Citrus Sinensis ID: 044598

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110
Protein Sequence
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL
Secondary Structure (PSIPRED)
cccccHHHHccccEEEEEEEcccHHHHHHHHHHHHHHcccccccccEEEEEEccccccccccHHHHHHHHcccccccccEEEEEccccccccHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
HHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHccHHHcccEEEEEEEcccccccccHHHHHHHHcHHHcccccEEEEEcEccccEcHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFAnkqdlpnamnaAEITDKLGLHSLRQRHWYIQstcatsgeglYEGLDWLSNniankvgl
Flexible Loop (DISEMBL)
irplwrhyfqntqglifvvdsndrDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLsnniankvgl
Low Complexity Region (SEG)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL
Disordered region (IsUnstruct)
***LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI******
Disordered Region (DISOPRED)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL
Disordered Region (DISEMBL)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL
Disordered Region (DISPRO)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	110	2.2.26 [Sep-21-2011]
P51823	181	ADP-ribosylation factor 2	yes	no	0.972	0.591	0.990	7e-59
P36397	181	ADP-ribosylation factor 1	yes	no	0.972	0.591	0.990	8e-59
P0DH91	181	ADP-ribosylation factor 2	yes	no	0.972	0.591	0.990	1e-58
Q9LQC8	181	ADP-ribosylation factor 2	yes	no	0.972	0.591	0.990	1e-58
P51821	181	ADP-ribosylation factor 1	N/A	no	0.981	0.596	0.972	2e-58
Q06396	181	ADP-ribosylation factor 1	yes	no	0.972	0.591	0.981	2e-58
O48920	181	ADP-ribosylation factor O	N/A	no	0.972	0.591	0.981	2e-58
O23778	181	ADP-ribosylation factor 1	N/A	no	0.972	0.591	0.990	2e-58
P51822	181	ADP-ribosylation factor 1	N/A	no	0.972	0.591	0.981	4e-58
O48649	181	ADP-ribosylation factor 1	N/A	no	0.972	0.591	0.971	1e-57

>sp|P51823|ARF2_ORYSJ ADP-ribosylation factor 2 OS=Oryza sativa subsp. japonica GN=ARF PE=2 SV=2

 Score =  225 bits (573), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|P36397|ARF1_ARATH ADP-ribosylation factor 1 OS=Arabidopsis thaliana GN=ARF1 PE=1 SV=2

 Score =  224 bits (572), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; required for the sequence-specific vacuolar sorting route to the lytic vacuole, for the ER-to-Golgi transport and for the Golgi-derived transport to the plasma membrane. Involved in the recruitment of COPI and GDAP1 to membranes.

Arabidopsis thaliana (taxid: 3702)

>sp|P0DH91|ARF2B_ARATH ADP-ribosylation factor 2-B OS=Arabidopsis thaliana GN=ARF2-B PE=2 SV=1

 Score =  224 bits (572), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 106/107 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAGK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQC8|ARF2A_ARATH ADP-ribosylation factor 2-A OS=Arabidopsis thaliana GN=ARF2-A PE=2 SV=2

 Score =  224 bits (572), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 106/107 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAGK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Arabidopsis thaliana (taxid: 3702)

>sp|P51821|ARF1_CHLRE ADP-ribosylation factor 1 OS=Chlamydomonas reinhardtii GN=ARF1 PE=2 SV=2

 Score =  224 bits (570), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/108 (97%), Positives = 107/108 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN+ANK 
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNLANKT 181

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q06396|ARF1_ORYSJ ADP-ribosylation factor 1 OS=Oryza sativa subsp. japonica GN=Os01g0813400 PE=2 SV=3

 Score =  223 bits (569), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/107 (98%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O48920|ARF_VIGUN ADP-ribosylation factor OS=Vigna unguiculata GN=ARF PE=2 SV=3

 Score =  223 bits (569), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/107 (98%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGL+WLSNNIA+K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLEWLSNNIASK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Vigna unguiculata (taxid: 3917)

>sp|O23778|ARF1_CATRO ADP-ribosylation factor 1 OS=Catharanthus roseus GN=ARF1 PE=2 SV=3

 Score =  223 bits (569), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 106/107 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDK GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 134 MNAAEITDKHGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Catharanthus roseus (taxid: 4058)

>sp|P51822|ARF1_DAUCA ADP-ribosylation factor 1 OS=Daucus carota GN=ARF1 PE=2 SV=2

 Score =  223 bits (567), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 105/107 (98%), Positives = 106/107 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEI DKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct: 134 MNAAEIIDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Daucus carota (taxid: 4039)

>sp|O48649|ARF1_SALBA ADP-ribosylation factor 1 OS=Salix bakko GN=ARF1 PE=2 SV=3

 Score =  221 bits (562), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 104/107 (97%), Positives = 106/107 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRV EARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVGEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI++K
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNISSK 180

GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP-ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.

Salix bakko (taxid: 72444)

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	110
20161472	376	ADP-ribosylation factor [Oryza sativa Ja	0.972	0.284	0.981	5e-59
449434939	189	PREDICTED: ADP-ribosylation factor 2-lik	1.0	0.582	0.990	2e-58
296089819	591	unnamed protein product [Vitis vinifera]	0.972	0.181	1.0	3e-58
297841175	189	ADP-ribosylation factor [Arabidopsis lyr	0.981	0.571	1.0	3e-58
297817572	189	ADP-ribosylation factor [Arabidopsis lyr	0.981	0.571	1.0	4e-58
357485863	454	ADP-ribosylation factor [Medicago trunca	0.972	0.235	1.0	4e-58
168024352	190	predicted protein [Physcomitrella patens	0.990	0.573	0.981	4e-58
297736783	211	unnamed protein product [Vitis vinifera]	0.972	0.507	1.0	5e-58
357511441	206	ADP-ribosylation factor-like protein [Me	0.981	0.524	0.990	5e-58
6573751	186	F20B24.7 [Arabidopsis thaliana]	1.0	0.591	0.981	7e-58

>gi|20161472|dbj|BAB90396.1| ADP-ribosylation factor [Oryza sativa Japonica Group]

 Score =  231 bits (588), Expect = 5e-59,   Method: Composition-based stats.
 Identities = 105/107 (98%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 252 IRPLWRHYFQNTQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 311

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct: 312 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 358

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434939|ref|XP_004135253.1| PREDICTED: ADP-ribosylation factor 2-like isoform 1 [Cucumis sativus] gi|449517565|ref|XP_004165816.1| PREDICTED: ADP-ribosylation factor 2-like isoform 1 [Cucumis sativus]

 Score =  229 bits (584), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 109/110 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL 110
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV L
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVPL 183

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089819|emb|CBI39638.3| unnamed protein product [Vitis vinifera]

 Score =  228 bits (582), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 107/107 (100%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 484 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 543

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 544 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 590

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297841175|ref|XP_002888469.1| ADP-ribosylation factor [Arabidopsis lyrata subsp. lyrata] gi|297334310|gb|EFH64728.1| ADP-ribosylation factor [Arabidopsis lyrata subsp. lyrata]

 Score =  228 bits (581), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 108/108 (100%), Positives = 108/108 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 181

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817572|ref|XP_002876669.1| ADP-ribosylation factor [Arabidopsis lyrata subsp. lyrata] gi|297322507|gb|EFH52928.1| ADP-ribosylation factor [Arabidopsis lyrata subsp. lyrata]

 Score =  228 bits (581), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 108/108 (100%), Positives = 108/108 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 181

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357485863|ref|XP_003613219.1| ADP-ribosylation factor [Medicago truncatula] gi|355514554|gb|AES96177.1| ADP-ribosylation factor [Medicago truncatula]

 Score =  228 bits (581), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 107/107 (100%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168024352|ref|XP_001764700.1| predicted protein [Physcomitrella patens subsp. patens] gi|162683994|gb|EDQ70399.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  228 bits (580), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 107/109 (98%), Positives = 109/109 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVG 109
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLS+NIANK+G
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSSNIANKIG 182

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736783|emb|CBI25984.3| unnamed protein product [Vitis vinifera]

 Score =  228 bits (580), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 107/107 (100%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 104 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 163

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 164 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 210

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357511441|ref|XP_003626009.1| ADP-ribosylation factor-like protein [Medicago truncatula] gi|355501024|gb|AES82227.1| ADP-ribosylation factor-like protein [Medicago truncatula]

 Score =  227 bits (579), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 107/108 (99%), Positives = 108/108 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+KV
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASKV 181

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6573751|gb|AAF17671.1|AC009398_20 F20B24.7 [Arabidopsis thaliana]

 Score =  227 bits (578), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 108/110 (98%), Positives = 109/110 (99%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL 110
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+KV L
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASKVRL 183

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	110
TAIR|locus:2098063	181	ARFA1E "ADP-ribosylation facto	0.972	0.591	1.0	6.1e-55
TAIR|locus:2222677	188	ARFA1B "ADP-ribosylation facto	0.981	0.574	0.990	9.9e-55
UNIPROTKB|P51823	181	ARF "ADP-ribosylation factor 2	0.972	0.591	0.990	1.6e-54
TAIR|locus:2019948	181	ARFA1F "ADP-ribosylation facto	0.972	0.591	0.990	2.1e-54
TAIR|locus:2065114	181	ARF1A1C [Arabidopsis thaliana	0.972	0.591	0.990	2.1e-54
TAIR|locus:2028926	181	ARF1 "ADP-ribosylation factor	0.972	0.591	0.990	2.6e-54
TAIR|locus:2026780	181	ARFA1D [Arabidopsis thaliana (	0.972	0.591	0.990	2.6e-54
UNIPROTKB|P84081	181	ARF2 "ADP-ribosylation factor	0.972	0.591	0.878	7.7e-48
UNIPROTKB|Q5E9I6	181	ARF3 "ADP-ribosylation factor	0.972	0.591	0.878	7.7e-48
UNIPROTKB|E2RSF6	181	WNT10B "Uncharacterized protei	0.972	0.591	0.878	7.7e-48

TAIR|locus:2098063 ARFA1E "ADP-ribosylation factor A1E" [Arabidopsis thaliana (taxid:3702)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 107/107 (100%), Positives = 107/107 (100%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

GO:0006886 "intracellular protein transport" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0005773 "vacuole" evidence=IDA

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2222677 ARFA1B "ADP-ribosylation factor A1B" [Arabidopsis thaliana (taxid:3702)]

 Score = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 107/108 (99%), Positives = 107/108 (99%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA KV
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIATKV 181

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0005829 "cytosol" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

UNIPROTKB|P51823 ARF "ADP-ribosylation factor 2" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 563 (203.2 bits), Expect = 1.6e-54, P = 1.6e-54
 Identities = 106/107 (99%), Positives = 107/107 (100%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDR+RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

GO:0006471 "protein ADP-ribosylation" evidence=IEP;ISS

GO:0006886 "intracellular protein transport" evidence=IEP;ISS

GO:0016192 "vesicle-mediated transport" evidence=IEP;ISS

TAIR|locus:2019948 ARFA1F "ADP-ribosylation factor A1F" [Arabidopsis thaliana (taxid:3702)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 106/107 (99%), Positives = 107/107 (100%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 180

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0005507 "copper ion binding" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0046686 "response to cadmium ion" evidence=RCA

TAIR|locus:2065114 ARF1A1C [Arabidopsis thaliana (taxid:3702)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 106/107 (99%), Positives = 107/107 (100%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 180

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

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

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0005829 "cytosol" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2028926 ARF1 "ADP-ribosylation factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 106/107 (99%), Positives = 106/107 (99%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA K
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAGK 180

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=RCA

GO:0006007 "glucose catabolic process" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2026780 ARFA1D [Arabidopsis thaliana (taxid:3702)]

 Score = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 106/107 (99%), Positives = 106/107 (99%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA K
Sbjct:   134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAGK 180

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM;IDA

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

GO:0005773 "vacuole" evidence=IDA

GO:0016004 "phospholipase activator activity" evidence=TAS

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

UNIPROTKB|P84081 ARF2 "ADP-ribosylation factor 2" [Bos taurus (taxid:9913)]

