh--hcCCCCeEEEEEeCCCCcc
Q 042687           93 DITKRQTF-DNVTRWLRE-LRD--HADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        93 d~~~~~s~-~~~~~~~~~-i~~--~~~~~~p~ivv~nK~Dl~~  131 (217)
                      |+++..++ .....++.. +..  .....+|++|++||+|++.
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            99987653 344344433 322  2234789999999999975

>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=99.86  E-value=3.7e-21  Score=140.19  Aligned_cols=162  Identities=19%  Similarity=0.136  Sum_probs=106.4

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCC-----CCCcceeeEEEEEEE-------------------CCeEEEEE
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLES-----KSTIGVEFATRTLQV-------------------EGKTVKAQ   64 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~-----~~t~~~~~~~~~~~~-------------------~~~~~~~~   64 (217)
                      ..+.++|+++|+.++|||||+++|.+.......     ..|....+.......                   ......+.
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            456789999999999999999999864322111     111111111111111                   11235688


Q ss_pred             EEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc--CHHHHHH
Q 042687           65 IWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV--AAEDAQI  142 (217)
Q Consensus        65 i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~  142 (217)
                      ++|+||+..|.......+..+|++++|+|+.+........+.+..+....  ..++++++||+|+.+....  .......
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            99999999999888888899999999999987532223333333343331  3457889999998763321  1223344


Q ss_pred             HHHHc---CCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          143 LAEKE---GLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       143 ~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      +....   .++++++||++|.|++++++.|.+.
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            44333   3689999999999999999888764

>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=99.86  E-value=5.6e-22  Score=143.33  Aligned_cols=155  Identities=14%  Similarity=0.071  Sum_probs=98.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh----ccch---hhhhcCCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY----RAIT---SAYYRGAV   86 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~---~~~~~~~d   86 (217)
                      +|+|+|++|||||||+|+|.+........+..+.........+.+. ..+.+|||||....    ....   ...+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            6999999999999999999887655443333333333333333321 25679999995321    1111   22345688


Q ss_pred             EEEEEEeCCChhhHHHH---HHH--HHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHc--CCeEEEecCCCC
Q 042687           87 GALLVYDITKRQTFDNV---TRW--LRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKE--GLSFLETSALEA  159 (217)
Q Consensus        87 ~ii~v~d~~~~~s~~~~---~~~--~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~vSa~~~  159 (217)
                      .++++++..........   ..+  ..........++|+++|+||+|+.+..    ...+.+....  +.+++++||++|
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            88888877643321111   111  111111222468999999999987532    2233344433  578999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|+++++++|.+.+
T Consensus       158 ~Gi~~L~~~i~~~L  171 (185)
T d1lnza2         158 EGLRELLFEVANQL  171 (185)
T ss_dssp             STTHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999999998766

>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=99.86  E-value=2.8e-21  Score=143.47  Aligned_cols=159  Identities=17%  Similarity=0.193  Sum_probs=113.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEE
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii   89 (217)
                      ...+||+++|..|||||||+++|..+.+    .||.|.  ....+.+++  +++.+||++|++.++..|..++..+++++
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~--~~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGI--FETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSC--EEEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCe--EEEEEEECc--EEEEEEecCccceeccchhhhcccccceE
Confidence            3468999999999999999999976543    466663  444556666  57789999999999999999999999999


Q ss_pred             EEEeCCChh----------hH-HHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc----c-------------------
Q 042687           90 LVYDITKRQ----------TF-DNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA----V-------------------  135 (217)
Q Consensus        90 ~v~d~~~~~----------s~-~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~----~-------------------  135 (217)
                      +++|.++..          .+ +....|...+......++|++|++||+|+.+.+.    .                   
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~  155 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDAT  155 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCC
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCccccc
Confidence            999997642          22 2233344334443445899999999999843210    0                   


Q ss_pred             -------CHHHHHH-----HHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Q 042687          136 -------AAEDAQI-----LAEK--------EGLSFLETSALEALNVEKAFQTILLDIYHI  176 (217)
Q Consensus       136 -------~~~~~~~-----~~~~--------~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~  176 (217)
                             ...++..     +...        ..+..+++||.++.++..+|+.+.+.|++.
T Consensus       156 ~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         156 PEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                   0122222     2211        124467899999999999999998877654

>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=99.85  E-value=3.7e-20  Score=135.82  Aligned_cols=160  Identities=17%  Similarity=0.140  Sum_probs=101.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-----CCcceeeEEEEEEE------------------------CCeEE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-----STIGVEFATRTLQV------------------------EGKTV   61 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-----~t~~~~~~~~~~~~------------------------~~~~~   61 (217)
                      +-++|+++|+.++|||||+++|.+........     .+.........+..                        .....
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            44899999999999999999998632211100     00000010111100                        01234


Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHH
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AED  139 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~  139 (217)
                      .+.++|+|||..|.......+..+|++|+|+|+.+.-.....++.+..+....  -.|++|++||+|+.......  ..+
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~--i~~iIV~vNK~Dl~~~~~~~~~~~~  164 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQ  164 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTT--CCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcC--CceeeeccccCCCccchHHHHHHHH
Confidence            68899999999998888888899999999999987521122223333333331  34789999999996533221  122


Q ss_pred             HHHHHHHc---CCeEEEecCCCCCCHHHHHHHHHHH
Q 042687          140 AQILAEKE---GLSFLETSALEALNVEKAFQTILLD  172 (217)
Q Consensus       140 ~~~~~~~~---~~~~~~vSa~~~~gv~~~~~~l~~~  172 (217)
                      ...+....   +++++++||++|.|++++++.|.+.
T Consensus       165 ~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~  200 (205)
T d2qn6a3         165 IKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEY  200 (205)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhh
Confidence            23333322   3789999999999999999988764

>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=99.83  E-value=9.6e-21  Score=137.49  Aligned_cols=156  Identities=17%  Similarity=0.102  Sum_probs=102.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc----------------cccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE----------------FCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      +-++|+++|+.++|||||+++|....                ...+  ...+.+.......+......+.++||||+..|
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~E--r~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f   79 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEE--RARGITINAAHVEYSTAARHYAHTDCPGHADY   79 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEE--EETTEEEECEEEEEECSSCEEEEEECSSHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhh--cCCCccCCcceEEEEeceeeEEeecCcchHHH
Confidence            34899999999999999999997421                0111  11222223333333333456779999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccccc---CHHHHHHHHHHcC---
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAV---AAEDAQILAEKEG---  148 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~---  148 (217)
                      .......+..+|++|+|+|+.+....+..+. +..+....  ..|++|++||+|+......   -..++..+....+   
T Consensus        80 ~~~~~~~~~~aD~allVVda~~G~~~QT~~~-~~~a~~~~--~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~  156 (196)
T d1d2ea3          80 VKNMITGTAPLDGCILVVAANDGPMPQTREH-LLLARQIG--VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKG  156 (196)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSCHHHHHH-HHHHHHTT--CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHHHhhcCeEEEEEEcCCCCchhHHHH-HHHHHHhc--CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCc
Confidence            8888888999999999999988654333333 33333331  4578899999998642221   1224455555443   


Q ss_pred             --CeEEEecCCCC----------CCHHHHHHHHHH
Q 042687          149 --LSFLETSALEA----------LNVEKAFQTILL  171 (217)
Q Consensus       149 --~~~~~vSa~~~----------~gv~~~~~~l~~  171 (217)
                        ++++++|+++|          .++.++++.|.+
T Consensus       157 ~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             ccCEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence              67999999987          366776666544

>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=99.81  E-value=3.8e-19  Score=127.43  Aligned_cols=156  Identities=21%  Similarity=0.216  Sum_probs=100.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChh---------hhccchhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQE---------RYRAITSA   80 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~   80 (217)
                      +--.|+|+|.+|||||||+|+|++........ ++............+..  .+..+|++|..         .+......
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            44569999999999999999999877654332 33232333333344443  34468888732         11222233


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcC-CeEEEecCCCC
Q 042687           81 YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEG-LSFLETSALEA  159 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~vSa~~~  159 (217)
                      ....+++++++.|..+...  ....+...+..   ...|.++++||.|+.............+...++ .+++++||++|
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            3457888888998775432  22223333333   267889999999986544333344455555565 58999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 042687          160 LNVEKAFQTILLDI  173 (217)
Q Consensus       160 ~gv~~~~~~l~~~~  173 (217)
                      .|+++++++|.+.+
T Consensus       157 ~gi~~L~~~i~~~l  170 (179)
T d1egaa1         157 LNVDTIAAIVRKHL  170 (179)
T ss_dssp             TTHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHhC
Confidence            99999999987754

>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=99.79  E-value=1e-18  Score=128.95  Aligned_cols=152  Identities=24%  Similarity=0.250  Sum_probs=100.7

Q ss_pred             CCCCceeeEEEEEcCCCCCHHHHHhHHhcCc--cc-------------------------------cCCCCCcceeeEEE
Q 042687            6 DHEYDYLFKIVLIGDSGVGKSNILSRFTRNE--FC-------------------------------LESKSTIGVEFATR   52 (217)
Q Consensus         6 ~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~--~~-------------------------------~~~~~t~~~~~~~~   52 (217)
                      +++.+..+||+++|+.++|||||+.+|+...  ..                               .......+.+....
T Consensus         3 ~~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~   82 (222)
T d1zunb3           3 QHERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYR   82 (222)
T ss_dssp             STTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEE
T ss_pred             ccccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEE
Confidence            5667788999999999999999999996321  10                               00011112222223


Q ss_pred             EEEECCeEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcc
Q 042687           53 TLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNH  131 (217)
Q Consensus        53 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~  131 (217)
                      .+...+  ..+.++|+|||..|.......+..+|++|+|+|+.+...-+..+. +..+...   +++ ++++.||+|+.+
T Consensus        83 ~~~~~~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~~~~~~~---gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          83 YFSTAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-SYIASLL---GIKHIVVAINKMDLNG  156 (222)
T ss_dssp             EEECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-HHHHHHT---TCCEEEEEEECTTTTT
T ss_pred             EEeccc--eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-HHHHHHc---CCCEEEEEEEcccccc
Confidence            333333  467899999999999988888999999999999987544343333 2233333   544 788999999965


Q ss_pred             ccccC----HHHHHHHHHHcC-----CeEEEecCCCCCCHH
Q 042687          132 LRAVA----AEDAQILAEKEG-----LSFLETSALEALNVE  163 (217)
Q Consensus       132 ~~~~~----~~~~~~~~~~~~-----~~~~~vSa~~~~gv~  163 (217)
                      ..+..    ..++..+....+     ++++++||.+|.|+.
T Consensus       157 ~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         157 FDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             ccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            32211    123445555554     468999999999884

>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=99.78  E-value=3.6e-19  Score=130.13  Aligned_cols=142  Identities=17%  Similarity=0.095  Sum_probs=94.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcc-----------------ccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEF-----------------CLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER   73 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~-----------------~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   73 (217)
                      +-++|+++|+.++|||||+++|....-                 +.+.....+.+.....+..++  .++.++||||+..
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            348999999999999999999963210                 000011223334444455555  4567999999999


Q ss_pred             hccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcccccc---CHHHHHHHHHHcC-
Q 042687           74 YRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAV---AAEDAQILAEKEG-  148 (217)
Q Consensus        74 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~-  148 (217)
                      |.......+..+|++|+|+|+.+....+..+.| ..+...   ++| ++|++||+|+.+..+.   -..++..+....+ 
T Consensus        80 f~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~  155 (204)
T d2c78a3          80 YIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEF  155 (204)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCC
Confidence            999888899999999999999887655554433 333333   665 7788999998653221   1233444444443 


Q ss_pred             ----CeEEEecCCC
Q 042687          149 ----LSFLETSALE  158 (217)
Q Consensus       149 ----~~~~~vSa~~  158 (217)
                          +++++.|+..
T Consensus       156 ~~~~i~~i~~sa~~  169 (204)
T d2c78a3         156 PGDEVPVIRGSALL  169 (204)
T ss_dssp             CTTTSCEEECCHHH
T ss_pred             Ccccceeeeeechh
Confidence                5688888753

>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=99.76  E-value=4.6e-18  Score=122.28  Aligned_cols=165  Identities=16%  Similarity=0.095  Sum_probs=87.5

Q ss_pred             CCCCCCceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEE-EECCeEEEEEEEecCChh-------hhc
Q 042687            4 KVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTL-QVEGKTVKAQIWDTAGQE-------RYR   75 (217)
Q Consensus         4 ~~~~~~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~~i~D~~G~~-------~~~   75 (217)
                      +.+.+.+..++|+|+|.+|||||||+|+|.+...........+........ ...+.. .+...+.++..       ...
T Consensus         8 ~~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   86 (188)
T d1puia_           8 IRHLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKR-LVDLPGYGYAEVPEEMKRKWQ   86 (188)
T ss_dssp             GGGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEE-EEECCCCC------CCHHHHH
T ss_pred             hhHCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccc-eeeeecccccchhhhhhhhhh
Confidence            344567778999999999999999999998876543332222222222222 222221 12222222211       111


Q ss_pred             cch---hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHHHHHHHHc--C
Q 042687           76 AIT---SAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDAQILAEKE--G  148 (217)
Q Consensus        76 ~~~---~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~--~  148 (217)
                      ...   .......+.++.+.+......... ..++..+...   ..++++++||+|+.......  ..+..+.....  .
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~---~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~  162 (188)
T d1puia_          87 RALGEYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVDS---NIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGD  162 (188)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHHT---TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSC
T ss_pred             hhhhhhhhhhhheeEEEEeecccccchhHH-HHHHHHhhhc---cccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCC
Confidence            111   112234455666666655433222 3344444443   77899999999986532221  11222222222  2


Q ss_pred             CeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          149 LSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       149 ~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      .+++++||++|.|++++++.|.+.+
T Consensus       163 ~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         163 VQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            5799999999999999999886643

>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=99.73  E-value=4.8e-18  Score=124.49  Aligned_cols=114  Identities=20%  Similarity=0.253  Sum_probs=79.4

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhhhccchhhh----hcCCcE
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAY----YRGAVG   87 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d~   87 (217)
                      ...|+|+|++|||||||+|+|++..+.+    +++.......+  ......+.+||+||++.+...+..+    ...++.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAA--DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEET--TGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEEE--EeCCeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            3589999999999999999999877643    22222333333  3333456799999998766655444    455688


Q ss_pred             EEEEEeCCC-hhhHHHHHHHHH----HHHhhcCCCCeEEEEEeCCCCcc
Q 042687           88 ALLVYDITK-RQTFDNVTRWLR----ELRDHADSNIVIMMAGNKSDLNH  131 (217)
Q Consensus        88 ii~v~d~~~-~~s~~~~~~~~~----~i~~~~~~~~p~ivv~nK~Dl~~  131 (217)
                      +++++|+.+ ..+++....|+.    .+......++|+++++||+|+..
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~  125 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFT  125 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccc
Confidence            999999764 445555544443    34445566899999999999865

>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=99.71  E-value=2.5e-17  Score=122.77  Aligned_cols=148  Identities=16%  Similarity=0.140  Sum_probs=98.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC--cc-----------------------------ccCCCCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN--EF-----------------------------CLESKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~--~~-----------------------------~~~~~~t~~~~~~~~~~~~~~~   59 (217)
                      +.++|+++|+.++|||||+.+|+..  ..                             ..+.....+.+.....+...+ 
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~-   83 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK-   83 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS-
T ss_pred             CccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC-
Confidence            4589999999999999999998531  00                             001112233344444455555 


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhh-------HHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCcc
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQT-------FDNVTRWLRELRDHADSNIV-IMMAGNKSDLNH  131 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s-------~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~  131 (217)
                       .+++|+|+|||..|...+..-+..+|++|+|+|+....-       .+..+.| ......   ++| +++++||+|+.+
T Consensus        84 -~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~---gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3          84 -YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTL---GVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             -EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHT---TCCEEEEEEECGGGGT
T ss_pred             -EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHc---CCCeEEEEEECCCCCC
Confidence             577899999999999999999999999999999986421       1222233 223332   565 788999999865


Q ss_pred             ccccC----HHHHHHHHHHcC-----CeEEEecCCCCCCHHH
Q 042687          132 LRAVA----AEDAQILAEKEG-----LSFLETSALEALNVEK  164 (217)
Q Consensus       132 ~~~~~----~~~~~~~~~~~~-----~~~~~vSa~~~~gv~~  164 (217)
                      .....    ..++..+....+     ++++++|+..|.|+-+
T Consensus       159 ~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         159 WDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            32211    233455555444     5689999999988643

>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=99.70  E-value=2.8e-16  Score=118.79  Aligned_cols=114  Identities=20%  Similarity=0.203  Sum_probs=81.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc------------------cCCCCCcceeeEEEEEEECCeEEEEEEEecCChh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC------------------LESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   72 (217)
                      ..-+|+|+|+.++|||||+.+|+.....                  .+.....+.......+..++  .+++++||||+.
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~   82 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHV   82 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSS
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchh
Confidence            3458999999999999999999542111                  01111122233334444555  467799999999


Q ss_pred             hhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        73 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      .|.......+..+|++|+|+|+.+.-......-| ......   ++|.++++||.|.+
T Consensus        83 dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~~~---~lP~i~fINKmDr~  136 (276)
T d2bv3a2          83 DFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAEKY---KVPRIAFANKMDKT  136 (276)
T ss_dssp             SCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHHTT---TCCEEEEEECTTST
T ss_pred             hhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHHHc---CCCEEEEEeccccc
Confidence            9999999999999999999999987655554444 333333   89999999999973

>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=99.69  E-value=8.4e-17  Score=119.16  Aligned_cols=149  Identities=16%  Similarity=0.159  Sum_probs=92.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCcc-------------------------------ccCCCCCcceeeEEEEEEECCe
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEF-------------------------------CLESKSTIGVEFATRTLQVEGK   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~-------------------------------~~~~~~t~~~~~~~~~~~~~~~   59 (217)
                      +-++|+++|+.++|||||+.+|+...-                               ..+.....+.+.....+..+  
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~--   79 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETK--   79 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECS--
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecC--
Confidence            358999999999999999998853110                               01111111222222223333  


Q ss_pred             EEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHH------HHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFD------NVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        60 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      ...++++|||||..|.......+..+|++|+|+|+.+...-.      ...+.+...... . ..++++++||+|+....
T Consensus        80 ~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~-~-~~~iIv~iNK~D~~~~~  157 (224)
T d1jnya3          80 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-G-LDQLIVAVNKMDLTEPP  157 (224)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-T-CTTCEEEEECGGGSSST
T ss_pred             CceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh-C-CCceEEEEEcccCCCcc
Confidence            356789999999999999999999999999999998753211      122222222222 1 34588889999986422


Q ss_pred             cc------CHHHHHHHHHHcC-----CeEEEecCCCCCCHH
Q 042687          134 AV------AAEDAQILAEKEG-----LSFLETSALEALNVE  163 (217)
Q Consensus       134 ~~------~~~~~~~~~~~~~-----~~~~~vSa~~~~gv~  163 (217)
                      ..      ...++..+...++     ++++++||..|.|+.
T Consensus       158 ~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         158 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             ccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            11      1122344444443     568999999999875

>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=99.68  E-value=2.7e-16  Score=117.70  Aligned_cols=152  Identities=17%  Similarity=0.152  Sum_probs=82.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCcccc-------------------------------CCCCCcceeeEEEEEEECC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCL-------------------------------ESKSTIGVEFATRTLQVEG   58 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~-------------------------------~~~~t~~~~~~~~~~~~~~   58 (217)
                      .+.++|+++|+.++|||||+.+|+...-..                               ........+.....+...+
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            356799999999999999999994311000                               0000011111111122222


Q ss_pred             eEEEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHH------HHHHHHHHHHhhcCCCCe-EEEEEeCCCCcc
Q 042687           59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFD------NVTRWLRELRDHADSNIV-IMMAGNKSDLNH  131 (217)
Q Consensus        59 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~  131 (217)
                        .++.++|+|||..|..........+|++|+|+|+.+..--.      ...+.+..+...   ++| +++++||+|+..
T Consensus       102 --~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~---~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3         102 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ---GINHLVVVINKMDEPS  176 (245)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT---TCSSEEEEEECTTSTT
T ss_pred             --ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc---CCCeEEEEEEcCCCCc
Confidence              46789999999999998888899999999999998742110      122223333333   454 789999999864


Q ss_pred             ccc--cCH----HHHHHHHHHc-------CCeEEEecCCCCCCHHHHH
Q 042687          132 LRA--VAA----EDAQILAEKE-------GLSFLETSALEALNVEKAF  166 (217)
Q Consensus       132 ~~~--~~~----~~~~~~~~~~-------~~~~~~vSa~~~~gv~~~~  166 (217)
                      ...  ...    .++..+....       .++++++||++|+|+.+++
T Consensus       177 ~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         177 VQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccch
Confidence            221  111    1223232222       2579999999999997654

>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=99.68  E-value=7.6e-16  Score=116.09  Aligned_cols=112  Identities=16%  Similarity=0.191  Sum_probs=81.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccC------------------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLE------------------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~------------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      -+|+|+|+.++|||||+.+|....-...                  .....+.......+..++  .+++++||||+..|
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF   80 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDF   80 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhh
Confidence            3799999999999999999953211100                  011123333344455555  46779999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           75 RAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        75 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      .......+..+|++|+|+|+.+.-.......| ......   ++|.++++||+|..
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~~---~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAW-TVAERL---GLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHHT---TCCEEEEEECGGGC
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHH-Hhhhhc---cccccccccccccc
Confidence            99999999999999999999986655554444 344443   89999999999963

>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=99.59  E-value=5e-15  Score=118.30  Aligned_cols=158  Identities=11%  Similarity=0.113  Sum_probs=90.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCc---ceeeEEEEEEECCeEEEEEEEecCChhhhccc-----hhhhh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTI---GVEFATRTLQVEGKTVKAQIWDTAGQERYRAI-----TSAYY   82 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~---~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----~~~~~   82 (217)
                      ..++|+|+|.+|||||||+|+|.+...........   +++.....+...+. -.+.+|||||.......     ....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~-~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNI-PNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSC-TTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCC-CeEEEEeCCCcccccccHHHHHHHhhh
Confidence            35899999999999999999999855432221111   11111122222221 13669999995432222     22235