 Score = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 94/107 (87%), Positives = 101/107 (94%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVF NKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELTRMLAEDELRDAVLLVFVNKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLRQR+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct:   134 MNAAEITDKLGLHSLRQRNWYIQATCATSGDGLYEGLDWLSNQLKNQ 180

GO:0005794 "Golgi apparatus" evidence=ISS

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|Q5E9I6 ARF3 "ADP-ribosylation factor 3" [Bos taurus (taxid:9913)]

 Score = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 94/107 (87%), Positives = 101/107 (94%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWL+N + NK
Sbjct:   134 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLANQLKNK 180

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|E2RSF6 WNT10B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 94/107 (87%), Positives = 101/107 (94%)

Query:     1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
             IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct:    74 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 133

Query:    61 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWL+N + NK
Sbjct:   134 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLANQLKNK 180

GO:0005794 "Golgi apparatus" 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)
O48920	ARF_VIGUN	No assigned EC number	0.9813	0.9727	0.5911	N/A	no
O00909	ARF1_DICDI	No assigned EC number	0.8301	0.9636	0.5824	yes	no
P36397	ARF1_ARATH	No assigned EC number	0.9906	0.9727	0.5911	yes	no
P84082	ARF2_RAT	No assigned EC number	0.8785	0.9727	0.5911	yes	no
P84080	ARF1_BOVIN	No assigned EC number	0.8785	0.9727	0.5911	yes	no
P84081	ARF2_BOVIN	No assigned EC number	0.8785	0.9727	0.5911	yes	no
Q5R5P7	ARF3_PONAB	No assigned EC number	0.8785	0.9727	0.5911	yes	no
Q10943	ARF12_CAEEL	No assigned EC number	0.8598	0.9727	0.5911	yes	no
P0DH91	ARF2B_ARATH	No assigned EC number	0.9906	0.9727	0.5911	yes	no
P51823	ARF2_ORYSJ	No assigned EC number	0.9906	0.9727	0.5911	yes	no
P51821	ARF1_CHLRE	No assigned EC number	0.9722	0.9818	0.5966	N/A	no
P51824	ARF1_SOLTU	No assigned EC number	0.9345	0.9727	0.5431	N/A	no
P84077	ARF1_HUMAN	No assigned EC number	0.8785	0.9727	0.5911	yes	no
P36579	ARF1_SCHPO	No assigned EC number	0.8411	0.9727	0.5944	yes	no
P61209	ARF1_DROME	No assigned EC number	0.8679	0.9636	0.5824	yes	no
P84079	ARF1_RAT	No assigned EC number	0.8785	0.9727	0.5911	yes	no
P84078	ARF1_MOUSE	No assigned EC number	0.8785	0.9727	0.5911	yes	no
P19146	ARF2_YEAST	No assigned EC number	0.7570	0.9727	0.5911	yes	no
Q06396	ARF1_ORYSJ	No assigned EC number	0.9813	0.9727	0.5911	yes	no
P61204	ARF3_HUMAN	No assigned EC number	0.8785	0.9727	0.5911	yes	no
O48649	ARF1_SALBA	No assigned EC number	0.9719	0.9727	0.5911	N/A	no
Q8BSL7	ARF2_MOUSE	No assigned EC number	0.8785	0.9727	0.5911	yes	no
Q9LQC8	ARF2A_ARATH	No assigned EC number	0.9906	0.9727	0.5911	yes	no
P49076	ARF_MAIZE	No assigned EC number	0.9626	0.9727	0.5911	N/A	no
P0CM16	ARF_CRYNJ	No assigned EC number	0.8411	0.9727	0.5879	yes	no
P51822	ARF1_DAUCA	No assigned EC number	0.9813	0.9727	0.5911	N/A	no
Q75A26	ARF_ASHGO	No assigned EC number	0.7943	0.9727	0.5911	yes	no
O23778	ARF1_CATRO	No assigned EC number	0.9906	0.9727	0.5911	N/A	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

Fail to connect to STRING server

---

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	110
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	1e-79
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	4e-77
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	1e-70
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	2e-70
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	1e-64
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	6e-61
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	4e-59
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	7e-53
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	6e-48
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	2e-41
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	3e-40
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	1e-39
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	2e-37
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	2e-33
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	9e-32
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-25
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	2e-23
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	3e-21
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	6e-21
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	4e-19
smart00178	184	smart00178, SAR, Sar1p-like members of the Ras-fam	7e-15
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	5e-12
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	2e-11
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	2e-09
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	1e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	4e-04
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	0.002
cd01898	170	cd01898, Obg, Obg GTPase	0.002
pfam09439	181	pfam09439, SRPRB, Signal recognition particle rece	0.003

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

 Score =  231 bits (589), Expect = 1e-79
 Identities = 107/107 (100%), Positives = 107/107 (100%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK
Sbjct: 134 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 180

Length = 181

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

 Score =  223 bits (571), Expect = 4e-77
 Identities = 92/103 (89%), Positives = 100/103 (97%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+R+ EAR+EL RMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA 116

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M+AAE+TDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSNN
Sbjct: 117 MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSNN 159

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

 Score =  208 bits (531), Expect = 1e-70
 Identities = 81/107 (75%), Positives = 95/107 (88%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RPLWRHY+QNT GLIFVVDSNDR+R+ +AR+EL RML+EDELRDAVLLVFANKQDLPNA
Sbjct: 74  LRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M+  E+T+KLGLHS+RQR+WYIQ  CAT+ +GLYEGLDWLS NI   
Sbjct: 134 MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKS 180

Length = 182

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

 Score =  207 bits (528), Expect = 2e-70
 Identities = 89/106 (83%), Positives = 99/106 (93%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+ NTQGLIFVVDSNDRDR+ EAR+ELHRMLNEDELRDAV+LVFANKQDLP+A
Sbjct: 70  IRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA 129

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN 106
           M AAEIT+KLGLHS+R R+WYIQ TCATSG+GLYEGL WLSNN+ N
Sbjct: 130 MKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNLKN 175

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|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score =  192 bits (491), Expect = 1e-64
 Identities = 68/104 (65%), Positives = 81/104 (77%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RPLWR+YF NT  +IFVVDS DRDR+ EA++ELH +LNE+EL DA LL+ ANKQDLP A
Sbjct: 71  LRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPGA 130

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           M+ AEI + LGLH L+ R W IQ   A +GEGL EGLDWLSN I
Sbjct: 131 MSEAEIRELLGLHELKDRPWEIQGCSAVTGEGLDEGLDWLSNYI 174

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

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

 Score =  183 bits (466), Expect = 6e-61
 Identities = 60/103 (58%), Positives = 82/103 (79%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLW+HY++NT GLIFVVDS+DR+R+ EA++ELH++LNE+EL+ A LL+ ANKQDLP A
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           +  +E+ + LGL S++ R W+IQ   A +G+GL EGLDWL   
Sbjct: 116 LTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWLIEQ 158

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|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score =  178 bits (454), Expect = 4e-59
 Identities = 73/103 (70%), Positives = 88/103 (85%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVDS DRDR+ EAR ELHR++N+ E+RDA+LLVFANKQDLP+A
Sbjct: 66  IRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA 125

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WLS+N
Sbjct: 126 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSSN 168

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

 Score =  162 bits (412), Expect = 7e-53
 Identities = 62/102 (60%), Positives = 77/102 (75%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ NT  +I+VVDS DRDR+  ++ ELH ML E+EL+DAVLLVFANKQD+P A
Sbjct: 56  IRPYWRCYYSNTDAIIYVVDSTDRDRLGISKSELHAMLEEEELKDAVLLVFANKQDMPGA 115

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSN 102
           ++ AE+ +KLGL  L+ R W I  T AT GEGL EG+DWL N
Sbjct: 116 LSEAEVAEKLGLSELKDRTWQIFKTSATKGEGLDEGMDWLVN 157

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

 Score =  150 bits (381), Expect = 6e-48
 Identities = 53/103 (51%), Positives = 73/103 (70%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT  +I V+DS DR+R+   ++EL++ML  ++LR AVLLV ANKQDL  A
Sbjct: 72  LRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA 131

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M  AEI++ LGL S+R   W+IQ  CA +GEGL EGLDW+++ 
Sbjct: 132 MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIASR 174

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

 Score =  134 bits (338), Expect = 2e-41
 Identities = 53/103 (51%), Positives = 70/103 (67%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR+YF+NT  LI+V+DS DR R  EA  EL  +L E++L    +LVFANKQDL  A
Sbjct: 72  IRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLTA 131

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
             A E+ + L LH +R R W+IQ+  A +GEGL EG++W+  N
Sbjct: 132 APAEEVAEALNLHDIRDRSWHIQACSAKTGEGLQEGMNWVCKN 174

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

 Score =  130 bits (330), Expect = 3e-40
 Identities = 48/103 (46%), Positives = 71/103 (68%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T  LI+VVDS+DR R+ + + EL ++L E+ L  A LL+FANKQDLP A
Sbjct: 71  LRSYWRNYFESTDALIWVVDSSDRARLEDCKRELQKLLVEERLAGATLLIFANKQDLPGA 130

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           ++  EI + L L S++  HW I    A +GE L +G+DWL ++
Sbjct: 131 LSPEEIREVLELDSIKSHHWRIFGCSAVTGENLLDGIDWLVDD 173

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

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

 Score =  129 bits (325), Expect = 1e-39
 Identities = 61/105 (58%), Positives = 78/105 (74%), Gaps = 1/105 (0%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RPLW+HY+ NTQ ++FV+DS+ RDRV EA  EL ++L E ELRDA+LL+FANKQD+  A
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA 115

Query: 61  MNAAEITDKLGLHSL-RQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           ++  E+T+ L LH L   R WYIQ   A SG GLYEGLDWLS  +
Sbjct: 116 LSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQL 160

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

 Score =  123 bits (311), Expect = 2e-37
 Identities = 49/103 (47%), Positives = 73/103 (70%), Gaps = 2/103 (1%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL--RDAVLLVFANKQDLPN 59
           R LW HY++N QG+IFV+DS+DR R+V A+DEL  +LN  ++  R   +L +ANK DLP+
Sbjct: 59  RGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDIKHRRIPILFYANKMDLPD 118

Query: 60  AMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSN 102
           A+ A +IT  L L +++ + W+I ++ A +GEGL EG+DWL  
Sbjct: 119 ALTAVKITQLLCLENIKDKPWHIFASSALTGEGLDEGVDWLQA 161

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

 Score =  112 bits (283), Expect = 2e-33
 Identities = 40/98 (40%), Positives = 61/98 (62%), Gaps = 1/98 (1%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R +W+ Y +NT GL++VVDS+D  R+ E++ EL  +L  + ++   +++ ANKQDLP A
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA 116

Query: 61  MNAAEITDKLGLHSL-RQRHWYIQSTCATSGEGLYEGL 97
           + A EIT +  L      R WY+Q   A +GEGL E  
Sbjct: 117 LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF 154

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

 Score =  109 bits (274), Expect = 9e-32
 Identities = 49/105 (46%), Positives = 67/105 (63%), Gaps = 1/105 (0%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RPLW+ Y + T G++FVVDS D +R+ EA+ ELH++    E +   +LV ANKQDLPNA
Sbjct: 65  LRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQDLPNA 124

Query: 61  MNAAEITDKLGLHSL-RQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +  +E+   L LH L     W++Q  CA  GEGL EGL+ L   I
Sbjct: 125 LPVSEVEKLLALHELSSSTPWHVQPACAIIGEGLQEGLEKLYEMI 169

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

 Score = 93.2 bits (232), Expect = 2e-25
 Identities = 39/103 (37%), Positives = 63/103 (61%), Gaps = 2/103 (1%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R LW  Y+  + G+I+V+DS DR+R  E++    +++N + L    LLV ANKQDLP+A
Sbjct: 64  LRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDLPDA 123

Query: 61  MNAAEITD--KLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLS 101
           ++ AEI +     +  + +R   +Q   A  GEG+ EG++WL 
Sbjct: 124 LSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVEEGIEWLV 166