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc-------cccCHH----HH----HHHHHHc
Q 042687           83 RGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL-------RAVAAE----DA----QILAEKE  147 (217)
Q Consensus        83 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~-------~~~~~~----~~----~~~~~~~  147 (217)
                      ..+|++|++.|..-.+..   ..++..+...   ++|+++|.||+|....       .....+    ++    .......
T Consensus       134 ~~~d~~l~~~~~~~~~~d---~~l~~~l~~~---~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~  207 (400)
T d1tq4a_         134 YEYDFFIIISATRFKKND---IDIAKAISMM---KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  207 (400)
T ss_dssp             GGCSEEEEEESSCCCHHH---HHHHHHHHHT---TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             hcceEEEEecCCCCCHHH---HHHHHHHHHc---CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHc
Confidence            678988888775432222   2333444443   8999999999996311       111111    11    2222333


Q ss_pred             C---CeEEEecCCC--CCCHHHHHHHHHHHHHH
Q 042687          148 G---LSFLETSALE--ALNVEKAFQTILLDIYH  175 (217)
Q Consensus       148 ~---~~~~~vSa~~--~~gv~~~~~~l~~~~~~  175 (217)
                      +   .++|.+|..+  ..|+.++.+.+.+.+-+
T Consensus       208 ~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         208 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             CCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            3   3588888764  35888888888776543

>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=99.56  E-value=1.1e-14  Score=113.28  Aligned_cols=116  Identities=20%  Similarity=0.222  Sum_probs=80.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc----------------cCCCCCcceeeEEEEEEE--------------CCeE
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC----------------LESKSTIGVEFATRTLQV--------------EGKT   60 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~----------------~~~~~t~~~~~~~~~~~~--------------~~~~   60 (217)
                      ..-+|+|+|+.++|||||+.+|......                .+.....+.......+..              ++..
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            3346999999999999999999632110                011111111122222211              3356


Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCc
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLN  130 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  130 (217)
                      +.++++|||||..|.......++.+|++|+|+|+.+.-..+....|.... ..   ++|+++++||+|..
T Consensus        96 ~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~-~~---~~p~i~viNKiDr~  161 (341)
T d1n0ua2          96 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-GE---RIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-HT---TCEEEEEEECHHHH
T ss_pred             eEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHH-Hc---CCCeEEEEECcccc
Confidence            77999999999999999999999999999999999876655544443333 22   89999999999973

>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=99.51  E-value=2.6e-13  Score=102.04  Aligned_cols=123  Identities=15%  Similarity=0.119  Sum_probs=74.6

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccccCCC-CCcceeeEEEEEEECCeEEEEEEEecCChhh-------hccchhhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESK-STIGVEFATRTLQVEGKTVKAQIWDTAGQER-------YRAITSAY   81 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~   81 (217)
                      ...++|+|+|.+|||||||+|.|++........ +..+..........++.  .+.++||||...       .......+
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~--~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGF--TLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTE--EEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccE--EEEEEeeecccCCcchHHHHHHHHHHH
Confidence            356999999999999999999999977654332 23333444455556664  577999999421       11111111


Q ss_pred             --hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCC--CCeEEEEEeCCCCcccccc
Q 042687           82 --YRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADS--NIVIMMAGNKSDLNHLRAV  135 (217)
Q Consensus        82 --~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~Dl~~~~~~  135 (217)
                        ....|++++|+++++.. +... ...+..+....+.  -.+++||+||+|.......
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~-~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~  165 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLD-KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGL  165 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHH-HHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGC
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHH-HHHHHHHHHHcchhhhhCEEEEEECcccCCcCCC
Confidence              24568899998876531 1111 1222233322221  3578999999998654433

>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=99.43  E-value=3.7e-14  Score=105.71  Aligned_cols=110  Identities=15%  Similarity=-0.059  Sum_probs=65.1

Q ss_pred             EEEEEecCChhhhccchhh---h--hcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCcccc
Q 042687           62 KAQIWDTAGQERYRAITSA---Y--YRGAVGALLVYDITK---RQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLR  133 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~---~--~~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  133 (217)
                      .+.++|+||+..+......   .  ....+.+++++|+..   +..+............  ....|.++++||+|+....
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~--~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCCHH
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHH--HhCCCceeeeeccccccHH
Confidence            4779999998754332222   1  234568899999753   3332222111111111  1278999999999986532


Q ss_pred             ccCH-----------------------HHHHH---HHHH--cCCeEEEecCCCCCCHHHHHHHHHHHH
Q 042687          134 AVAA-----------------------EDAQI---LAEK--EGLSFLETSALEALNVEKAFQTILLDI  173 (217)
Q Consensus       134 ~~~~-----------------------~~~~~---~~~~--~~~~~~~vSa~~~~gv~~~~~~l~~~~  173 (217)
                      ....                       .....   ....  ..++++++||++|.|+++++..|-+++
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         174 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            1100                       00011   1111  247899999999999999999887754

>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=99.39  E-value=1.5e-12  Score=100.69  Aligned_cols=111  Identities=13%  Similarity=0.056  Sum_probs=66.7

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      +.+.|++|.|...-.   ......+|.+++|..+...+..+..+.-   +.+     ..-++|+||+|+.+.........
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~g---ilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKG---IFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTT---HHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhhh---Hhh-----hhheeeEeccccccchHHHHHHH
Confidence            345678887753222   2234569999999998876655543222   222     22388999999865333222211


Q ss_pred             HHHHH----------HcCCeEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 042687          141 QILAE----------KEGLSFLETSALEALNVEKAFQTILLDIYHIISKKAL  182 (217)
Q Consensus       141 ~~~~~----------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~~~~~  182 (217)
                      ..+..          .+..+++.+||.+|.|+++++++|.++.......+.+
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~~~~G~l  264 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTATGEI  264 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHHHHTTHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHHHHCChH
Confidence            12222          1346799999999999999999998877655444433

>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=99.38  E-value=1.9e-13  Score=105.80  Aligned_cols=105  Identities=15%  Similarity=0.077  Sum_probs=60.3

Q ss_pred             EEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccC--HHHH
Q 042687           63 AQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVA--AEDA  140 (217)
Q Consensus        63 ~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~  140 (217)
                      +.+++|.|...-.   ..+...+|.+++|.++...+..+..+.-+   .+.     +-++|+||+|++......  ..+.
T Consensus       149 ~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi---~e~-----aDi~VvNKaD~~~~~~~~~~~~~~  217 (327)
T d2p67a1         149 VVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKKGL---MEV-----ADLIVINKDDGDNHTNVAIARHMY  217 (327)
T ss_dssp             EEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCHHH---HHH-----CSEEEECCCCTTCHHHHHHHHHHH
T ss_pred             eEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhchhh---hcc-----ccEEEEEeecccchHHHHHHHHHH
Confidence            4455665532211   13456789999998876554444433322   222     237888999987633221  1122


Q ss_pred             HHHHH-------HcCCeEEEecCCCCCCHHHHHHHHHHHHHHHHH
Q 042687          141 QILAE-------KEGLSFLETSALEALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       141 ~~~~~-------~~~~~~~~vSa~~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      .....       .+..+++.+||.+|.|++++++.|.++......
T Consensus       218 ~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~l~~  262 (327)
T d2p67a1         218 ESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTALTA  262 (327)
T ss_dssp             HHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHHHHh
Confidence            22222       233579999999999999999999886655443

>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=99.33  E-value=1.2e-11  Score=93.90  Aligned_cols=84  Identities=19%  Similarity=0.122  Sum_probs=53.5

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCe---------------EEEEEEEecCChh----
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK---------------TVKAQIWDTAGQE----   72 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~----   72 (217)
                      .++|+|+|.|+||||||++++++........|..+.+.....+.+.+.               +..+.++|+||.-    
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            479999999999999999999987765443333333333323333221               1257899999931    


Q ss_pred             ---hhccchhhhhcCCcEEEEEEeCC
Q 042687           73 ---RYRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        73 ---~~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                         .........++.+|+++.|+|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence               12223455678999999999873

>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=99.27  E-value=9.3e-11  Score=89.68  Aligned_cols=87  Identities=15%  Similarity=0.140  Sum_probs=58.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcCccc-cCCCCCcceeeEEEEEEECC---------------eEEEEEEEecCChhh
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRNEFC-LESKSTIGVEFATRTLQVEG---------------KTVKAQIWDTAGQER   73 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~---------------~~~~~~i~D~~G~~~   73 (217)
                      ...++|+|+|.|+||||||+|++++...+ ....|.++.+.....+.+.+               ....+.++|+||...
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            34589999999999999999999976542 23233333433333344432               234678999999321


Q ss_pred             -------hccchhhhhcCCcEEEEEEeCCC
Q 042687           74 -------YRAITSAYYRGAVGALLVYDITK   96 (217)
Q Consensus        74 -------~~~~~~~~~~~~d~ii~v~d~~~   96 (217)
                             ........++.+|++++|+|+.+
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                   12234556789999999999854

>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=99.19  E-value=7.7e-11  Score=90.25  Aligned_cols=119  Identities=18%  Similarity=0.212  Sum_probs=71.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccccC-CCCCcceeeEEEEEE-------E---CCe--------------------
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLE-SKSTIGVEFATRTLQ-------V---EGK--------------------   59 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~~~-~~~t~~~~~~~~~~~-------~---~~~--------------------   59 (217)
                      ..++|+|+|..++|||||+|+|++..+.+. ..+++..........       .   .+.                    
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            456899999999999999999999876333 223321111111000       0   000                    


Q ss_pred             -------------------EEEEEEEecCChh-------------hhccchhhhhcCCcE-EEEEEeCCChhhHHHHHHH
Q 042687           60 -------------------TVKAQIWDTAGQE-------------RYRAITSAYYRGAVG-ALLVYDITKRQTFDNVTRW  106 (217)
Q Consensus        60 -------------------~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~  106 (217)
                                         ...+.++|+||..             ....+...|+...+. +++|.++...........+
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                               0137799999932             123445666777764 5556666554444444455


Q ss_pred             HHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687          107 LRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus       107 ~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      ...+.   +...++++|+||+|+...
T Consensus       185 ~~~~~---~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         185 AKEVD---PQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHC---TTCSSEEEEEECGGGSCT
T ss_pred             HHHhC---cCCCceeeEEeccccccc
Confidence            44443   336789999999998543

>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=99.06  E-value=2.5e-10  Score=87.63  Aligned_cols=66  Identities=14%  Similarity=0.145  Sum_probs=41.0

Q ss_pred             EEEEEecCChh-------------hhccchhhhhcCCcEEEEEEe-CCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCC
Q 042687           62 KAQIWDTAGQE-------------RYRAITSAYYRGAVGALLVYD-ITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKS  127 (217)
Q Consensus        62 ~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii~v~d-~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  127 (217)
                      .+.++|+||..             ....+...|+.+++.+|+++. ......-.....+...+   .+....+++|+||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~---~~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHh---CcCCCeEEEEEecc
Confidence            36799999932             134556778889998776654 33222222223333333   33467899999999


Q ss_pred             CCc
Q 042687          128 DLN  130 (217)
Q Consensus       128 Dl~  130 (217)
                      |..
T Consensus       209 D~~  211 (306)
T d1jwyb_         209 DLM  211 (306)
T ss_dssp             TSS
T ss_pred             ccc
Confidence            984