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|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 87.9 bits (218), Expect = 2e-23
 Identities = 40/90 (44%), Positives = 52/90 (57%), Gaps = 3/90 (3%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W+ Y   +QGLIFVVDS D +R+  AR ELH++L      D  L+V ANKQDLP A
Sbjct: 57  LRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPP--DLPLVVLANKQDLPAA 114

Query: 61  MNAAEITDKLGLHSL-RQRHWYIQSTCATS 89
            +  EI  +L L  + R R W +Q T    
Sbjct: 115 RSVQEIHKELELEPIARGRRWILQGTSLDD 144

Arl9/Arfrp2-like subfamily. 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. Length = 164

>gnl|CDD|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13

 Score = 82.1 bits (203), Expect = 3e-21
 Identities = 39/109 (35%), Positives = 56/109 (51%), Gaps = 9/109 (8%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +W +Y+    GL+FVVDS+D DRV E ++ L  +L    +    +LV ANKQD  NA
Sbjct: 56  FRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNA 115

Query: 61  MNAAEITDKLGLHSLRQR---HWYIQSTCATSGEG------LYEGLDWL 100
           +  A++ + L L  L        +I+   A  G G      + EGL WL
Sbjct: 116 LLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWL 164

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. Length = 167

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

 Score = 81.2 bits (201), Expect = 6e-21
 Identities = 33/102 (32%), Positives = 55/102 (53%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W  Y +    +++VVD+ DR+++  A++ELH +L +  L    LLV  NK DLP A+
Sbjct: 58  RSMWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDLPGAL 117

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           +  E+ +++ L S+  R     S  A     +   LDWL  +
Sbjct: 118 SVDELIEQMNLKSITDREVSCYSISAKEKTNIDIVLDWLIKH 159

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

 Score = 77.3 bits (191), Expect = 4e-19
 Identities = 34/115 (29%), Positives = 58/115 (50%), Gaps = 12/115 (10%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W+ YF    G++F+VD+ D +R  E+++EL  +LN++EL +  +L+  NK D P A+
Sbjct: 77  RRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDKPGAV 136

Query: 62  NAAEITDKLGLH------------SLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +  E+ + LGL+                R   +        +G  EG  WLS  +
Sbjct: 137 SEEELREALGLYGTTTGKGGVSLKVSNIRPVEVFMCSVVKRQGYGEGFRWLSQYL 191

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

>gnl|CDD|197556 smart00178, SAR, Sar1p-like members of the Ras-family of small GTPases

 Score = 66.1 bits (161), Expect = 7e-15
 Identities = 36/112 (32%), Positives = 56/112 (50%), Gaps = 11/112 (9%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R LW+ YF    G++++VD+ D++R  E++ EL  +L+++EL     L+  NK D P A 
Sbjct: 75  RRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAA 134

Query: 62  NAAEITDKLGLHSL---------RQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +  E+   LGL +          R    ++ S     G G  EG  WLS  I
Sbjct: 135 SEDELRYALGLTNTTTGKGKVGVRPVEVFMCSVVRRMGYG--EGFKWLSQYI 184

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus. Length = 184

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

 Score = 59.2 bits (143), Expect = 5e-12
 Identities = 19/66 (28%), Positives = 31/66 (46%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R L   Y++   G++ V DS  R+   E  +E    L E    D  +L+  NK DL + 
Sbjct: 67  YRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDE 126

Query: 61  MNAAEI 66
            +++E 
Sbjct: 127 QSSSEE 132

Length = 219

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

 Score = 57.1 bits (138), Expect = 2e-11
 Identities = 28/98 (28%), Positives = 44/98 (44%), Gaps = 9/98 (9%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNA 63
           W    +   G I +VDS+ R     A      +++    R+ + ++V  NKQDL +A+  
Sbjct: 85  WEILSRGAVGAIVLVDSS-RPITFHAE----EIIDFLTSRNPIPVVVAINKQDLFDALPP 139

Query: 64  AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLS 101
            +I + L L  L      +    AT GEG  + LD L 
Sbjct: 140 EKIREALKLELL---SVPVIEIDATEGEGARDQLDVLL 174

Length = 187

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 5/95 (5%)

Query: 6   RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE 65
           R   +    ++ VVDS DR+   +A+  + R L ++ +    +++  NK DL       E
Sbjct: 70  RLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIP---IILVGNKIDLLEEREVEE 126

Query: 66  ITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           +         +     +    A +GEG+ E  + L
Sbjct: 127 L--LRLEELAKILGVPVFEVSAKTGEGVDELFEKL 159

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|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 41.5 bits (98), Expect = 1e-05
 Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 7/72 (9%)

Query: 4   LWRHYFQNTQGLIFVVDSNDRDRVVEARDE---LHRMLNEDELRDAV--LLVFANKQDLP 58
           L  +   + + ++FVVDS    +    RD    L+ +L + E       +L+  NKQDL 
Sbjct: 64  LLEYLKASLKAIVFVVDSATFQK--NIRDVAEFLYDILTDLEKIKNKIPILIACNKQDLF 121

Query: 59  NAMNAAEITDKL 70
            A  A +I + L
Sbjct: 122 TAKPAKKIKELL 133

Signal recognition particle receptor, beta subunit (SR-beta). 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 type of cancer. Length = 202

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 1/60 (1%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-DAVLLVFANKQDLPNA 60
             + R Y++  +  + V D       VE   E               +++  NK DL +A
Sbjct: 65  DAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRDA 124

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

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 31/107 (28%), Positives = 45/107 (42%), Gaps = 12/107 (11%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL----RDAVLLVFANKQDL 57
           R L   Y++  QG+I V D   RD      D L   LNE +      DAV ++  NK D 
Sbjct: 63  RTLTSSYYRGAQGVILVYDVTRRDTF----DNLDTWLNELDTYSTNPDAVKMLVGNKIDK 118

Query: 58  PNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
            N     E+T + G    R+ +     T A +  G+ +  + L   I
Sbjct: 119 EN----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|206685 cd01898, Obg, Obg GTPase

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 10/105 (9%)

Query: 6   RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLN--EDELRDAVLLVFANKQDLPNAMNA 63
           RH  + T+ L+ V+D +  D  VE  + +   L      L +   +V  NK DL +A   
Sbjct: 74  RH-IERTRVLLHVIDLSGEDDPVEDYETIRNELEAYNPGLAEKPRIVVLNKIDLLDAEER 132

Query: 64  AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
            E   +L L  L+ +  +  S  A +GEGL E    L   +A  +
Sbjct: 133 FEKLKEL-LKELKGKKVFPIS--ALTGEGLDE----LLKKLAKLL 170

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. Length = 170

>gnl|CDD|204242 pfam09439, SRPRB, Signal recognition particle receptor beta subunit

 Score = 35.1 bits (81), Expect = 0.003
 Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 3/66 (4%)

Query: 8   YFQNTQGLIFVVDSN-DRDRVVEARDELHRMLNEDEL-RDAV-LLVFANKQDLPNAMNAA 64
              + +G++FVVDS      V +  + L+ +L+  EL ++ + +L+  NKQ+   A    
Sbjct: 72  DSSSLRGIVFVVDSTAFPKEVTDTAEFLYEILSITELLKNGIDILIACNKQESFTARPPK 131

Query: 65  EITDKL 70
           +I   L
Sbjct: 132 KIKQAL 137

The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase which anchors the alpha subunit to the endoplasmic reticulum membrane. Length = 181

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	110
PLN00223	181	ADP-ribosylation factor; Provisional	99.91
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.91
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.9
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.9
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.89
PTZ00133	182	ADP-ribosylation factor; Provisional	99.89
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.89
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.89
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.88
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.88
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.87
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.87
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.87
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.86
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.85
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.85
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.85
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.85
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.85
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.85
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.84
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.83
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.83
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.83
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.83
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.82
PTZ00099	176	rab6; Provisional	99.82
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.82
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.81
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.81
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.8
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.8
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.8
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.8
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.79
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.79
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.79
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.79
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.79
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.79
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.78
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.78
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.78
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.78
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.78
PTZ00369	189	Ras-like protein; Provisional	99.77
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.77
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.77
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.77
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.77
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.77
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.76
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.76
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.75
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.75
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.75
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.75
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.75
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.75
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.75
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.75
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.75
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.75
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.74
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.74
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.74
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.74
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.73
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.73
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.73
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.73
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.73
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.73
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.72
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.72
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.72
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.72
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.72
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.71
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.71
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.71
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.71
PLN03108	210	Rab family protein; Provisional	99.71
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.71
PLN03110	216	Rab GTPase; Provisional	99.71
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.71
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.7
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.7
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.7
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.7
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.7
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.7
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.7
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.7
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.69
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.69
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.69
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.69
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.69
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.69
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.68
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.68
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.68
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.68
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.68
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.68
KOG0394	210	consensus Ras-related GTPase [General function pre	99.67
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.67
PLN03118	211	Rab family protein; Provisional	99.67
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.67
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.67
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.66
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.66
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.66
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.66
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.65
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.64
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.64
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.63
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.63
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.61
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.61
KOG0395	196	consensus Ras-related GTPase [General function pre	99.6
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.6
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.59
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.59
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.59
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.56
PRK12299	335	obgE GTPase CgtA; Reviewed	99.56
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.55
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.54
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.54
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.52
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.5
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.49
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.44
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.44
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.42
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.42
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.42
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.42
COG2229	187	Predicted GTPase [General function prediction only	99.42
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.41
PRK03003	472	GTP-binding protein Der; Reviewed	99.4
cd00881	189	GTP_translation_factor GTP translation factor fami	99.39
PRK03003	472	GTP-binding protein Der; Reviewed	99.39
PRK12297	424	obgE GTPase CgtA; Reviewed	99.39
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.38
PRK04213	201	GTP-binding protein; Provisional	99.38
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.38
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.37
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.37
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.37
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.37
PRK12296	500	obgE GTPase CgtA; Reviewed	99.37
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.36
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.36
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.36
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.35
PRK15494	339	era GTPase Era; Provisional	99.34
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.31
PRK11058	426	GTPase HflX; Provisional	99.3
PRK05433	600	GTP-binding protein LepA; Provisional	99.3
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.3
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.29
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.28
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.28
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.28
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.26
PRK12298	390	obgE GTPase CgtA; Reviewed	99.25
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.25
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.25
PRK00093	435	GTP-binding protein Der; Reviewed	99.24
PRK12289	352	GTPase RsgA; Reviewed	99.24
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.23
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.23
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.22
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.21
PRK00089	292	era GTPase Era; Reviewed	99.21
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.21
PLN00023	334	GTP-binding protein; Provisional	99.2
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.19
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.19
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.19
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.19
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.18
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.18
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.18
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.17
COG1160	444	Predicted GTPases [General function prediction onl	99.17
COG1100	219	GTPase SAR1 and related small G proteins [General	99.16
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.16
PRK00093	435	GTP-binding protein Der; Reviewed	99.15
CHL00189	742	infB translation initiation factor 2; Provisional	99.14
PRK00098	298	GTPase RsgA; Reviewed	99.14
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.13
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.12
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.11
PRK05306	787	infB translation initiation factor IF-2; Validated	99.1
COG2262	411	HflX GTPases [General function prediction only]	99.1
COG1159	298	Era GTPase [General function prediction only]	99.09
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.09
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.09
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.09
PRK13768	253	GTPase; Provisional	99.08
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.07
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.07
PRK12288	347	GTPase RsgA; Reviewed	99.06
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	99.05
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.05
COG1160	444	Predicted GTPases [General function prediction onl	99.04
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.04
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.04
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.03
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.02
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.01
PRK09866	741	hypothetical protein; Provisional	98.99
PRK10218	607	GTP-binding protein; Provisional	98.98
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.98
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.97
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.97
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.95
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.92
COG0486	454	ThdF Predicted GTPase [General function prediction	98.92
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.91
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.91
PRK04004	586	translation initiation factor IF-2; Validated	98.89
COG0536	369	Obg Predicted GTPase [General function prediction	98.88
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.87
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.87
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.86
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.85
PRK14845	1049	translation initiation factor IF-2; Provisional	98.85
PRK12317	425	elongation factor 1-alpha; Reviewed	98.85
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.84
KOG0090	238	consensus Signal recognition particle receptor, be	98.84
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.83
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.83
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.82
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	98.81
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.78
PRK13796	365	GTPase YqeH; Provisional	98.75
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.73
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.69
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.68
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.65
PRK01889	356	GTPase RsgA; Reviewed	98.62
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.61
KOG1145	683	consensus Mitochondrial translation initiation fac	98.59
PRK13351	687	elongation factor G; Reviewed	98.58
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.55
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.53
COG0218	200	Predicted GTPase [General function prediction only	98.51
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.51
PRK12740	668	elongation factor G; Reviewed	98.49
PRK12736	394	elongation factor Tu; Reviewed	98.49
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.49
KOG1673	205	consensus Ras GTPases [General function prediction	98.46
PLN00043	447	elongation factor 1-alpha; Provisional	98.43
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.42
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.41
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.36
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	98.35
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.34
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	98.32
CHL00071	409	tufA elongation factor Tu	98.32
PRK12735	396	elongation factor Tu; Reviewed	98.31
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.31
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.31
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.28
PRK00049	396	elongation factor Tu; Reviewed	98.28
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.27
PTZ00141	446	elongation factor 1- alpha; Provisional	98.27
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.26
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	98.24
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.23
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.22
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.19
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.17
COG1162	301	Predicted GTPases [General function prediction onl	98.16
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.16
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.12
PRK12739	691	elongation factor G; Reviewed	98.11
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.11
PLN03127	447	Elongation factor Tu; Provisional	98.09
COG1163	365	DRG Predicted GTPase [General function prediction	98.04
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.0
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.0
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.99
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.95
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.95
PLN03126	478	Elongation factor Tu; Provisional	97.88
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.87
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	97.86
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	97.85
PRK00007	693	elongation factor G; Reviewed	97.84
COG1084	346	Predicted GTPase [General function prediction only	97.81
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	97.8
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.76
COG3276	447	SelB Selenocysteine-specific translation elongatio	97.75
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.75
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.74
COG1161	322	Predicted GTPases [General function prediction onl	97.74
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.63
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.62
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.61
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.55
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.44
KOG2484	435	consensus GTPase [General function prediction only	97.34
KOG0461	522	consensus Selenocysteine-specific elongation facto	97.27
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	97.25
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.25
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	97.2
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.19
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	97.16
KOG0410	410	consensus Predicted GTP binding protein [General f	97.05
KOG0099	379	consensus G protein subunit Galphas, small G prote	96.84
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	96.83
COG0050	394	TufB GTPases - translation elongation factors [Tra	96.75
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	96.69
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	96.58
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	96.53
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.52
KOG0466	466	consensus Translation initiation factor 2, gamma s	96.47
PTZ00416	836	elongation factor 2; Provisional	96.46
PRK09602	396	translation-associated GTPase; Reviewed	96.44
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	96.34
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	96.29
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	96.11
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.1
PLN00116	843	translation elongation factor EF-2 subunit; Provis	96.09
PRK07560	731	elongation factor EF-2; Reviewed	96.0
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	95.81
KOG2486	320	consensus Predicted GTPase [General function predi	95.7
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	95.25
KOG0460	449	consensus Mitochondrial translation elongation fac	95.12
COG3596	296	Predicted GTPase [General function prediction only	94.96
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.95
COG0523	323	Putative GTPases (G3E family) [General function pr	94.75
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	94.6
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	94.31
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	94.23
cd03112	158	CobW_like The function of this protein family is u	94.07
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	94.07
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	94.02
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	93.55
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	93.32
KOG1143	591	consensus Predicted translation elongation factor	92.87
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	92.26
COG1149	284	MinD superfamily P-loop ATPase containing an inser	91.98
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	91.93
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	91.43
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	91.28
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	90.37
cd03110	179	Fer4_NifH_child This protein family's function is	90.17
KOG3886	295	consensus GTP-binding protein [Signal transduction	89.75
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	89.57
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	87.22
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	86.56
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	84.68
PF05014	113	Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransfer	84.41
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	84.07
COG0012	372	Predicted GTPase, probable translation factor [Tra	83.71
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	83.57
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	83.31
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	83.31
cd03111	106	CpaE_like This protein family consists of proteins	81.94
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	81.42
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	81.23
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	81.06
KOG0467	887	consensus Translation elongation factor 2/ribosome	80.47

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.91  E-value=1.7e-23  Score=124.29  Aligned_cols=107  Identities=100%  Similarity=1.502  Sum_probs=89.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+++|.+|++++|++|+|+|++++.++.....++..++......+.|+++++||+|+.+..+.+++...+++.....+.+
T Consensus        74 ~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~  153 (181)
T PLN00223         74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW  153 (181)
T ss_pred             HHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCce
Confidence            46789999999999999999999888888888888776654446799999999999987777777777777655555667


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++++||++|+|+.++++||.+.+.++
T Consensus       154 ~~~~~Sa~~g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        154 YIQSTCATSGEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             EEEeccCCCCCCHHHHHHHHHHHHhhc
Confidence            788999999999999999999988765

>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=99.91  E-value=4.8e-23  Score=121.80  Aligned_cols=104  Identities=53%  Similarity=0.983  Sum_probs=93.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc-Ccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR-QRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~   79 (110)
                      +|++|+.|++++|++|||+|+++++.+.++...+..++.+....+.|+++++||+|+.+..+.+++...+.+.... .+.
T Consensus        71 ~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~~~~~  150 (175)
T PF00025_consen   71 FRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLKNKRP  150 (175)
T ss_dssp             GGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTTSSSC
T ss_pred             ccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcccCCc
Confidence            5789999999999999999999988899999999998887766789999999999998888888888777766664 678


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +.++.|||.+|+|+.+.++||.+++
T Consensus       151 ~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  151 WSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             EEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             eEEEeeeccCCcCHHHHHHHHHhcC
Confidence            8999999999999999999999864

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 ....

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.90  E-value=1.4e-22  Score=119.77  Aligned_cols=105  Identities=84%  Similarity=1.381  Sum_probs=87.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..|+++||++|+|+|++++.++++...++..++......+.|+++|+||+|+.+..+.+++...++......+.+
T Consensus        70 ~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  149 (175)
T smart00177       70 IRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNW  149 (175)
T ss_pred             hHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcE
Confidence            45689999999999999999999988988888888877654445789999999999977666667766666655556677


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .++++||++|+|++++++||.+.+.
T Consensus       150 ~~~~~Sa~~g~gv~e~~~~l~~~~~  174 (175)
T smart00177      150 YIQPTCATSGDGLYEGLTWLSNNLK  174 (175)
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHhc
Confidence            7889999999999999999988753

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).

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.90  E-value=2e-22  Score=116.99  Aligned_cols=107  Identities=78%  Similarity=1.275  Sum_probs=99.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      +|++|++|+++++++|||+|+++.+.+.+....+..++.+.+..+.|+++++||.|++++.+..++...+++....++.+
T Consensus        74 ~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~~~w  153 (181)
T KOG0070|consen   74 LRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRSRNW  153 (181)
T ss_pred             cccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhccCCCCc
Confidence            58999999999999999999999999999999999999888778999999999999999988888988898888888999


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+..|+|.+|+|+.+.++|+.+.+.++
T Consensus       154 ~iq~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  154 HIQSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             EEeeccccccccHHHHHHHHHHHHhcc
Confidence            999999999999999999999988654

>cd04149 Arf6 Arf6 subfamily

Probab=99.89  E-value=1.8e-22  Score=118.67  Aligned_cols=102  Identities=71%  Similarity=1.268  Sum_probs=83.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.+|+.|+++||++++|+|++++.++.+...++.+++......+.|+++|+||+|+.+....+++...+++.......+
T Consensus        66 ~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  145 (168)
T cd04149          66 IRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRDRNW  145 (168)
T ss_pred             HHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCCHHHHHHHcCCCccCCCcE
Confidence            35689999999999999999999888888888888877654345789999999999976656666766665544445667


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      .++++||++|+|++++|+||.+
T Consensus       146 ~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         146 YVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             EEEEeeCCCCCChHHHHHHHhc
Confidence            8899999999999999999975

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.89  E-value=3.8e-22  Score=118.64  Aligned_cols=108  Identities=75%  Similarity=1.283  Sum_probs=88.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..|++++|++|+|+|+++++++.+...++.+++......+.|+++|+||.|+.+....+++...++......+.+
T Consensus        74 ~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~  153 (182)
T PTZ00133         74 LRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNW  153 (182)
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhCCCcccCCcE
Confidence            35689999999999999999999888888888888776554445789999999999976655666666666654545567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      .++++||++|.|++++++||.+.+..++
T Consensus       154 ~~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        154 YIQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             EEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            7889999999999999999999887765

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.89  E-value=5.2e-22  Score=115.72  Aligned_cols=102  Identities=89%  Similarity=1.427  Sum_probs=81.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+++|..|+++||++++|+|.+++.++.+...++.+++......+.|+++++||+|+.+....+++...++.....++.+
T Consensus        57 ~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  136 (159)
T cd04150          57 IRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNW  136 (159)
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCE
Confidence            35689999999999999999999888888888888776554445689999999999976555555555555444445667


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      .++++||++|.|++++|+||.+
T Consensus       137 ~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         137 YIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             EEEEeeCCCCCCHHHHHHHHhc
Confidence            8889999999999999999864

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

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=4e-22  Score=111.33  Aligned_cols=105  Identities=66%  Similarity=1.197  Sum_probs=98.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      +|++|++||+++.++|||+|+.+.+..++++.++.+++.+..+.+.|+++..||.|++++...+++...+++...+.+.|
T Consensus        74 iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~~r~~~W  153 (180)
T KOG0071|consen   74 IRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELERIRDRNW  153 (180)
T ss_pred             hhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhccccccCCcc
Confidence            48999999999999999999998888999999999999988888999999999999999998999999999888888999


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      -+.++||.+|.|+.+.+.|+...+.
T Consensus       154 ~vqp~~a~~gdgL~eglswlsnn~~  178 (180)
T KOG0071|consen  154 YVQPSCALSGDGLKEGLSWLSNNLK  178 (180)
T ss_pred             EeeccccccchhHHHHHHHHHhhcc
Confidence            9999999999999999999998764

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.88  E-value=1.6e-21  Score=111.29  Aligned_cols=107  Identities=46%  Similarity=0.865  Sum_probs=95.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc-cCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL-RQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~   79 (110)
                      +|++|++||+.+|++|||+|.+++.++.+....+.+.+.+....+.|+++++||.|+.++...+.+...+++... .+..
T Consensus        73 lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~  152 (185)
T KOG0073|consen   73 LRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHH  152 (185)
T ss_pred             hHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccC
Confidence            588999999999999999999999899988888888887777778999999999999988888888777776666 6778


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++.|||.+|+++.+-+.|+...+.++
T Consensus       153 ~~l~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  153 WRLVKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             ceEEEEeccccccHHHHHHHHHHHHHHH
Confidence            9999999999999999999999988764

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.88  E-value=1.8e-21  Score=109.47  Aligned_cols=106  Identities=30%  Similarity=0.586  Sum_probs=98.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ||++|+.|++++++++||+|+.+++.++.++.++.+++..+...++|+++.+||.|++++.+...+.+.+++.....+++
T Consensus        78 frsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREv  157 (186)
T KOG0075|consen   78 FRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREV  157 (186)
T ss_pred             HHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceE
Confidence            68899999999999999999999998999999999998887778999999999999999988888888889988888999


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++.+||+...|++.+.+|+.++...
T Consensus       158 cC~siScke~~Nid~~~~Wli~hsk~  183 (186)
T KOG0075|consen  158 CCFSISCKEKVNIDITLDWLIEHSKS  183 (186)
T ss_pred             EEEEEEEcCCccHHHHHHHHHHHhhh
Confidence            99999999999999999999998654