>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=99.05  E-value=1.7e-10  Score=89.11  Aligned_cols=83  Identities=20%  Similarity=0.160  Sum_probs=44.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEE-E---E------------------ECCeEEEEEEEecCC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRT-L---Q------------------VEGKTVKAQIWDTAG   70 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~-~---~------------------~~~~~~~~~i~D~~G   70 (217)
                      ++|+++|.||||||||+|+|.+........|..+.+..... .   .                  .......+.++|+||
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            48999999999999999999987654333332222211110 0   0                  012345788999999


Q ss_pred             hhh-------hccchhhhhcCCcEEEEEEeCC
Q 042687           71 QER-------YRAITSAYYRGAVGALLVYDIT   95 (217)
Q Consensus        71 ~~~-------~~~~~~~~~~~~d~ii~v~d~~   95 (217)
                      .-.       ........++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            421       1222233467899999999985

>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=98.64  E-value=1.3e-08  Score=76.57  Aligned_cols=59  Identities=20%  Similarity=0.386  Sum_probs=36.8

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      ....++|+|+|.||||||||+|+|.+....... ...|.+.....+..+.   .+.++||||-
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~-~~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTG-DRPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEEC-CcccccccceEEECCC---CeEEecCCCc
Confidence            346699999999999999999999987654332 2223333333333433   3669999994

>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=98.59  E-value=9.8e-08  Score=69.04  Aligned_cols=85  Identities=16%  Similarity=0.144  Sum_probs=62.0

Q ss_pred             hhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHH--cCCeEEEecCC
Q 042687           81 YYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEK--EGLSFLETSAL  157 (217)
Q Consensus        81 ~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~vSa~  157 (217)
                      ...+.|.+++|+++.+|+ +...+.+++-.....   ++|.+||+||+||.+...  ......+...  .+.+++.+|++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~---~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa~   81 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN---ELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSAK   81 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc---CCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEeccc
Confidence            457899999999988765 556667776655554   899999999999975332  1223333332  34689999999


Q ss_pred             CCCCHHHHHHHHH
Q 042687          158 EALNVEKAFQTIL  170 (217)
Q Consensus       158 ~~~gv~~~~~~l~  170 (217)
                      ++.|++++..++.
T Consensus        82 ~~~g~~~L~~~l~   94 (225)
T d1u0la2          82 TGMGIEELKEYLK   94 (225)
T ss_dssp             TCTTHHHHHHHHS
T ss_pred             cchhHhhHHHHhc
Confidence            9999999887663

>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=98.44  E-value=1.6e-06  Score=60.27  Aligned_cols=23  Identities=30%  Similarity=0.793  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +||+|+|++|+|||||++.+.+.
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            58999999999999999999864

>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=98.43  E-value=4.5e-08  Score=70.86  Aligned_cols=58  Identities=21%  Similarity=0.161  Sum_probs=34.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCccccC------CCCCcceeeEEEEEEECCeEEEEEEEecCChhhh
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNEFCLE------SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERY   74 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   74 (217)
                      ..+++|++|||||||+|+|.+......      ......++.....+.+++..+   ++||||-..+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg~---iiDTPG~r~~  160 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGGY---VVDTPGFANL  160 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSCE---EESSCSSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCcE---EEeCCccccc
Confidence            568999999999999999986532111      111111222233344544333   9999996543

>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=98.33  E-value=1.3e-07  Score=68.59  Aligned_cols=87  Identities=14%  Similarity=0.095  Sum_probs=62.2

Q ss_pred             hhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCH--HHHHHHHHHcCCeEEEecC
Q 042687           80 AYYRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAA--EDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        80 ~~~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~vSa  156 (217)
                      ....+.|.+++|+++.+|+ ++..+++++-.....   +++.+||+||+||.+......  ..........|++++.+|+
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~---~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEAN---DIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTT---TCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHHHHc---CCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeec
Confidence            3457999999999998765 566667766555444   889999999999975322111  1122334556899999999


Q ss_pred             CCCCCHHHHHHHH
Q 042687          157 LEALNVEKAFQTI  169 (217)
Q Consensus       157 ~~~~gv~~~~~~l  169 (217)
                      .++.|++++..+|
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999988776654

>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=98.32  E-value=9.4e-07  Score=63.43  Aligned_cols=91  Identities=19%  Similarity=0.076  Sum_probs=51.0

Q ss_pred             EEEEEecCChhhhccc----hhhh---hc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           62 KAQIWDTAGQERYRAI----TSAY---YR-----GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~----~~~~---~~-----~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      .+.++||+|...+...    ...+   ..     ..+-.++|.|++..  .+.+......+...   + +--++++|.|.
T Consensus        95 d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~---~-~~~lI~TKlDe  168 (213)
T d1vmaa2          95 DVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKEAV---N-VTGIILTKLDG  168 (213)
T ss_dssp             SEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHHHS---C-CCEEEEECGGG
T ss_pred             CEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cchhhhhhhhcccc---C-CceEEEecccC
Confidence            4679999993221111    1111   11     24678899998653  23333333333333   1 23577899995


Q ss_pred             ccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687          130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      ..  .  .-.+-.++...++|+..++  +|.++++
T Consensus       169 ~~--~--~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         169 TA--K--GGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             CS--C--TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CC--c--ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            32  1  2345666778889988876  4555544

>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=98.28  E-value=1.4e-06  Score=65.14  Aligned_cols=93  Identities=11%  Similarity=0.041  Sum_probs=65.6

Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecCC
Q 042687           78 TSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSAL  157 (217)
Q Consensus        78 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa~  157 (217)
                      ....++.+|++|+|.|+.+|.+...  ..+..+.   . ++|+++|+||+|+.+...  ..+...+....+...+.+|+.
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~---~-~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~isa~   80 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL---K-NKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINSV   80 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC---S-SSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCTT
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH---c-CCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceeecc
Confidence            4557899999999999988765332  1122221   1 689999999999976332  223344445556789999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHH
Q 042687          158 EALNVEKAFQTILLDIYHIIS  178 (217)
Q Consensus       158 ~~~gv~~~~~~l~~~~~~~~~  178 (217)
                      ++.+..++...+.+.+.+...
T Consensus        81 ~~~~~~~~~~~~~~~l~~~~~  101 (273)
T d1puja_          81 NGQGLNQIVPASKEILQEKFD  101 (273)
T ss_dssp             TCTTGGGHHHHHHHHHHHHHH
T ss_pred             cCCCccccchhhhhhhhhhhh
Confidence            999999998888776655443

>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=98.24  E-value=1.7e-05  Score=57.19  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +..-.+|.|.-|||||||++++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            3456789999999999999999874

>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=98.24  E-value=6.3e-07  Score=64.08  Aligned_cols=91  Identities=10%  Similarity=0.046  Sum_probs=50.5

Q ss_pred             EEEEEecCChhhhccc----hhhh---h-----cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           62 KAQIWDTAGQERYRAI----TSAY---Y-----RGAVGALLVYDITKR-QTFDNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~----~~~~---~-----~~~d~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      .+.++||+|...+...    +..+   .     ...+-.++|.|++.. +....+...+..+      +. --+++||.|
T Consensus        90 d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~~-~~lI~TKlD  162 (207)
T d1okkd2          90 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV------GL-TGVIVTKLD  162 (207)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH------CC-SEEEEECTT
T ss_pred             CEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc------CC-ceEEEeccC
Confidence            5679999994322111    1111   1     244678889898754 3444443333332      22 246789999


Q ss_pred             CccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Q 042687          129 LNHLRAVAAEDAQILAEKEGLSFLETSALEALNVEKA  165 (217)
Q Consensus       129 l~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~~  165 (217)
                      ... +   .-.+-.++...+.|+..++.  |.+.+++
T Consensus       163 et~-~---~G~~l~~~~~~~~Pi~~i~~--Gq~p~Dl  193 (207)
T d1okkd2         163 GTA-K---GGVLIPIVRTLKVPIKFVGV--GEGPDDL  193 (207)
T ss_dssp             SSC-C---CTTHHHHHHHHCCCEEEEEC--SSSTTCE
T ss_pred             CCC-C---ccHHHHHHHHHCCCEEEEeC--CCChHhC
Confidence            643 1   12355567788899877763  4444443

>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=98.23  E-value=1.2e-07  Score=68.87  Aligned_cols=22  Identities=41%  Similarity=0.702  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..+++|++|||||||+|+|.+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4579999999999999999875

>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=98.15  E-value=5.3e-06  Score=59.24  Aligned_cols=91  Identities=15%  Similarity=0.080  Sum_probs=50.5

Q ss_pred             EEEEEecCChhhhcc----ch---hhhhc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           62 KAQIWDTAGQERYRA----IT---SAYYR-----GAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~----~~---~~~~~-----~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      .+.++||+|......    ..   ....+     ..+-.++|.|++...  +.+......+...   + +--++++|.|-
T Consensus        93 d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~--~~~~~~~~~~~~~---~-~~~lIlTKlDe  166 (211)
T d2qy9a2          93 DVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQ--NAVSQAKLFHEAV---G-LTGITLTKLDG  166 (211)
T ss_dssp             SEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTH--HHHHHHHHHHHHS---C-CCEEEEECCTT
T ss_pred             CEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCc--chHHHHhhhhhcc---C-CceEEEeecCC
Confidence            467999999322111    11   11122     245788899986532  2222223333222   1 23577899996


Q ss_pred             ccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687          130 NHLRAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                      ..    ..-.+-.++...++|+..++  .|.++++
T Consensus       167 ~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         167 TA----KGGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             CT----TTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CC----CccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            43    12345666778899988886  5555544

>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=6.7e-06  Score=58.77  Aligned_cols=90  Identities=18%  Similarity=0.100  Sum_probs=52.0

Q ss_pred             EEEEEecCChhhhcc------chhhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccc
Q 042687           62 KAQIWDTAGQERYRA------ITSAY--YRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHL  132 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~------~~~~~--~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  132 (217)
                      .+.++||+|...+..      .....  .-..+-+++|.|++... ....+   .......   ++ --+++||.|... 
T Consensus        96 d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~---~~~~~~~---~~-~~lI~TKlDet~-  167 (211)
T d1j8yf2          96 EIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLA---SKFNQAS---KI-GTIIITKMDGTA-  167 (211)
T ss_dssp             SEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHH---HHHHHHC---TT-EEEEEECTTSCS-
T ss_pred             ceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHH---hhhhccc---Cc-ceEEEecccCCC-
Confidence            567999999532221      11111  22456788888886543 33332   2222222   22 346789999643 


Q ss_pred             cccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Q 042687          133 RAVAAEDAQILAEKEGLSFLETSALEALNVEK  164 (217)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~vSa~~~~gv~~  164 (217)
                         ..-.+-.++...++|+..++  .|.++++
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               34566777888899988876  4555544

>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=98.09  E-value=7.9e-06  Score=58.27  Aligned_cols=83  Identities=18%  Similarity=0.125  Sum_probs=47.6

Q ss_pred             EEEEEecCChhhhccc----hhhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCeEEEEEeCCCCccccc
Q 042687           62 KAQIWDTAGQERYRAI----TSAY--YRGAVGALLVYDITKRQ-TFDNVTRWLRELRDHADSNIVIMMAGNKSDLNHLRA  134 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~----~~~~--~~~~d~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~  134 (217)
                      .+.++||+|.......    +..+  ..+.+-+++|.|++..+ ....+..    +.+..  + +--++++|.|...   
T Consensus        94 d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~----f~~~~--~-~~~~I~TKlDe~~---  163 (207)
T d1ls1a2          94 DLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARA----FDEKV--G-VTGLVLTKLDGDA---  163 (207)
T ss_dssp             CEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHH----HHHHT--C-CCEEEEECGGGCS---
T ss_pred             cceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHH----HHhhC--C-CCeeEEeecCccc---
Confidence            4679999994322111    1111  24567889999986643 2332222    22221  1 1247789999533   


Q ss_pred             cCHHHHHHHHHHcCCeEEEec
Q 042687          135 VAAEDAQILAEKEGLSFLETS  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~vS  155 (217)
                       ..-.+-.+....+.|+..++
T Consensus       164 -~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 -RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             -SCHHHHHHHHHHCCCEEEEC
T ss_pred             -cchHHHHHHHHHCCCEEEEe
Confidence             23355667778888987775

>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=97.68  E-value=7.8e-06  Score=56.73  Aligned_cols=22  Identities=18%  Similarity=0.484  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -+|+|.|++|||||||+++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999975

>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=97.65  E-value=1.3e-05  Score=55.03  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +..++|+|.|++||||||+.+.|..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4558999999999999999999865

>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=97.63  E-value=1.2e-05  Score=55.21  Aligned_cols=22  Identities=32%  Similarity=0.551  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|.|++||||||+.++|..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999864

>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=97.60  E-value=1.5e-05  Score=54.47  Aligned_cols=22  Identities=23%  Similarity=0.368  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+|+|.+|||||||+++|..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999975

>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=97.57  E-value=1.9e-05  Score=55.32  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+||+|+|++||||||+...|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999999998864

>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=97.50  E-value=2.8e-05  Score=54.58  Aligned_cols=25  Identities=32%  Similarity=0.644  Sum_probs=22.3

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...++|+|+|+|||||||+...|..
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999999875

>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=97.48  E-value=2.9e-05  Score=53.82  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +||+|+|+|||||||+.+.|..
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            4899999999999999998754

>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=97.47  E-value=2.9e-05  Score=52.13  Aligned_cols=20  Identities=40%  Similarity=0.557  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|.|++|||||||+++|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999999865

>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=97.44  E-value=3.6e-05  Score=53.41  Aligned_cols=22  Identities=23%  Similarity=0.626  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +||+|+|++||||||+.+.|..
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999864

>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=97.40  E-value=4.2e-05  Score=53.17  Aligned_cols=22  Identities=36%  Similarity=0.610  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|+|++||||||+...|..
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998865

>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=97.38  E-value=4.3e-05  Score=52.23  Aligned_cols=20  Identities=15%  Similarity=0.441  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |.|+|.+|||||||+++|..
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            46999999999999999875

>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=97.35  E-value=4.7e-05  Score=52.70  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +||+|+|++||||||+.+.|..
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            5899999999999999988854

>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=97.34  E-value=3.9e-05  Score=53.69  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|+|++||||||+...|..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998854

>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=97.33  E-value=5.9e-05  Score=52.33  Aligned_cols=22  Identities=32%  Similarity=0.626  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|+|++||||||+.+.|..
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            7899999999999999999865

>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=97.31  E-value=5.7e-05  Score=51.49  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|.|++||||||+.++|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999875

>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=97.31  E-value=7e-05  Score=52.48  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..|+|+|++||||||+.++|..
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            5789999999999999999865

>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=97.28  E-value=2.7e-05  Score=54.15  Aligned_cols=21  Identities=33%  Similarity=0.699  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|+||+||||+||+++|...
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            899999999999999999853

>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=97.21  E-value=7.9e-05  Score=50.23  Aligned_cols=21  Identities=38%  Similarity=0.646  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|+|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>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=97.19  E-value=8.5e-05  Score=51.12  Aligned_cols=22  Identities=27%  Similarity=0.619  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .|+|.|++|+|||||+..+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998753

>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=97.18  E-value=7.7e-05  Score=50.93  Aligned_cols=22  Identities=45%  Similarity=0.600  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .||+++|++||||||+.+.|..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988753

>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=97.15  E-value=0.00013  Score=51.07  Aligned_cols=22  Identities=23%  Similarity=0.552  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.|+|+|++||||||+...|..
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            6899999999999999998864

>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=97.15  E-value=0.00011  Score=51.98  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+++|.||||||||.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999874

>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=97.14  E-value=0.001  Score=49.24  Aligned_cols=60  Identities=18%  Similarity=0.190  Sum_probs=38.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCccc--cCC---CCCcceeeEEEEEEECCeEEEEEEEecCCh
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNEFC--LES---KSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~~~--~~~---~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   71 (217)
                      +..=|.|+|+.++|||+|+|.|.+....  ...   ..|.|.-.....+ .++....+.++||.|.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~   95 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGL   95 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCB
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEecccc
Confidence            5668999999999999999999986532  111   1233322211111 1334456779999994

>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=97.12  E-value=0.00012  Score=51.04  Aligned_cols=21  Identities=43%  Similarity=0.719  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|+|++|||||||+++|...
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            899999999999999999653

>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=97.10  E-value=0.00013  Score=52.94  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      +|+|+|++|||||||++.+.+-.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            69999999999999999887743

>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=97.09  E-value=0.00014  Score=50.16  Aligned_cols=20  Identities=25%  Similarity=0.358  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|.|++||||||++++|..
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            78889999999999998854

>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=97.08  E-value=0.00014  Score=50.47  Aligned_cols=22  Identities=36%  Similarity=0.554  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =|+|+|++|||||||++.|...
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3789999999999999998754

>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=97.07  E-value=0.00023  Score=48.98  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...-|+++|.+||||||+..++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999999864

>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=97.05  E-value=0.00015  Score=51.18  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|+|||||++.+.+-.
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

>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=97.04  E-value=0.00052  Score=46.21  Aligned_cols=26  Identities=23%  Similarity=0.348  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      +..-|++-|+-|||||||++.+...-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            34568899999999999999987643

>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=97.04  E-value=0.0002  Score=50.20  Aligned_cols=25  Identities=24%  Similarity=0.503  Sum_probs=21.2

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +...-|+|+|++||||||+...|..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999999865

>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=97.03  E-value=0.00016  Score=49.19  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+++|++||||||+.+.|..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988754

>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=97.02  E-value=0.00017  Score=49.09  Aligned_cols=22  Identities=41%  Similarity=0.546  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      --|+|+|++||||||+.++|..
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3466799999999999999865

>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=97.00  E-value=0.00019  Score=52.15  Aligned_cols=24  Identities=42%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =.++|+|+.|||||||++.+.+-.
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999887643

>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=96.98  E-value=0.0002  Score=51.65  Aligned_cols=23  Identities=39%  Similarity=0.603  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47999999999999999887643

>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=0.00019  Score=52.59  Aligned_cols=22  Identities=50%  Similarity=0.681  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++|+|++|||||||++.+.+-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            6999999999999999988764

>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=51.69  Aligned_cols=22  Identities=32%  Similarity=0.455  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|+|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            4799999999999999977664

>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=96.96  E-value=0.00021  Score=48.75  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |+|.|++||||||+.+.|...
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            778999999999999988653

>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=96.96  E-value=0.00021  Score=49.92  Aligned_cols=20  Identities=45%  Similarity=0.782  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|+|++|||||||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999865

>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=96.95  E-value=0.00022  Score=52.17  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            68999999999999999887643

>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=96.94  E-value=0.00023  Score=50.43  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -|+|+||+|||||||+++|...
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999754

>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=96.93  E-value=0.00031  Score=47.97  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=20.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+-|.|+|.+||||||+.+.|..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            347789999999999999988754

>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=96.93  E-value=0.00027  Score=49.16  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+-|+|-|++|||||||.++|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999999864

>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=96.91  E-value=0.00025  Score=51.29  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      ++++|+.|||||||++.+.+-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            6789999999999999998754

>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=96.90  E-value=0.00032  Score=51.42  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --|++.|++|+|||||..++.+.
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            45999999999999999998763

>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=96.89  E-value=0.00026  Score=48.22  Aligned_cols=20  Identities=40%  Similarity=0.589  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|.|++||||||+.+.|..
T Consensus         6 I~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56669999999999999876

>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=0.00025  Score=52.73  Aligned_cols=23  Identities=22%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .|+|+|+.|+|||||++.+.+..
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            58999999999999999988743

>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=96.88  E-value=0.00027  Score=51.10  Aligned_cols=23  Identities=39%  Similarity=0.564  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47999999999999999887754

>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=96.83  E-value=0.00028  Score=49.34  Aligned_cols=21  Identities=24%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|+|+|||||||+..+|..
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            488999999999999999865

>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=96.81  E-value=0.00038  Score=52.80  Aligned_cols=23  Identities=17%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+|+|.|+.|||||||++.|..-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            46999999999999999999863

>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=96.79  E-value=0.00034  Score=50.63  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|+.|||||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            58999999999999999887754

>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=96.79  E-value=0.0003  Score=50.96  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            47999999999999999887643

>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=96.79  E-value=0.00025  Score=51.88  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +|+|+|++|||||||++.+.+-
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHhc
Confidence            7899999999999999987653

>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=96.79  E-value=0.00034  Score=47.76  Aligned_cols=20  Identities=25%  Similarity=0.602  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+++|++||||||+.+.|..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998853

>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=96.77  E-value=0.00033  Score=50.56  Aligned_cols=25  Identities=24%  Similarity=0.484  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ....+++.|++|+||||+++.+.+.
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999988753

>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=96.77  E-value=0.014  Score=42.30  Aligned_cols=88  Identities=10%  Similarity=0.044  Sum_probs=51.9

Q ss_pred             EEEEEEecCChhhhcc-chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCe-EEEEEeCCCCccccccCH
Q 042687           61 VKAQIWDTAGQERYRA-ITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHAD-SNIV-IMMAGNKSDLNHLRAVAA  137 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p-~ivv~nK~Dl~~~~~~~~  137 (217)
                      +.+.++|+|+.-.... ........+|.++++.+. +..++..+...+..+..... .+.+ .-++.|+.+....    .
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~----~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANE----Y  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCC----H
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCCc----c
Confidence            3467999987432222 222233567888888776 46666666665555554432 2333 3478899876542    3


Q ss_pred             HHHHHHHHHcCCeEEE
Q 042687          138 EDAQILAEKEGLSFLE  153 (217)
Q Consensus       138 ~~~~~~~~~~~~~~~~  153 (217)
                      +..+.+....+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            4566677778877654

>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=96.76  E-value=0.00035  Score=50.68  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|+|||||++.+.+-.
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

>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=96.75  E-value=0.00022  Score=51.24  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            47999999999999999998754

>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=96.75  E-value=0.00026  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.658  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|+|+.|+|||||++.+.+-
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

>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=96.72  E-value=0.00039  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|+|||||++.+.+-.
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            47899999999999999988754

>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=96.72  E-value=0.0005  Score=48.02  Aligned_cols=25  Identities=36%  Similarity=0.599  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      -+++++|++|||||+++..|...-.
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~ri~   68 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHHHHH
Confidence            4789999999999999988866443

>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=96.71  E-value=0.00037  Score=50.23  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+++.||+|+||||+++.+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            4699999999999999998865

>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=96.70  E-value=0.0025  Score=45.96  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++++.|++|+||||++..+...
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            46999999999999999988764