>cd04158 ARD1 ARD1 subfamily

Probab=99.87  E-value=7.1e-21  Score=111.88  Aligned_cols=108  Identities=57%  Similarity=0.987  Sum_probs=85.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc-cCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL-RQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~   79 (110)
                      ++++|..+++++|++++|+|.+++.++.+...|+..++......+.|+++|+||+|+.+..+.+++......... ..+.
T Consensus        56 ~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  135 (169)
T cd04158          56 LRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRS  135 (169)
T ss_pred             cchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCc
Confidence            456899999999999999999998889888888888876544456899999999999766555655554433221 1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +.++++||++|.|++++|+||.+.+....
T Consensus       136 ~~~~~~Sa~~g~gv~~~f~~l~~~~~~~~  164 (169)
T cd04158         136 WYIQGCDARSGMGLYEGLDWLSRQLVAAG  164 (169)
T ss_pred             EEEEeCcCCCCCCHHHHHHHHHHHHhhcc
Confidence            67889999999999999999998876543

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

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=1.5e-21  Score=109.45  Aligned_cols=107  Identities=49%  Similarity=0.834  Sum_probs=95.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      +||+|+.||++.|.+|||+|.++......+..++..++.+.++++..++++.||+|.+......++...++++...++.+
T Consensus        75 irPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~  154 (182)
T KOG0072|consen   75 IRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIW  154 (182)
T ss_pred             ccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhhee
Confidence            58999999999999999999999887777778888888888888899999999999987777777777778777778889


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++.+||.+|+|+++.++|+.+.+.++
T Consensus       155 ~Iv~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  155 QIVKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             EEEeeccccccCCcHHHHHHHHHHhcc
Confidence            999999999999999999999988754

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=3e-21  Score=113.11  Aligned_cols=103  Identities=17%  Similarity=0.291  Sum_probs=83.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ||++..+||++|+++|+|+|.++.++|+....|+.++..... .++|.++|+||+|+.+..  +.++... +.    ...
T Consensus        71 Frtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~-~~v~~lLVGNK~Dl~~~~~v~~~~a~~-fa----~~~  144 (205)
T KOG0084|consen   71 FRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYAS-ENVPKLLVGNKCDLTEKRVVSTEEAQE-FA----DEL  144 (205)
T ss_pred             HhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhcc-CCCCeEEEeeccccHhheecCHHHHHH-HH----Hhc
Confidence            678999999999999999999999999999999998866543 568999999999996653  3333222 21    122


Q ss_pred             ceE-EEeeecccCCCHHHHHHHHHHHHHhhcC
Q 044598           79 HWY-IQSTCATSGEGLYEGLDWLSNNIANKVG  109 (110)
Q Consensus        79 ~~~-~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  109 (110)
                      +.+ ++++||+++.|+++.|..|+..+..+++
T Consensus       145 ~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~  176 (205)
T KOG0084|consen  145 GIPIFLETSAKDSTNVEDAFLTLAKELKQRKG  176 (205)
T ss_pred             CCcceeecccCCccCHHHHHHHHHHHHHHhcc
Confidence            334 8899999999999999999999987765

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.86  E-value=1e-20  Score=111.04  Aligned_cols=102  Identities=37%  Similarity=0.650  Sum_probs=83.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc---C
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR---Q   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~---~   77 (110)
                      ++++|..|+++||++++|+|++++.++.....++..++......++|+++|+||+|+.+..+..++...+.+....   .
T Consensus        56 ~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~  135 (167)
T cd04161          56 FRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENK  135 (167)
T ss_pred             HHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCC
Confidence            4678999999999999999999988888888888888766444679999999999998777666666665544432   3


Q ss_pred             cceEEEeeecccC------CCHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSG------EGLYEGLDWLSN  102 (110)
Q Consensus        78 ~~~~~~~~Sa~~~------~~i~~l~~~l~~  102 (110)
                      ..+.+++|||++|      +|+.+.|+||.+
T Consensus       136 ~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         136 SLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             ceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            4578889999998      899999999975

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04157 Arl6 Arl6 subfamily

Probab=99.85  E-value=2.8e-20  Score=108.24  Aligned_cols=102  Identities=48%  Similarity=0.890  Sum_probs=78.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCC--CCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL--RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   78 (110)
                      |+++|..|++++|++++|+|++++.++.....++..++.....  .++|+++|+||+|+.+....+++...++.......
T Consensus        58 ~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~  137 (162)
T cd04157          58 YRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDK  137 (162)
T ss_pred             hHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCc
Confidence            4578999999999999999999887777777777776554322  46999999999999765544555555444332344


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++.++++||++|.|++++++||.+
T Consensus       138 ~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         138 PWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             eEEEEEeeCCCCCchHHHHHHHhc
Confidence            567899999999999999999875

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.85  E-value=1.8e-20  Score=111.99  Aligned_cols=102  Identities=13%  Similarity=0.157  Sum_probs=81.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|+.|++++|++|+|+|.+++.++..+..|+..+....  ++.|+++|+||.|+...  ...++.....     ...
T Consensus        68 ~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~--~~~piilVGNK~DL~~~~~v~~~~~~~~a-----~~~  140 (189)
T cd04121          68 FCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA--PGVPKILVGNRLHLAFKRQVATEQAQAYA-----ERN  140 (189)
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECccchhccCCCHHHHHHHH-----HHc
Confidence            45789999999999999999999999999988888875442  57999999999999653  2333333322     224


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhcC
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKVG  109 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  109 (110)
                      ++++++|||++|.|++++|+++.+.+..+.|
T Consensus       141 ~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121         141 GMTFFEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            5689999999999999999999998876543

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.85  E-value=2.8e-20  Score=109.87  Aligned_cols=101  Identities=52%  Similarity=0.942  Sum_probs=81.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +..|..+++++|++++|+|+++++++.....++..++......+.|+++++||+|+.+..+.+++.+.++........++
T Consensus        73 ~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~  152 (174)
T cd04153          73 RSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWH  152 (174)
T ss_pred             HHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceE
Confidence            46789999999999999999988888777777777766544457999999999999765555666666654444445678


Q ss_pred             EEeeecccCCCHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++++||++|.|+++++++|.+
T Consensus       153 ~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         153 IQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             EEecccCCCCCHHHHHHHHhc
Confidence            999999999999999999975

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.85  E-value=3.8e-20  Score=107.59  Aligned_cols=102  Identities=61%  Similarity=1.050  Sum_probs=77.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+++|+.+++++|++++|+|++++.++.....++..+++.....++|+++|+||+|+.+.....++...++.........
T Consensus        56 ~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~  135 (158)
T cd04151          56 IRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTW  135 (158)
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcE
Confidence            45689999999999999999998777766666666655443335799999999999976544455554444333333456


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++++||++|.|++++++++.+
T Consensus       136 ~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         136 SIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             EEEEeeccCCCCHHHHHHHHhc
Confidence            8999999999999999999875

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.85  E-value=3.6e-20  Score=110.30  Aligned_cols=102  Identities=32%  Similarity=0.625  Sum_probs=84.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc-----
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR-----   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-----   76 (110)
                      +++|..|++++|++++|+|++++.++.....++.++++.....+.|+++|+||+|+....+.+++...+++....     
T Consensus        75 ~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~  154 (184)
T smart00178       75 RRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGK  154 (184)
T ss_pred             HHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccc
Confidence            568999999999999999999988888887788777665444679999999999998776777777777654421     


Q ss_pred             --CcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           77 --QRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        77 --~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                        .+.+.+++|||++|+|++++++||.+.
T Consensus       155 ~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      155 VGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             cCCceeEEEEeecccCCChHHHHHHHHhh
Confidence              256789999999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04154 Arl2 Arl2 subfamily

Probab=99.85  E-value=3.6e-20  Score=109.19  Aligned_cols=102  Identities=48%  Similarity=0.914  Sum_probs=80.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++++|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++...+.........+
T Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  150 (173)
T cd04154          71 LRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHW  150 (173)
T ss_pred             HHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCce
Confidence            35689999999999999999999888887777777776543345799999999999976555556555554432334567


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++++||++|+|++++++++.+
T Consensus       151 ~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         151 RIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             EEEeccCCCCcCHHHHHHHHhc
Confidence            8999999999999999999864

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.

>cd04120 Rab12 Rab12 subfamily

Probab=99.84  E-value=7.9e-20  Score=110.22  Aligned_cols=103  Identities=17%  Similarity=0.171  Sum_probs=77.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+++|..|+++||++|+|+|.+++.+++.+..|+..+... ...+.|+++|+||+|+....  ..++..+...    ...
T Consensus        62 ~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~-~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~----~~~  136 (202)
T cd04120          62 FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKY-ASEDAELLLVGNKLDCETDREISRQQGEKFAQ----QIT  136 (202)
T ss_pred             hHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCcEEEEEECcccccccccCHHHHHHHHH----hcC
Confidence            5678999999999999999999999999988877654332 23579999999999996432  2222211110    012


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      .+.++++||++|.|++++|.++.+.+.+..
T Consensus       137 ~~~~~etSAktg~gV~e~F~~l~~~~~~~~  166 (202)
T cd04120         137 GMRFCEASAKDNFNVDEIFLKLVDDILKKM  166 (202)
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHhC
Confidence            357899999999999999999998886543

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.83  E-value=2e-19  Score=104.55  Aligned_cols=101  Identities=41%  Similarity=0.786  Sum_probs=78.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc-Ccce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR-QRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~   80 (110)
                      +.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+......+++...+...... ...+
T Consensus        58 ~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  137 (160)
T cd04156          58 RTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDW  137 (160)
T ss_pred             HHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcE
Confidence            467888999999999999999888788877888877765444579999999999996554455555444332222 2456


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++++||++|+|+++++++|.+
T Consensus       138 ~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         138 YVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             EEEecccccCCChHHHHHHHhc
Confidence            7899999999999999999864

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

>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=99.83  E-value=1e-19  Score=107.72  Aligned_cols=102  Identities=20%  Similarity=0.294  Sum_probs=81.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+..+||++|+++++|||.++..+++....|+..+-++.. .+.|.++|+||+|+....  +.+. .+.+    ....
T Consensus        74 f~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~-~~v~~~LvGNK~D~~~~R~V~~e~-ge~l----A~e~  147 (207)
T KOG0078|consen   74 FRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHAS-DDVVKILVGNKCDLEEKRQVSKER-GEAL----AREY  147 (207)
T ss_pred             HHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCC-CCCcEEEeeccccccccccccHHH-HHHH----HHHh
Confidence            577889999999999999999999999999998877755543 589999999999997632  2222 1222    1234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++.++++||++|.||++.|..|++.+.++.
T Consensus       148 G~~F~EtSAk~~~NI~eaF~~La~~i~~k~  177 (207)
T KOG0078|consen  148 GIKFFETSAKTNFNIEEAFLSLARDILQKL  177 (207)
T ss_pred             CCeEEEccccCCCCHHHHHHHHHHHHHhhc
Confidence            568899999999999999999999988654

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

Probab=99.83  E-value=6.7e-20  Score=107.10  Aligned_cols=100  Identities=18%  Similarity=0.275  Sum_probs=81.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+++-+.||++|+++|+|+|.++.++|..++.|+.++..... ++.-+.+|+||+|+...  ...++....     ....
T Consensus        67 y~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~-~~~vialvGNK~DL~~~R~V~~~ea~~y-----Ae~~  140 (200)
T KOG0092|consen   67 YHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQAS-PNIVIALVGNKADLLERREVEFEEAQAY-----AESQ  140 (200)
T ss_pred             ccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCC-CCeEEEEecchhhhhhcccccHHHHHHH-----HHhc
Confidence            567889999999999999999999999999999998765543 66778889999999763  344443332     1235