>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=96.69  E-value=0.00042  Score=47.77  Aligned_cols=21  Identities=43%  Similarity=0.672  Sum_probs=17.4

Q ss_pred             EEE-EEcCCCCCHHHHHhHHhc
Q 042687           14 KIV-LIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~-i~G~~~~GKstLi~~l~~   34 (217)
                      ||+ |.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            554 579999999999998853

>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=96.62  E-value=0.00061  Score=48.22  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+-|+|.|+.|||||||.++|..
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            37799999999999999998854

>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=96.61  E-value=0.00052  Score=50.27  Aligned_cols=23  Identities=43%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|||||||++.+.+-.
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            58999999999999999987643

>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=96.59  E-value=0.00053  Score=50.14  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|+|+.|+|||||++.+.+-.
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            37999999999999999998753

>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=96.59  E-value=0.00062  Score=50.10  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      =+++++|++|||||++++.|...-.
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~ri~   64 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWRIV   64 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHHHH
Confidence            4789999999999999998865433

>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=96.57  E-value=0.00024  Score=49.35  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..-|.++|.+||||||+.+.|..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999854

>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=96.56  E-value=0.00082  Score=48.85  Aligned_cols=24  Identities=21%  Similarity=0.412  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +...|++.|++|+|||+|++.+..
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhh
Confidence            446799999999999999999865

>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=96.53  E-value=0.00077  Score=46.94  Aligned_cols=24  Identities=29%  Similarity=0.652  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..+-|+|-|..||||||+++.|..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999998865

>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=96.52  E-value=0.00095  Score=48.34  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...+++.|++|+||||++..+...
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999998763

>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=96.50  E-value=0.0003  Score=50.95  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      .++|+|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            58999999999999999988754

>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=96.50  E-value=0.00071  Score=48.05  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|+|-|++||||||+...|..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6789999999999999998865

>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=96.45  E-value=0.00085  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.496  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..+++.|++|+||||+++.+...
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            36899999999999999988763

>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=96.36  E-value=0.00088  Score=50.40  Aligned_cols=22  Identities=41%  Similarity=0.792  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|+++||+|||||.|.+++..
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            5689999999999999999875

>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=96.35  E-value=0.00092  Score=48.97  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -++|.|++|+|||++++.+...
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            3456799999999999998754

>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=96.31  E-value=0.0011  Score=48.15  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-.++|.|++|+|||++++.+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999988753

>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=96.25  E-value=0.0015  Score=45.19  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ++-|+|.|..||||||+.+.|...
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
Confidence            478999999999999999988653

>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=96.22  E-value=0.0011  Score=48.40  Aligned_cols=21  Identities=24%  Similarity=0.271  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|.|++|+|||||++++..
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            578999999999999998864

>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=96.21  E-value=0.0013  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|.|++||||+|+...|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            577889999999999998865

>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=96.18  E-value=0.0013  Score=47.74  Aligned_cols=21  Identities=29%  Similarity=0.638  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|++.|++|+|||+|++++..
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            599999999999999999985

>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=96.07  E-value=0.0015  Score=46.56  Aligned_cols=23  Identities=17%  Similarity=0.444  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .++++.|++|+||||+++.+...
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHH
Confidence            35899999999999999987653

>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=96.07  E-value=0.0017  Score=45.45  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998764

>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=96.05  E-value=0.0016  Score=46.50  Aligned_cols=22  Identities=23%  Similarity=0.590  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .+++.|++|+||||+++.+...
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            4899999999999999988764

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.0023  Score=47.91  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.2

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....+-|+|.|++|||||||.+.|..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            44568999999999999999988754

>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=96.02  E-value=0.0017  Score=47.40  Aligned_cols=22  Identities=32%  Similarity=0.440  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|++.|++|+|||+|++++..
T Consensus        39 ~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHH
Confidence            4699999999999999999876

>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=96.00  E-value=0.0018  Score=47.21  Aligned_cols=22  Identities=18%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.|++.|++|+|||+|++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            3599999999999999999875

>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=95.99  E-value=0.0016  Score=46.33  Aligned_cols=22  Identities=23%  Similarity=0.613  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ++++.|++|+||||++..+...
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            5899999999999999998764

>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=95.91  E-value=0.0031  Score=46.67  Aligned_cols=25  Identities=24%  Similarity=0.215  Sum_probs=21.0

Q ss_pred             CceeeEEEEEcCCCCCHHHHHhHHh
Q 042687            9 YDYLFKIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus         9 ~~~~~~i~i~G~~~~GKstLi~~l~   33 (217)
                      ....+=|+|.|.+|||||||...+.
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            3456889999999999999998764

>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=95.81  E-value=0.0034  Score=44.14  Aligned_cols=26  Identities=27%  Similarity=0.477  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           12 LFKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        12 ~~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .+-|+|.|..||||||+.+.|....+
T Consensus         3 k~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           3 RYIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHCCC
Confidence            35689999999999999998865443

>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=95.74  E-value=0.0023  Score=50.51  Aligned_cols=21  Identities=43%  Similarity=0.882  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|+++||+|||||-|.++|..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999854

>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=95.71  E-value=0.0024  Score=46.77  Aligned_cols=23  Identities=17%  Similarity=0.391  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -.|++.|++|+|||+|++++...
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHHH
Confidence            46999999999999999998753

>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=95.70  E-value=0.003  Score=44.54  Aligned_cols=24  Identities=29%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ...-|.+.|.+|||||||.+.|..
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345699999999999999999864

>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=95.62  E-value=0.084  Score=38.50  Aligned_cols=88  Identities=13%  Similarity=0.095  Sum_probs=47.4

Q ss_pred             EEEEEEecCChhhhccchhh-hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhc-CCCCeE-EEEEeCCCCccccccCH
Q 042687           61 VKAQIWDTAGQERYRAITSA-YYRGAVGALLVYDITKRQTFDNVTRWLRELRDHA-DSNIVI-MMAGNKSDLNHLRAVAA  137 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~-~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~-ivv~nK~Dl~~~~~~~~  137 (217)
                      +.+.++|+|+.......... ....+|.++++... +..++..+...+..+.... ..+.++ .+|.|+.+....    .
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~----~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDRE----D  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTH----H
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchhh----H
Confidence            34678898775322222221 22456777666544 4556666555555544332 224444 378898874331    2


Q ss_pred             HHHHHHHHHcCCeEEE
Q 042687          138 EDAQILAEKEGLSFLE  153 (217)
Q Consensus       138 ~~~~~~~~~~~~~~~~  153 (217)
                      +....+...++.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            3455667777776654

>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=95.60  E-value=0.0032  Score=44.21  Aligned_cols=20  Identities=30%  Similarity=0.421  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999998864

>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=95.53  E-value=0.003  Score=45.10  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .|+|-|+.||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

>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=95.52  E-value=0.0024  Score=49.40  Aligned_cols=22  Identities=41%  Similarity=0.702  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      =++++||++|||||+++..|..
T Consensus        44 ~n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHH
T ss_pred             CCCeEECCCCCCHHHHHHHHHH
Confidence            4679999999999999976544

>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=95.51  E-value=0.0054  Score=42.90  Aligned_cols=22  Identities=36%  Similarity=0.594  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +-|+|.|..||||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998754

>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=95.45  E-value=0.0051  Score=42.02  Aligned_cols=25  Identities=32%  Similarity=0.585  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .-|+|.|++|+|||||...|....+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4589999999999999999887654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0039  Score=43.93  Aligned_cols=20  Identities=35%  Similarity=0.424  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77779999999998887754

>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=95.38  E-value=0.0078  Score=41.83  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -+.|.|++|+|||+|+..|....
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            47899999999999999887644

>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=95.24  E-value=0.0058  Score=41.74  Aligned_cols=25  Identities=28%  Similarity=0.494  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .-|+|.|++|+|||||...|....+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            4589999999999999999987554

>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=95.19  E-value=0.005  Score=47.16  Aligned_cols=22  Identities=14%  Similarity=0.196  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      --+++.||||+|||+|.+.+.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998865

>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=95.10  E-value=0.0058  Score=44.97  Aligned_cols=23  Identities=39%  Similarity=0.504  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      .-|+|+|+.|+|||||...+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45889999999999999988653

>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=95.09  E-value=0.0027  Score=48.07  Aligned_cols=21  Identities=29%  Similarity=0.619  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +|++.|++|+|||+|++++..
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            699999999999999998854

>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=95.07  E-value=0.0057  Score=43.51  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|.|++|+|||+|+..+....
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            47899999999999999887543

>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=94.96  E-value=0.0068  Score=42.77  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      +.|.|++|+|||.|++++....
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            7899999999999999987643

>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=94.92  E-value=0.0012  Score=45.72  Aligned_cols=18  Identities=39%  Similarity=0.717  Sum_probs=16.3

Q ss_pred             EEEcCCCCCHHHHHhHHh
Q 042687           16 VLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~   33 (217)
                      +|+|+.|||||||+.++.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999985

>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=94.89  E-value=0.01  Score=44.83  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=22.8

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ...++|.|=|..||||||+++.|...
T Consensus         4 ~~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           4 VTIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             CceEEEEEECCccCCHHHHHHHHHHH
Confidence            35689999999999999999988763

>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=94.87  E-value=0.0083  Score=40.64  Aligned_cols=25  Identities=28%  Similarity=0.563  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCcc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNEF   37 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~~   37 (217)
                      .-|+|.|++|+||||+.-.|....+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4689999999999999998887654

>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=94.84  E-value=0.0033  Score=46.52  Aligned_cols=21  Identities=33%  Similarity=0.582  Sum_probs=15.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|.|.+||||||+.++|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            499999999999999998754

>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=94.79  E-value=0.0074  Score=43.20  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|.|++|+|||+|...+....
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999886543

>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=94.78  E-value=0.0077  Score=42.99  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            588899999999999999865

>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=94.67  E-value=0.011  Score=44.57  Aligned_cols=24  Identities=21%  Similarity=0.432  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ..++|.|=|..||||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            458999999999999999998864

>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=94.61  E-value=0.0057  Score=45.33  Aligned_cols=17  Identities=41%  Similarity=0.821  Sum_probs=16.0

Q ss_pred             EEEcCCCCCHHHHHhHH
Q 042687           16 VLIGDSGVGKSNILSRF   32 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l   32 (217)
                      +|+|+.||||||++.++
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            78999999999999987

>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=94.53  E-value=0.012  Score=44.00  Aligned_cols=24  Identities=21%  Similarity=0.497  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.-.++++|++|||||.|...|..
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            334689999999999999998754

>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=94.51  E-value=0.0098  Score=42.38  Aligned_cols=23  Identities=39%  Similarity=0.645  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --++|.|++|+|||+|+..+...
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            45789999999999999998765

>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=94.48  E-value=0.0092  Score=45.03  Aligned_cols=25  Identities=28%  Similarity=0.502  Sum_probs=22.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhcC
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      ..++|.|=|..||||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999998764

>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=94.44  E-value=0.0096  Score=45.58  Aligned_cols=24  Identities=29%  Similarity=0.497  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      +.-+++++||+|||||-|.++|..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            345799999999999999998853

>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=94.43  E-value=0.01  Score=46.00  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --|+|.|+.||||||.++.++..
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCccHHHHHHhhh
Confidence            35899999999999999999774

>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=94.37  E-value=0.011  Score=41.61  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      =|+|=|..||||||+++.|..
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            388999999999999998754

>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=94.31  E-value=0.013  Score=43.93  Aligned_cols=21  Identities=14%  Similarity=0.469  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHhHHhcC
Q 042687           15 IVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~   35 (217)
                      +++.|+||+|||.|.+.+.+.
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            455799999999999998763

>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=94.24  E-value=0.014  Score=40.90  Aligned_cols=21  Identities=14%  Similarity=0.458  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -+++.|++|+||||++..+..
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999998765

>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=94.17  E-value=0.013  Score=41.83  Aligned_cols=21  Identities=29%  Similarity=0.559  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+++.|++|+||||+++.+..
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            378999999999999998754

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.17  E-value=0.012  Score=41.67  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -++|.|++|+|||+|+..+....
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            57899999999999999987543

>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=94.14  E-value=0.015  Score=41.50  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      --++|.|++|+|||+|...+...
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999998764

>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=94.09  E-value=0.011  Score=41.13  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -=+++.|++++|||.|+..|+.
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHH
Confidence            3578999999999999998865

>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=93.93  E-value=0.014  Score=45.06  Aligned_cols=18  Identities=39%  Similarity=0.772  Sum_probs=16.2

Q ss_pred             EEEcCCCCCHHHHHhHHh
Q 042687           16 VLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~   33 (217)
                      +|+|+.|+|||+++.++.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999974

>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=93.62  E-value=0.018  Score=40.45  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      --++|.|++|+|||+|+..+..
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4578999999999999977654

>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=93.42  E-value=0.34  Score=33.62  Aligned_cols=76  Identities=14%  Similarity=0.112  Sum_probs=48.8

Q ss_pred             EEEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeEE-EEEeCCCCccccccCHHH
Q 042687           61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIVIM-MAGNKSDLNHLRAVAAED  139 (217)
Q Consensus        61 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~Dl~~~~~~~~~~  139 (217)
                      +.+.++|+++....  .....+..+|.++++.... ..++..+.+.+..+...   +.|++ +|.|+.+... .......
T Consensus       112 ~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~-~~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQL--DAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSD-RDIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCT-TCCCHHH
T ss_pred             CCEEEEcccccccc--cchhhhhhhhccccccccc-ceecchhhHHHHHHhhh---hhhhhhhhhccccccc-chhhhHH
Confidence            35779999875432  2344567899999998864 55666666666655543   66765 8899998654 3334434


Q ss_pred             HHHH
Q 042687          140 AQIL  143 (217)
Q Consensus       140 ~~~~  143 (217)
                      .+.+
T Consensus       185 ~~~~  188 (237)
T d1g3qa_         185 AEDV  188 (237)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            4333

>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=93.31  E-value=0.024  Score=41.23  Aligned_cols=20  Identities=30%  Similarity=0.503  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      ++|.|++|+|||+|+..+..
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            68999999999999988764

>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=93.10  E-value=0.027  Score=40.02  Aligned_cols=22  Identities=23%  Similarity=0.141  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .-|+|.|..||||||+.+.|..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998854

>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=92.80  E-value=0.022  Score=41.87  Aligned_cols=15  Identities=20%  Similarity=0.669  Sum_probs=13.0

Q ss_pred             EEEEcCCCCCHHHHH
Q 042687           15 IVLIGDSGVGKSNIL   29 (217)
Q Consensus        15 i~i~G~~~~GKstLi   29 (217)
                      ++|+|.+|+||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            689999999999754

>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=92.73  E-value=0.026  Score=43.79  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      -+++|+|.+|+|||+++..++..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHH
Confidence            46999999999999998877543

>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=92.54  E-value=0.035  Score=40.76  Aligned_cols=24  Identities=13%  Similarity=0.282  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =|++|+|++|+|||+|+..+..+.
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHHH
Confidence            389999999999999998887644

>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=92.52  E-value=0.033  Score=40.32  Aligned_cols=20  Identities=25%  Similarity=0.373  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHhHHhc
Q 042687           15 IVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+|.|++|+|||+|+-.+..
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            56999999999999987754

>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=92.36  E-value=0.029  Score=41.54  Aligned_cols=15  Identities=27%  Similarity=0.798  Sum_probs=13.2

Q ss_pred             EEEEcCCCCCHHHHH
Q 042687           15 IVLIGDSGVGKSNIL   29 (217)
Q Consensus        15 i~i~G~~~~GKstLi   29 (217)
                      ++|.|.+||||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            789999999999754

>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=91.98  E-value=0.049  Score=40.59  Aligned_cols=22  Identities=23%  Similarity=0.540  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -.++++|++|+|||.|.+.|..
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHH
Confidence            3678899999999999998754

>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=91.73  E-value=0.05  Score=39.54  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -=+.+.|++++|||+|++.+..
T Consensus       105 n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         105 NTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4578889999999999998865

>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=90.93  E-value=0.068  Score=40.57  Aligned_cols=19  Identities=26%  Similarity=0.580  Sum_probs=15.8

Q ss_pred             EEEEEcCCCCCHHHHHhHH
Q 042687           14 KIVLIGDSGVGKSNILSRF   32 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l   32 (217)
                      -.+|.|++|+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4788999999999988543

>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=90.55  E-value=0.3  Score=32.78  Aligned_cols=102  Identities=14%  Similarity=0.182  Sum_probs=57.0

Q ss_pred             ceeeEEEEEcC-CCCCHHHHHhHHhcCccccCCCCCcceeeEEEEEEECCeEEEEEEEecCChhh---------------
Q 042687           10 DYLFKIVLIGD-SGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER---------------   73 (217)
Q Consensus        10 ~~~~~i~i~G~-~~~GKstLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------------   73 (217)
                      ...+||.|+|. .++|=+ |+..|..+.....                 ...+.+.++|.+....               
T Consensus        22 k~~~kV~I~GA~G~Ig~~-l~~~La~g~v~g~-----------------~~~i~L~L~di~~~~~~l~g~~mdl~d~a~~   83 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISNH-LLFKLASGEVFGQ-----------------DQPIALKLLGSERSFQALEGVAMELEDSLYP   83 (175)
T ss_dssp             CCCEEEEEETTTSHHHHH-HHHHHHHTTTTCT-----------------TCCEEEEEECCGGGHHHHHHHHHHHHTTTCT
T ss_pred             CCCcEEEEECCCcHHHHH-HHHHHHcCcccCC-----------------CceEEEEEecCccccchhcchhhhhcccccc
Confidence            35689999996 667754 5555655442110                 1223555777665211               


Q ss_pred             ------hccchhhhhcCCcEEEEEEeCCChh------hHHH----HHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           74 ------YRAITSAYYRGAVGALLVYDITKRQ------TFDN----VTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        74 ------~~~~~~~~~~~~d~ii~v~d~~~~~------s~~~----~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                            ........+.++|++|++.......      -+..    ++.+...+..+++.+..++++.|-+|.
T Consensus        84 ~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd~  155 (175)
T d7mdha1          84 LLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCNT  155 (175)
T ss_dssp             TEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             cccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHHH
Confidence                  0111234468999999987654321      1111    234445556666656778888887763

>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=90.45  E-value=0.082  Score=38.27  Aligned_cols=23  Identities=13%  Similarity=0.263  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcCc
Q 042687           14 KIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      -+.|.|++++|||+|+-.+....
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHHHH
Confidence            46899999999999998876543

>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=89.67  E-value=0.1  Score=37.93  Aligned_cols=22  Identities=41%  Similarity=0.696  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      |++|+|.+|+|||+|+..+..+
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            7999999999999999888654

>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=89.41  E-value=0.14  Score=32.26  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=21.9

Q ss_pred             ceeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           10 DYLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        10 ~~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      .+.+-|.+-|..|+||+||.++|..
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHH
Confidence            4568999999999999999999854

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

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: Pig (Sus scrofa) [TaxId: 9823]

Probab=88.58  E-value=1.5  Score=28.09  Aligned_cols=49  Identities=14%  Similarity=0.252  Sum_probs=28.4

Q ss_pred             hhhhcCCcEEEEEEeCCC-----h-hhH----HHHHHHHHHHHhhcCCCCeEEEEEeCCC
Q 042687           79 SAYYRGAVGALLVYDITK-----R-QTF----DNVTRWLRELRDHADSNIVIMMAGNKSD  128 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~-----~-~s~----~~~~~~~~~i~~~~~~~~p~ivv~nK~D  128 (217)
                      ...++++|++|+..-...     + +-+    .-++.+...+.++.+ +..++++.|-+|
T Consensus        63 ~~~~~~aDivVitag~~~~~g~sR~~ll~~N~~i~~~i~~~i~~~~p-~~iiivvtNPvD  121 (144)
T d1mlda1          63 PDCLKGCDVVVIPAGVPRKPGMTRDDLFNTNATIVATLTAACAQHCP-DAMICIISNPVN  121 (144)
T ss_dssp             HHHHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TSEEEECSSCHH
T ss_pred             HHHhCCCCEEEECCCcCCCCCCCcchHHHHHHHHHHHHHHHHHhcCC-CeEEEEecCchh
Confidence            345688998888755422     1 111    123455555666644 566777777777

>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=88.38  E-value=0.14  Score=36.59  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -|+|.|++|+||+.+.+.+..
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            489999999999999998864

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=87.83  E-value=1.1  Score=29.66  Aligned_cols=55  Identities=16%  Similarity=0.224  Sum_probs=39.2

Q ss_pred             CChhhHHHH-HHHHHHHHhhcCCCCeEEEEEeCCCCccccccCHHHHHHHHHHcCCeEEEecC
Q 042687           95 TKRQTFDNV-TRWLRELRDHADSNIVIMMAGNKSDLNHLRAVAAEDAQILAEKEGLSFLETSA  156 (217)
Q Consensus        95 ~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~vSa  156 (217)
                      +|+.+++.. .+....+...   ..|+|+++..+....    ..+++.+++...++|++.+..
T Consensus         3 sd~~~l~~~v~~~~~~l~~A---krPvIi~G~g~~~~~----a~~~l~~lae~~~~Pv~tt~~   58 (175)
T d1zpda1           3 SDEASLNAAVDETLKFIANR---DKVAVLVGSKLRAAG----AEEAAVKFTDALGGAVATMAA   58 (175)
T ss_dssp             CCHHHHHHHHHHHHHHHTTC---SCEEEEECTTTTTTT----CHHHHHHHHHHHCCCEEEEGG
T ss_pred             CChHHHHHHHHHHHHHHHcC---CCEEEEECcCccccc----hHHHHHHHHHhhceeEEeccc
Confidence            566666665 4444444433   899999998887432    467899999999999987753

>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=87.42  E-value=0.18  Score=32.57  Aligned_cols=17  Identities=24%  Similarity=0.487  Sum_probs=13.7

Q ss_pred             EEEcCCCCCHHH-HHhHH
Q 042687           16 VLIGDSGVGKSN-ILSRF   32 (217)
Q Consensus        16 ~i~G~~~~GKst-Li~~l   32 (217)
                      +++|+-.||||| |++++
T Consensus         6 ~i~GpMfsGKTteLi~~~   23 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRL   23 (139)
T ss_dssp             EEECSTTSCHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHH
Confidence            568999999999 55554

>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=86.87  E-value=0.17  Score=34.20  Aligned_cols=22  Identities=23%  Similarity=0.364  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHhHHhcCc
Q 042687           15 IVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      |+|+|...||||.+..++....
T Consensus         2 iLVtGGarSGKS~~AE~l~~~~   23 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGDA   23 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSC
T ss_pred             EEEECCCCccHHHHHHHHHhcC
Confidence            6899999999999999987543