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +..++++||++|.|++++|..|.+.+..
T Consensus       141 gll~~ETSAKTg~Nv~~if~~Ia~~lp~  168 (200)
T KOG0092|consen  141 GLLFFETSAKTGENVNEIFQAIAEKLPC  168 (200)
T ss_pred             CCEEEEEecccccCHHHHHHHHHHhccC
Confidence            6689999999999999999999998864

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.83  E-value=5.2e-19  Score=105.23  Aligned_cols=106  Identities=46%  Similarity=0.784  Sum_probs=80.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc-Ccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR-QRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~   79 (110)
                      |+++|..++++||++++|+|++++.++.....++..+.......+.|+++|+||+|+.+....+++....+..... ...
T Consensus        65 ~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  144 (183)
T cd04152          65 LRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTP  144 (183)
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCHHHHHHHhCccccCCCCc
Confidence            4578999999999999999999987787777777666544333579999999999987654444444443332221 234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|+|++++++++.+.+.+
T Consensus       145 ~~~~~~SA~~~~gi~~l~~~l~~~l~~  171 (183)
T cd04152         145 WHVQPACAIIGEGLQEGLEKLYEMILK  171 (183)
T ss_pred             eEEEEeecccCCCHHHHHHHHHHHHHH
Confidence            678899999999999999999988753

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.82  E-value=4.5e-19  Score=105.84  Aligned_cols=103  Identities=33%  Similarity=0.658  Sum_probs=81.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL------   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~------   75 (110)
                      +.+|..++++++++++|+|.++..++.....++..++......+.|+++++||+|+......+++...++....      
T Consensus        77 ~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  156 (190)
T cd00879          77 RRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGAVSEEELRQALGLYGTTTGKGV  156 (190)
T ss_pred             HHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCCcCHHHHHHHhCcccccccccc
Confidence            46788999999999999999988778777778877776544467999999999999766666666665543221      


Q ss_pred             -----cCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           76 -----RQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        76 -----~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                           ....+.+++|||++|+|++++|+|+.+.+
T Consensus       157 ~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~~  190 (190)
T cd00879         157 SLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQYL  190 (190)
T ss_pred             cccccCceeEEEEEeEecCCCChHHHHHHHHhhC
Confidence                 12346789999999999999999998753

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.

>PTZ00099 rab6; Provisional

Probab=99.82  E-value=4.3e-19  Score=105.03  Aligned_cols=100  Identities=21%  Similarity=0.326  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..|+++||++|+|+|.+++.++.....|+..+..... .+.|+++|+||+|+....  ..++.....     ...
T Consensus        42 ~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~-~~~piilVgNK~DL~~~~~v~~~e~~~~~-----~~~  115 (176)
T PTZ00099         42 FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERG-KDVIIALVGNKTDLGDLRKVTYEEGMQKA-----QEY  115 (176)
T ss_pred             hhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCeEEEEEECcccccccCCCHHHHHHHH-----HHc
Confidence            456889999999999999999999899888888887765432 468999999999985432  222322211     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +..++++||++|.|++++|.++.+.+.+
T Consensus       116 ~~~~~e~SAk~g~nV~~lf~~l~~~l~~  143 (176)
T PTZ00099        116 NTMFHETSAKAGHNIKVLFKKIAAKLPN  143 (176)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4468899999999999999999998865

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

Probab=99.82  E-value=3.1e-19  Score=107.47  Aligned_cols=99  Identities=16%  Similarity=0.213  Sum_probs=77.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      |+.+|..|+++++++|+|+|+++..++.....|+..+....  .+.|+++|+||+|+.... ..+.. ..     .....
T Consensus        57 ~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~--~~~piilvgNK~Dl~~~~v~~~~~-~~-----~~~~~  128 (200)
T smart00176       57 FGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDVKDRKVKAKSI-TF-----HRKKN  128 (200)
T ss_pred             hhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccCCHHHH-HH-----HHHcC
Confidence            46789999999999999999999989988888877775432  479999999999985432 22221 11     12345


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++|||++|+|++++|.++.+.+...
T Consensus       129 ~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176      129 LQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            6889999999999999999999988654

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.81  E-value=9.3e-19  Score=102.52  Aligned_cols=100  Identities=44%  Similarity=0.705  Sum_probs=79.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc-cCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL-RQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~   79 (110)
                      |+++|..|+++||++++|+|.+++.++.....|+..+....  .++|+++|+||+|+......+++...++.... ...+
T Consensus        57 ~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~--~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  134 (164)
T cd04162          57 LRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHP--PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRR  134 (164)
T ss_pred             hhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCC--CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCc
Confidence            46789999999999999999999888888888887776442  57999999999999776655555545444333 3456


Q ss_pred             eEEEeeeccc------CCCHHHHHHHHHH
Q 044598           80 WYIQSTCATS------GEGLYEGLDWLSN  102 (110)
Q Consensus        80 ~~~~~~Sa~~------~~~i~~l~~~l~~  102 (110)
                      +.++++||++      ++|+.++|..+..
T Consensus       135 ~~~~~~Sa~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162         135 WILQGTSLDDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             eEEEEeeecCCCChhHHHHHHHHHHHHhc
Confidence            7888888888      9999999987753

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.81  E-value=7.7e-19  Score=103.58  Aligned_cols=102  Identities=20%  Similarity=0.206  Sum_probs=76.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+++|+.|++++|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  +.++....     ....
T Consensus        63 ~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~-----a~~~  137 (172)
T cd04141          63 FTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNL-----AREF  137 (172)
T ss_pred             hHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHH-----HHHh
Confidence            4678999999999999999999999998887665544332222579999999999985432  22222211     1223


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++|||++|.|++++|+++.+.+.++
T Consensus       138 ~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  166 (172)
T cd04141         138 NCPFFETSAALRHYIDDAFHGLVREIRRK  166 (172)
T ss_pred             CCEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            56899999999999999999999887653

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

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.80  E-value=2.3e-18  Score=100.01  Aligned_cols=101  Identities=57%  Similarity=1.083  Sum_probs=80.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.+|..+++++|++++|+|+++++++.....++..+.......+.|+++++||+|+......+++...++........++
T Consensus        57 ~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  136 (158)
T cd00878          57 RPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWH  136 (158)
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEE
Confidence            46789999999999999999998888888778877766544457999999999999766555555555544323345678


Q ss_pred             EEeeecccCCCHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++++||++|.|+++++++|..
T Consensus       137 ~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         137 IQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             EEEeeCCCCCCHHHHHHHHhh
Confidence            999999999999999999875

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.80  E-value=1.9e-18  Score=104.12  Aligned_cols=103  Identities=19%  Similarity=0.190  Sum_probs=77.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC---CCCCCCeEEEEeeCCCCCC--CCCHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE---DELRDAVLLVFANKQDLPN--AMNAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~---~~~~~~~~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~   75 (110)
                      |+.+|+.|+++++++|+|+|.+++.++.....|+..+...   ....+.|+++|+||+|+.+  ....+++.+...    
T Consensus        63 ~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~----  138 (201)
T cd04107          63 FGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCK----  138 (201)
T ss_pred             hhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHH----
Confidence            4678999999999999999999999998887776655322   1224689999999999963  333444433321    


Q ss_pred             cCcc-eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           76 RQRH-WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        76 ~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                       ..+ ..++++||++|.|++++|+++.+.+.+..
T Consensus       139 -~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~  171 (201)
T cd04107         139 -ENGFIGWFETSAKEGINIEEAMRFLVKNILAND  171 (201)
T ss_pred             -HcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence             122 47899999999999999999999886543

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.80  E-value=2e-18  Score=101.00  Aligned_cols=101  Identities=35%  Similarity=0.731  Sum_probs=77.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc--ccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS--LRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~   79 (110)
                      +.+|..+++++|++++|+|++++.++.....++..+.+.....+.|+++++||+|+.+....+++...+....  .....
T Consensus        64 ~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  143 (167)
T cd04160          64 RSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRD  143 (167)
T ss_pred             HHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCHHHHHHHhccccccccCCc
Confidence            4578899999999999999998877777777777776654445799999999999976655455444432211  22345


Q ss_pred             eEEEeeecccCCCHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++++++||++|+|++++++||.+
T Consensus       144 ~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         144 CLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             eEEEEeeCCCCcCHHHHHHHHhc
Confidence            68999999999999999999975

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.

>cd04122 Rab14 Rab14 subfamily

Probab=99.80  E-value=2.8e-18  Score=100.47  Aligned_cols=100  Identities=19%  Similarity=0.241  Sum_probs=76.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.+++++|++++|+|++++.++.....|+..+.... .++.|+++|+||+|+.+..  ..++.....     ...
T Consensus        64 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~-----~~~  137 (166)
T cd04122          64 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLT-NPNTVIFLIGNKADLEAQRDVTYEEAKQFA-----DEN  137 (166)
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCcCHHHHHHHH-----HHc
Confidence            35678899999999999999999999988888887764432 2568999999999996543  223333221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|+|++++|.++.+.+.+
T Consensus       138 ~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         138 GLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4589999999999999999999887643

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.79  E-value=2.2e-18  Score=101.99  Aligned_cols=101  Identities=14%  Similarity=0.281  Sum_probs=77.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|+++++++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...+
T Consensus        77 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  151 (180)
T cd04127          77 RSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALA-----DKYG  151 (180)
T ss_pred             HHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHH-----HHcC
Confidence            457889999999999999999999999888888776544333578999999999986432  222322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+++++||++|.|++++++++.+.+.++
T Consensus       152 ~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         152 IPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            4789999999999999999999887654

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

>cd04133 Rop_like Rop subfamily

Probab=99.79  E-value=1.9e-18  Score=102.23  Aligned_cols=98  Identities=8%  Similarity=0.056  Sum_probs=74.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------------CHHHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNAM------------NAAEIT   67 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------------~~~~~~   67 (110)
                      |+.++..|+++++++|+|+|.+++.+++.+ ..|+..+....  .+.|+++|+||+|+.+..            ..++..
T Consensus        62 ~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~  139 (176)
T cd04133          62 YNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYA--PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGE  139 (176)
T ss_pred             ccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHH
Confidence            467888999999999999999999999887 56777765432  469999999999995431            222221


Q ss_pred             hhhCCCcccCcce-EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           68 DKLGLHSLRQRHW-YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        68 ~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..     ....+. .+++|||++|.|++++|+.+.+.+.
T Consensus       140 ~~-----a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         140 EL-----RKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             HH-----HHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence            11     112233 6889999999999999999998764

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,

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

Probab=99.79  E-value=8.1e-19  Score=102.94  Aligned_cols=104  Identities=17%  Similarity=0.268  Sum_probs=82.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ||.+.++|++++.++|+|+|.++..+++....|+.++..+....+.-+++|+||.||.+........   +....+..+.
T Consensus        84 FrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eE---g~~kAkel~a  160 (221)
T KOG0094|consen   84 FRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEE---GERKAKELNA  160 (221)
T ss_pred             HhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHH---HHHHHHHhCc
Confidence            6889999999999999999999999999999999999877654467899999999997654221111   1111123345


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+.++||+.|.||.++|..+...+...
T Consensus       161 ~f~etsak~g~NVk~lFrrIaa~l~~~  187 (221)
T KOG0094|consen  161 EFIETSAKAGENVKQLFRRIAAALPGM  187 (221)
T ss_pred             EEEEecccCCCCHHHHHHHHHHhccCc
Confidence            788999999999999999999887654

>cd04175 Rap1 Rap1 subgroup

Probab=99.79  E-value=3.7e-18  Score=99.67  Aligned_cols=100  Identities=19%  Similarity=0.229  Sum_probs=76.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+++|+.+++++|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        62 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  136 (164)
T cd04175          62 FTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLA-----RQW  136 (164)
T ss_pred             chhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHH-----HHh
Confidence            4678899999999999999999988888888787777654334579999999999996532  222211111     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .++++++||++|.|+++++.++.+.+.
T Consensus       137 ~~~~~~~Sa~~~~~v~~~~~~l~~~l~  163 (164)
T cd04175         137 GCAFLETSAKAKINVNEIFYDLVRQIN  163 (164)
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHHHHhh
Confidence            357899999999999999999998763