>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=86.73  E-value=1.1  Score=28.41  Aligned_cols=19  Identities=42%  Similarity=0.455  Sum_probs=15.1

Q ss_pred             EEEcCCCCCHHHHHhHHhc
Q 042687           16 VLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        16 ~i~G~~~~GKstLi~~l~~   34 (217)
                      +++|+-.|||||-+-+...
T Consensus         6 li~GpMfsGKTt~Li~~~~   24 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVR   24 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHH
T ss_pred             EEEecccCHHHHHHHHHHH
Confidence            5689999999998766543

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=85.51  E-value=0.24  Score=35.83  Aligned_cols=22  Identities=14%  Similarity=0.191  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHhHHhcC
Q 042687           14 KIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =+.|.|++++|||+|+..++..
T Consensus        59 itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHHH
Confidence            4678999999999999887654

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=85.30  E-value=0.18  Score=37.17  Aligned_cols=15  Identities=40%  Similarity=0.707  Sum_probs=13.7

Q ss_pred             EEEcCCCCCHHHHHh
Q 042687           16 VLIGDSGVGKSNILS   30 (217)
Q Consensus        16 ~i~G~~~~GKstLi~   30 (217)
                      +++|.+|+|||||-.
T Consensus        18 lfFGLSGTGKTTLs~   32 (313)
T d2olra1          18 VFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEECSTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            699999999999884

>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=85.27  E-value=0.27  Score=34.73  Aligned_cols=19  Identities=21%  Similarity=0.394  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHhHHh
Q 042687           15 IVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~   33 (217)
                      ++|-|+..+||||+++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            6899999999999999863

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.16  E-value=0.27  Score=35.53  Aligned_cols=21  Identities=19%  Similarity=0.276  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHhc
Q 042687           14 KIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~~   34 (217)
                      -+.|.|++++|||+|+..+..
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEecCCCcHHHHHHHHHHH
Confidence            467899999999999977764

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=85.15  E-value=3.6  Score=27.91  Aligned_cols=81  Identities=7%  Similarity=-0.066  Sum_probs=47.4

Q ss_pred             EEEEEecCChhhhccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCe-EEEEEeCCCCccccccCHHHH
Q 042687           62 KAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVTRWLRELRDHADSNIV-IMMAGNKSDLNHLRAVAAEDA  140 (217)
Q Consensus        62 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl~~~~~~~~~~~  140 (217)
                      .+.++|+|+....  .....+..+|.++++.... ..++....+.+..+...   +.+ +-+|+|+.+....    ....
T Consensus       111 D~viiD~~~~~~~--~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~~----~~~~  180 (232)
T d1hyqa_         111 DILLLDAPAGLER--SAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERL---GTKVLGVVVNRITTLGI----EMAK  180 (232)
T ss_dssp             SEEEEECCSSSSH--HHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTTTH----HHHH
T ss_pred             ceeeecccccccc--hhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhc---ccccccccccccccccc----cchh
Confidence            3678999875432  2334456799999998764 45555555544444444   344 4478899864321    1223


Q ss_pred             HHHHHHcCCeEE
Q 042687          141 QILAEKEGLSFL  152 (217)
Q Consensus       141 ~~~~~~~~~~~~  152 (217)
                      ..+....+.+++
T Consensus       181 ~~i~~~~~~~~~  192 (232)
T d1hyqa_         181 NEIEAILEAKVI  192 (232)
T ss_dssp             HHHHHHTTSCEE
T ss_pred             hhHHhhcCCeEE
Confidence            445555676655

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.13  E-value=0.19  Score=36.69  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcC
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRN   35 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~   35 (217)
                      =|++|+|.+|+|||+|+..+..+
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHh
Confidence            37899999999999998877654

>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=84.73  E-value=0.21  Score=31.70  Aligned_cols=20  Identities=25%  Similarity=0.202  Sum_probs=16.0

Q ss_pred             EEEEEcCCCCCHHHHHhHHh
Q 042687           14 KIVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        14 ~i~i~G~~~~GKstLi~~l~   33 (217)
                      ..+|.++.|+|||+++-.+.
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            34779999999999886554

>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=84.60  E-value=0.3  Score=34.25  Aligned_cols=19  Identities=26%  Similarity=0.487  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHhHHh
Q 042687           15 IVLIGDSGVGKSNILSRFT   33 (217)
Q Consensus        15 i~i~G~~~~GKstLi~~l~   33 (217)
                      ++|-|+..+||||+++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            7899999999999999764

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=84.54  E-value=0.19  Score=37.12  Aligned_cols=16  Identities=38%  Similarity=0.646  Sum_probs=14.2

Q ss_pred             EEEEcCCCCCHHHHHh
Q 042687           15 IVLIGDSGVGKSNILS   30 (217)
Q Consensus        15 i~i~G~~~~GKstLi~   30 (217)
                      -+++|.+|+|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            3899999999999874

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

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: Pig (Sus scrofa) [TaxId: 9823]

Probab=84.26  E-value=0.29  Score=32.05  Aligned_cols=23  Identities=9%  Similarity=0.249  Sum_probs=16.5

Q ss_pred             eeEEEEEcC-CCCCHHHHHhHHhcC
Q 042687           12 LFKIVLIGD-SGVGKSNILSRFTRN   35 (217)
Q Consensus        12 ~~~i~i~G~-~~~GKstLi~~l~~~   35 (217)
                      .+||.|+|. .++|.+... .|..+
T Consensus         3 p~KV~IiGA~G~VG~~la~-~l~~~   26 (154)
T d5mdha1           3 PIRVLVTGAAGQIAYSLLY-SIGNG   26 (154)
T ss_dssp             CEEEEESSTTSHHHHTTHH-HHHTT
T ss_pred             ceEEEEECCCCHHHHHHHH-HHHHH
Confidence            479999995 789887554 45443

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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 alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=83.88  E-value=0.23  Score=36.05  Aligned_cols=24  Identities=25%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHhHHhcCc
Q 042687           13 FKIVLIGDSGVGKSNILSRFTRNE   36 (217)
Q Consensus        13 ~~i~i~G~~~~GKstLi~~l~~~~   36 (217)
                      =|++|+|.+|+|||+|+..+....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh
Confidence            378999999999999997765443

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=83.75  E-value=0.24  Score=36.69  Aligned_cols=15  Identities=40%  Similarity=0.698  Sum_probs=13.8

Q ss_pred             EEEcCCCCCHHHHHh
Q 042687           16 VLIGDSGVGKSNILS   30 (217)
Q Consensus        16 ~i~G~~~~GKstLi~   30 (217)
                      +++|-+|+|||||..
T Consensus        18 lfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          18 VFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEECCTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            699999999999984

>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=83.47  E-value=0.32  Score=33.32  Aligned_cols=24  Identities=8%  Similarity=0.032  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHhHHhc
Q 042687           11 YLFKIVLIGDSGVGKSNILSRFTR   34 (217)
Q Consensus        11 ~~~~i~i~G~~~~GKstLi~~l~~   34 (217)
                      ....+++.|++|+|||++...+.+
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998875

>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=83.23  E-value=0.35  Score=34.87  Aligned_cols=39  Identities=21%  Similarity=0.158  Sum_probs=24.8

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCeE-EEEEeCCC
Q 042687           86 VGALLVYDITKRQTFDNVTRWLRELRDHADSNIVI-MMAGNKSD  128 (217)
Q Consensus        86 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~D  128 (217)
                      ..+++|-.+ ++-+.....+.+..+...   ++|+ -+|+|+.-
T Consensus       199 t~~~lVt~p-e~~~~~~~~r~~~~l~~~---gi~~~~vVvN~v~  238 (296)
T d1ihua1         199 TRLVLVARL-QKSTLQEVARTHLELAAI---GLKNQYLVINGVL  238 (296)
T ss_dssp             EEEEEEEES-CHHHHHHHHHHHHHHHHH---TCCCEEEEEEEEC
T ss_pred             ceeeEecCc-chhHHHHHHHHHHHHHhc---CCCceEEEEcCCc
Confidence            356666554 355677777777777665   5555 46778864

>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=83.15  E-value=0.35  Score=34.61  Aligned_cols=20  Identities=25%  Similarity=0.702  Sum_probs=14.8

Q ss_pred             eEEEE-EcCCCCCHHHHHhHH
Q 042687           13 FKIVL-IGDSGVGKSNILSRF   32 (217)
Q Consensus        13 ~~i~i-~G~~~~GKstLi~~l   32 (217)
                      .+|++ .|.-||||||+.-.|
T Consensus        20 ~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            45555 499999999986544

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=82.67  E-value=0.4  Score=32.70  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=16.8

Q ss_pred             EEEEEcCC-CCCHHHHHhHHh
Q 042687           14 KIVLIGDS-GVGKSNILSRFT   33 (217)
Q Consensus        14 ~i~i~G~~-~~GKstLi~~l~   33 (217)
                      |+.|.|-. ||||||+.--|.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            68899995 999999987653

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=81.83  E-value=1.3  Score=28.73  Aligned_cols=51  Identities=22%  Similarity=0.253  Sum_probs=30.4

Q ss_pred             hhhhcCCcEEEEEEeCCChh---h-------HHHHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           79 SAYYRGAVGALLVYDITKRQ---T-------FDNVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~~~---s-------~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      ...+.++|++|+.......+   .       ..-++.+...+...++.+.-++++.|-+|.
T Consensus        75 ~~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvDv  135 (154)
T d1y7ta1          75 KVAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANT  135 (154)
T ss_dssp             HHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             hhhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHHH
Confidence            45678999999987654321   1       112244555555555545667777777763

>d1t2da1 c.2.1.5 (A:1-150) Lactate dehydrogenase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=80.98  E-value=1.4  Score=28.58  Aligned_cols=50  Identities=18%  Similarity=0.209  Sum_probs=30.4

Q ss_pred             hhhhcCCcEEEEEEeCCC----------hhh-HH----HHHHHHHHHHhhcCCCCeEEEEEeCCCC
Q 042687           79 SAYYRGAVGALLVYDITK----------RQT-FD----NVTRWLRELRDHADSNIVIMMAGNKSDL  129 (217)
Q Consensus        79 ~~~~~~~d~ii~v~d~~~----------~~s-~~----~~~~~~~~i~~~~~~~~p~ivv~nK~Dl  129 (217)
                      ...+.++|++++......          +.. +.    -+..+...+.+.++ +.-++++-|-+|.
T Consensus        66 ~~~~~~advvvitag~~~~~g~~~~~~~R~~l~~~N~~iv~~i~~~i~~~~p-~aivivvtNPvD~  130 (150)
T d1t2da1          66 YDDLAGADVVIVTAGFTKAPGKSDKEWNRDDLLPLNNKIMIEIGGHIKKNCP-NAFIIVVTNPVDV  130 (150)
T ss_dssp             GGGGTTCSEEEECCSCSSCTTCCSTTCCGGGGHHHHHHHHHHHHHHHHHHCT-TSEEEECSSSHHH
T ss_pred             ccccCCCcEEEEecccccCCCCCccccchhHHHHHHHHHHHHHHHHHHhcCC-CeEEEEecCchHH
Confidence            455788999888877532          111 11    23555566666665 5566777777774