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.79  E-value=4.2e-18  Score=99.89  Aligned_cols=100  Identities=15%  Similarity=0.172  Sum_probs=76.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ..++..++..+|++|+|+|.++++++.....|+..+....  .+.|+++|+||+|+.......+....     ......+
T Consensus        63 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~piiiv~nK~Dl~~~~~~~~~~~~-----~~~~~~~  135 (166)
T cd00877          63 GGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC--GNIPIVLCGNKVDIKDRKVKAKQITF-----HRKKNLQ  135 (166)
T ss_pred             ccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC--CCCcEEEEEEchhcccccCCHHHHHH-----HHHcCCE
Confidence            4567889999999999999999988888877777765442  37999999999998643321221111     1234567


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++||++|+|++++|++|.+.+.+..
T Consensus       136 ~~e~Sa~~~~~v~~~f~~l~~~~~~~~  162 (166)
T cd00877         136 YYEISAKSNYNFEKPFLWLARKLLGNP  162 (166)
T ss_pred             EEEEeCCCCCChHHHHHHHHHHHHhcc
Confidence            999999999999999999999887643

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

>cd01875 RhoG RhoG subfamily

Probab=99.79  E-value=3.1e-18  Score=102.55  Aligned_cols=103  Identities=16%  Similarity=0.166  Sum_probs=74.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCc----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHS----   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~----   74 (110)
                      |+++|+.|+++||++|+|+|.+++.+++.+. .|...+...  ..+.|+++|+||+|+.+... .+.+.+ .....    
T Consensus        64 ~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~~~~~~~~~~~-~~~~~v~~~  140 (191)
T cd01875          64 YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHH--CPNVPILLVGTKKDLRNDADTLKKLKE-QGQAPITPQ  140 (191)
T ss_pred             hhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEeChhhhcChhhHHHHhh-ccCCCCCHH
Confidence            4678999999999999999999999998886 455544432  24799999999999964321 111111 00000    


Q ss_pred             -----ccCcc-eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           75 -----LRQRH-WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        75 -----~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                           ....+ ++++++||++|.|++++|+++.+.+..
T Consensus       141 ~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         141 QGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             HHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence                 01122 579999999999999999999988754

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

>cd04155 Arl3 Arl3 subfamily

Probab=99.78  E-value=7.2e-18  Score=99.17  Aligned_cols=101  Identities=51%  Similarity=0.909  Sum_probs=79.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ...|..+++++|++++|+|.++..++.....++..........+.|+++++||+|+.+....+++...+++.....+.++
T Consensus        72 ~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~  151 (173)
T cd04155          72 RPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWH  151 (173)
T ss_pred             HHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHHHHHHcCCcccCCCeEE
Confidence            34678889999999999999987777777767766655433357999999999998765555566666665545556677


Q ss_pred             EEeeecccCCCHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++++||++|+|++++++||.+
T Consensus       152 ~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         152 IQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             EEEeECCCCCCHHHHHHHHhc
Confidence            889999999999999999975

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.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.78  E-value=2.7e-19  Score=103.15  Aligned_cols=107  Identities=37%  Similarity=0.748  Sum_probs=90.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc-ccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS-LRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~   79 (110)
                      .|++|..||..|+++||++|+++++.++.....+.+++.+....+.|+++.+||.|+.+....+++...++... ...+.
T Consensus        82 lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd  161 (197)
T KOG0076|consen   82 LRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRD  161 (197)
T ss_pred             HHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCcc
Confidence            37899999999999999999999999988888888888777778999999999999988877777776665322 23455


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++.++||.+|+||.+...|+...+.+.
T Consensus       162 ~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  162 NPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             CccccchhhhcccHHHHHHHHHHHHhhc
Confidence            6888999999999999999999988654

>cd04126 Rab20 Rab20 subfamily

Probab=99.78  E-value=7.9e-18  Score=102.68  Aligned_cols=105  Identities=18%  Similarity=0.227  Sum_probs=75.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--------------------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------------   60 (110)
                      |+.++..|++++|++|+|+|.+++.++..+..|+..+.... ..+.|+++|+||+|+.+.                    
T Consensus        57 ~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~-~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r  135 (220)
T cd04126          57 FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTA-NEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQR  135 (220)
T ss_pred             chhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccccccccccccccccccc
Confidence            46788999999999999999999999998888887765432 256899999999998641                    


Q ss_pred             -CCHHHHHhh---hCCC-----ccc-CcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           61 -MNAAEITDK---LGLH-----SLR-QRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        61 -~~~~~~~~~---~~~~-----~~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                       ...++....   .+..     ... ....++++|||++|.|++++|..+++.+..
T Consensus       136 ~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~  191 (220)
T cd04126         136 QVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLP  191 (220)
T ss_pred             cCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence             112222111   1100     000 112578999999999999999999987754

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.78  E-value=6.5e-18  Score=98.36  Aligned_cols=99  Identities=20%  Similarity=0.228  Sum_probs=74.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..|++++|++++|+|.+++.+++....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        62 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  136 (163)
T cd04136          62 FTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALA-----RQW  136 (163)
T ss_pred             cchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHH-----HHc
Confidence            4678899999999999999999988888887777776554333578999999999985432  222211111     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..+++++||++|.|+++++.++.+.+
T Consensus       137 ~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         137 GCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             CCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            25789999999999999999998764

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.78  E-value=1.6e-17  Score=95.91  Aligned_cols=102  Identities=31%  Similarity=0.602  Sum_probs=78.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.+|..+++++|++++|+|++++.++.....++..+.......++|+++|+||+|+.+.....++....+........+
T Consensus        57 ~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  136 (159)
T cd04159          57 FRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREV  136 (159)
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCce
Confidence            35678999999999999999998877777777777776544445789999999999876544444444444333334557


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++++||++|.|++++++++.+
T Consensus       137 ~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         137 SCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             EEEEEEeccCCChHHHHHHHhh
Confidence            8899999999999999999875

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.77  E-value=1.2e-17  Score=99.77  Aligned_cols=102  Identities=17%  Similarity=0.175  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..|+++++++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ...+.....     ...
T Consensus        66 ~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~-----~~~  140 (189)
T PTZ00369         66 YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELA-----KSF  140 (189)
T ss_pred             chhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHH-----HHh
Confidence            4568899999999999999999998888888777766544333578999999999985432  222221111     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+++++||++|.|++++|.++.+.+.+.
T Consensus       141 ~~~~~e~Sak~~~gi~~~~~~l~~~l~~~  169 (189)
T PTZ00369        141 GIPFLETSAKQRVNVDEAFYELVREIRKY  169 (189)
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            35789999999999999999999888654

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.77  E-value=6.5e-18  Score=103.09  Aligned_cols=99  Identities=16%  Similarity=0.182  Sum_probs=77.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      |+.+|..|+++++++|+|+|.+++.++.....|+..+...  ..+.|+++|+||+|+.... ..+++ ..     .....
T Consensus        75 ~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~--~~~~piilvgNK~Dl~~~~v~~~~~-~~-----~~~~~  146 (219)
T PLN03071         75 FGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRV--CENIPIVLCGNKVDVKNRQVKAKQV-TF-----HRKKN  146 (219)
T ss_pred             hhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEEchhhhhccCCHHHH-HH-----HHhcC
Confidence            4578899999999999999999999998888888776543  2579999999999985432 22222 11     12244


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||++|.|++++|.++.+.+...
T Consensus       147 ~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071        147 LQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            6789999999999999999999888654

>cd04176 Rap2 Rap2 subgroup

Probab=99.77  E-value=9.9e-18  Score=97.75  Aligned_cols=99  Identities=17%  Similarity=0.208  Sum_probs=74.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..|++++|++++|+|.+++.++.+...|+..+.......++|+++|+||+|+.+...  ..+. ..+.    ...
T Consensus        62 ~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~-~~~~----~~~  136 (163)
T cd04176          62 FASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEG-RALA----EEW  136 (163)
T ss_pred             ccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHH-HHHH----HHh
Confidence            46789999999999999999999988888877777665443335799999999999854322  1121 1111    112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +.+++++||++|.|+++++.++.+.+
T Consensus       137 ~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         137 GCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            34788999999999999999998764

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

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

Probab=99.77  E-value=2.6e-18  Score=100.20  Aligned_cols=101  Identities=21%  Similarity=0.284  Sum_probs=80.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ||+..++||++|.++|+|+|.++.++|..+..|+.++.++.. .+..+++++||+|+....  ..++-...     ....
T Consensus        68 frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~-~NmvImLiGNKsDL~~rR~Vs~EEGeaF-----A~eh  141 (216)
T KOG0098|consen   68 FRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSN-ENMVIMLIGNKSDLEARREVSKEEGEAF-----AREH  141 (216)
T ss_pred             HHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcC-CCcEEEEEcchhhhhccccccHHHHHHH-----HHHc
Confidence            578899999999999999999999999999999999877642 688999999999996543  33332221     1234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +..++++||++++|+++.|......+-.+
T Consensus       142 gLifmETSakt~~~VEEaF~nta~~Iy~~  170 (216)
T KOG0098|consen  142 GLIFMETSAKTAENVEEAFINTAKEIYRK  170 (216)
T ss_pred             CceeehhhhhhhhhHHHHHHHHHHHHHHH
Confidence            55677999999999999999888777543

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.77  E-value=8.3e-18  Score=100.03  Aligned_cols=99  Identities=9%  Similarity=0.061  Sum_probs=73.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.+++.|++++|++|+|+|.+++.++... ..|+..+....  ++.|+++|+||+|+.+.              ...++
T Consensus        66 ~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~  143 (182)
T cd04172          66 YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQ  143 (182)
T ss_pred             hHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC--CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHH
Confidence            456888999999999999999999999887 56776664432  46899999999998542              12222


Q ss_pred             HHhhhCCCcccCcc-eEEEeeecccCCC-HHHHHHHHHHHHHh
Q 044598           66 ITDKLGLHSLRQRH-WYIQSTCATSGEG-LYEGLDWLSNNIAN  106 (110)
Q Consensus        66 ~~~~~~~~~~~~~~-~~~~~~Sa~~~~~-i~~l~~~l~~~~~~  106 (110)
                      ..+.     ....+ .++++|||++|+| ++++|..+.+...+
T Consensus       144 ~~~~-----a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~~  181 (182)
T cd04172         144 GANM-----AKQIGAATYIECSALQSENSVRDIFHVATLACVN  181 (182)
T ss_pred             HHHH-----HHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHhc
Confidence            2111     11234 3789999999998 99999999886543

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.77  E-value=1.1e-17  Score=97.11  Aligned_cols=99  Identities=17%  Similarity=0.229  Sum_probs=74.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      |+++|..|+++++++++|+|.++..++.....|+..+.......+.|+++|+||+|+.+.. ...+.....     ....
T Consensus        62 ~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~-----~~~~  136 (162)
T cd04138          62 YSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLA-----KSYG  136 (162)
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHH-----HHhC
Confidence            4578999999999999999999988888777777766544333578999999999986532 222222221     1223


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||++|.|++++++++.+.+
T Consensus       137 ~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         137 IPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHHh
Confidence            4788999999999999999998754

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.76  E-value=2e-17  Score=98.89  Aligned_cols=102  Identities=13%  Similarity=0.148  Sum_probs=75.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC--CCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE--LRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~   76 (110)
                      |+.++..|++++|++|+|+|.+++.++.....|+..+.....  ..+.|+++|+||+|+....  ...+....     ..
T Consensus        60 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~-----~~  134 (190)
T cd04144          60 YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAAL-----AR  134 (190)
T ss_pred             hHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHH-----HH
Confidence            456788999999999999999998888887777766543221  2468999999999985432  22222111     11


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+.+++++||++|.|++++++++.+.+..+
T Consensus       135 ~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~  165 (190)
T cd04144         135 RLGCEFIEASAKTNVNVERAFYTLVRALRQQ  165 (190)
T ss_pred             HhCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            2235789999999999999999999887644

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.76  E-value=2.8e-17  Score=96.16  Aligned_cols=99  Identities=14%  Similarity=0.222  Sum_probs=75.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++++|+|++++++++....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...+
T Consensus        64 ~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  137 (165)
T cd01865          64 RTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYS-WDNAQVILVGNKCDMEDERVVSSERGRQLA-----DQLG  137 (165)
T ss_pred             HHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCCEEEEEECcccCcccccCHHHHHHHH-----HHcC
Confidence            5678899999999999999999988988888887764432 2468999999999996543  222222211     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++++||++|.|++++++++.+.+..
T Consensus       138 ~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         138 FEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            478999999999999999999987754

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.75  E-value=3.2e-17  Score=100.62  Aligned_cols=100  Identities=13%  Similarity=0.087  Sum_probs=73.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.+++.|+++||++++|+|.+++.++... ..|+..+....  ++.|+++|+||+|+...              ...++
T Consensus        74 ~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e  151 (232)
T cd04174          74 YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYC--PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQ  151 (232)
T ss_pred             hHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccchhhhhccccCCcCCHHH
Confidence            456788999999999999999999999874 56776665332  46899999999998532              12222


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      ..+.     ....+. .+++|||++|+ |++++|..++..+.+.
T Consensus       152 ~~~~-----a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         152 GCAL-----AKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             HHHH-----HHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHh
Confidence            2111     112344 58899999998 8999999998877553

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.

>cd04128 Spg1 Spg1p

Probab=99.75  E-value=1e-17  Score=99.65  Aligned_cols=102  Identities=8%  Similarity=0.074  Sum_probs=73.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHh-hhCCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITD-KLGLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~-~~~~~~~~   76 (110)
                      |+.+|..++++||++++|+|.+++.++.....|+..+..... ...| ++|+||+|+.....   .+.+.. ....  ..
T Consensus        62 ~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~-~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~--a~  137 (182)
T cd04128          62 FINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNK-TAIP-ILVGTKYDLFADLPPEEQEEITKQARKY--AK  137 (182)
T ss_pred             HHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCE-EEEEEchhccccccchhhhhhHHHHHHH--HH
Confidence            456889999999999999999999999988888887755322 3466 68899999853211   111111 0000  11


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+.+++++||++|.|++++|+++.+.+..
T Consensus       138 ~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         138 AMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            233578999999999999999999988754

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.75  E-value=3.9e-17  Score=96.17  Aligned_cols=102  Identities=22%  Similarity=0.251  Sum_probs=74.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~   77 (110)
                      |..++..+++++|++++|+|+++++++.....|+..+.+.......|+++|+||+|+.+....   ++....+.    ..
T Consensus        62 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~----~~  137 (170)
T cd04108          62 FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLA----AE  137 (170)
T ss_pred             HHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHH----HH
Confidence            356788999999999999999998888888888887755432235789999999998543221   11111111    11


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+.+++++||++|.|++++|+.+.+....
T Consensus       138 ~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         138 MQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            23467899999999999999999887743

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.75  E-value=4.9e-17  Score=95.31  Aligned_cols=99  Identities=18%  Similarity=0.230  Sum_probs=75.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..++++||++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ....
T Consensus        66 ~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  139 (167)
T cd01867          66 RTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHA-SEDVERMLVGNKCDMEEKRVVSKEEGEALA-----DEYG  139 (167)
T ss_pred             HHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHH-----HHcC
Confidence            4577889999999999999999989888887777665432 2568999999999996432  222222221     1223


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|.|++++|+++.+.+..
T Consensus       140 ~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         140 IKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            478999999999999999999998764

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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.75  E-value=3.5e-17  Score=95.38  Aligned_cols=99  Identities=17%  Similarity=0.229  Sum_probs=74.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.+++++|++++|+|++++.++.....|+..+.......+.|+++++||+|+.+..  ..++.....     ...
T Consensus        63 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~-----~~~  137 (164)
T cd04145          63 FSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELA-----RKL  137 (164)
T ss_pred             hhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHH-----HHc
Confidence            3567889999999999999999988888887777776543333578999999999986543  222222221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +.+++++||++|.|++++|+++.+.+
T Consensus       138 ~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         138 KIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             CCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            34788999999999999999998765

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.75  E-value=4.5e-17  Score=95.07  Aligned_cols=99  Identities=26%  Similarity=0.351  Sum_probs=74.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC----CCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE----LRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSL   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~----~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~   75 (110)
                      +.++..+++++|++|+|+|++++.++.....|+..+.....    ..+.|+++|+||+|+.+.  ...++.....     
T Consensus        63 ~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----  137 (168)
T cd04119          63 LEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWA-----  137 (168)
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHH-----
Confidence            35778899999999999999998888887777776654322    246899999999998632  2233322221     


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...+.+++++||++|.|++++++++.+.+.
T Consensus       138 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         138 ESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             HHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            122357899999999999999999998764

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.75  E-value=5.8e-17  Score=94.55  Aligned_cols=101  Identities=20%  Similarity=0.253  Sum_probs=75.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.++++++++++|+|++++.++.....|...+.......+.|+++|+||+|+....  ..+......     ...
T Consensus        61 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~-----~~~  135 (164)
T smart00173       61 FSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELA-----RQW  135 (164)
T ss_pred             chHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHH-----HHc
Confidence            3567889999999999999999988888877776665544333478999999999986532  222222111     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+++++||++|.|++++++++.+.+..
T Consensus       136 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  163 (164)
T smart00173      136 GCPFLETSAKERVNVDEAFYDLVREIRK  163 (164)
T ss_pred             CCEEEEeecCCCCCHHHHHHHHHHHHhh
Confidence            3578999999999999999999987653

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.75  E-value=5.4e-17  Score=94.93  Aligned_cols=99  Identities=17%  Similarity=0.249  Sum_probs=75.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|+++++++.....|+..+.... ..+.|+++++||+|+.+..  ..++.....     ...+
T Consensus        65 ~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  138 (166)
T cd01869          65 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTDKRVVDYSEAQEFA-----DELG  138 (166)
T ss_pred             HHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEEChhcccccCCCHHHHHHHH-----HHcC
Confidence            4577889999999999999999988888888777664332 2468999999999985443  223322221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|.|+++++.++.+.+.+
T Consensus       139 ~~~~~~Sa~~~~~v~~~~~~i~~~~~~  165 (166)
T cd01869         139 IPFLETSAKNATNVEQAFMTMAREIKK  165 (166)
T ss_pred             CeEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            578999999999999999999988754

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.75  E-value=5.1e-17  Score=98.66  Aligned_cols=101  Identities=21%  Similarity=0.350  Sum_probs=76.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..|++++|++++|+|++++.++..+..|+..+.........|+++|+||+|+.+..  ..++.....     ...+
T Consensus        66 ~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~-----~~~~  140 (211)
T cd04111          66 RSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLA-----KDLG  140 (211)
T ss_pred             HHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHH-----HHhC
Confidence            457888999999999999999999999888888877654333457899999999986532  222222211     1233


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+++++||++|.|++++|++|.+.+.++
T Consensus       141 ~~~~e~Sak~g~~v~e~f~~l~~~~~~~  168 (211)
T cd04111         141 MKYIETSARTGDNVEEAFELLTQEIYER  168 (211)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            6789999999999999999999887654

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.75  E-value=3.3e-17  Score=96.80  Aligned_cols=101  Identities=11%  Similarity=0.085  Sum_probs=69.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhC--C----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLG--L----   72 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~--~----   72 (110)
                      |+.+|+.+++++|++|+|+|.++++++.... .|+..+...  ..+.|+++|+||+|+.+... .+.+.....  .    
T Consensus        62 ~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~  139 (174)
T cd01871          62 YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ  139 (174)
T ss_pred             hhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHH
Confidence            3567889999999999999999999998875 455544332  24799999999999954321 111111000  0    


Q ss_pred             --CcccCcc-eEEEeeecccCCCHHHHHHHHHHH
Q 044598           73 --HSLRQRH-WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        73 --~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                        ......+ .++++|||++|+|++++|+.+.+.
T Consensus       140 ~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         140 GLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             HHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence              0001112 478999999999999999999864

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.74  E-value=6.4e-17  Score=98.45  Aligned_cols=100  Identities=11%  Similarity=0.122  Sum_probs=73.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC--CCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE--LRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~   77 (110)
                      +.++..|+++||++|+|+|++++++++....|+..+.....  ..+.|+++|+||+|+.+..  ..++.....     ..
T Consensus        64 ~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~-----~~  138 (215)
T cd04109          64 GKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFA-----QA  138 (215)
T ss_pred             HHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHH-----HH
Confidence            45788999999999999999999999888777766644321  1356899999999996432  222222111     11


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+.+++++||++|+|++++|+++.+.+..
T Consensus       139 ~~~~~~~iSAktg~gv~~lf~~l~~~l~~  167 (215)
T cd04109         139 NGMESCLVSAKTGDRVNLLFQQLAAELLG  167 (215)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            23578899999999999999999988753

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

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

Probab=99.74  E-value=2.3e-17  Score=93.11  Aligned_cols=99  Identities=17%  Similarity=0.316  Sum_probs=77.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHH---HHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAE---ITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~---~~~~~~~~~~   75 (110)
                      +|.+.-.||++|+++|+++|.+++++++....|...+-.. ...+.|+++|+||||+.+..  +.+.   +.+.+     
T Consensus        83 yrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIkty-sw~naqvilvgnKCDmd~eRvis~e~g~~l~~~L-----  156 (193)
T KOG0093|consen   83 YRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTY-SWDNAQVILVGNKCDMDSERVISHERGRQLADQL-----  156 (193)
T ss_pred             hhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheee-eccCceEEEEecccCCccceeeeHHHHHHHHHHh-----
Confidence            4567788999999999999999999999988887765333 33689999999999996543  2222   23333     


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                         +..++++||+.+.|+.++|+.+...+..++
T Consensus       157 ---GfefFEtSaK~NinVk~~Fe~lv~~Ic~km  186 (193)
T KOG0093|consen  157 ---GFEFFETSAKENINVKQVFERLVDIICDKM  186 (193)
T ss_pred             ---ChHHhhhcccccccHHHHHHHHHHHHHHHh
Confidence               346789999999999999999999887654

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.74  E-value=3.4e-18  Score=95.86  Aligned_cols=105  Identities=46%  Similarity=0.776  Sum_probs=91.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      +|++|..||++.|++|||+|+++...+++....+.+++....+...|++|..||.|+..+...+++...+.+.....+.+
T Consensus        75 IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRsw  154 (185)
T KOG0074|consen   75 IRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSW  154 (185)
T ss_pred             cchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceE
Confidence            48999999999999999999999888888878888887777778899999999999988777778777776666667889


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+.+|||.+++|+.+...|+.....
T Consensus       155 hIq~csals~eg~~dg~~wv~sn~~  179 (185)
T KOG0074|consen  155 HIQECSALSLEGSTDGSDWVQSNPE  179 (185)
T ss_pred             EeeeCccccccCccCcchhhhcCCC
Confidence            9999999999999999999877653

>cd04117 Rab15 Rab15 subfamily

Probab=99.74  E-value=8.3e-17  Score=93.94  Aligned_cols=96  Identities=13%  Similarity=0.155  Sum_probs=72.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|.+++++++....|+..+.... ..+.|+++|+||.|+.+..  ..++.....     ....
T Consensus        63 ~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~-----~~~~  136 (161)
T cd04117          63 QTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYA-PEGVQKILIGNKADEEQKRQVGDEQGNKLA-----KEYG  136 (161)
T ss_pred             HhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCCCHHHHHHHH-----HHcC
Confidence            4578889999999999999999999998888887665432 2468999999999986543  222222211     1122


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      .+++++||++|.|++++|.+|.+.
T Consensus       137 ~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         137 MDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHhh
Confidence            478999999999999999999864

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.73  E-value=6.6e-17  Score=94.32  Aligned_cols=99  Identities=12%  Similarity=0.141  Sum_probs=74.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+++|+.|++++|++++|+|++++.++.....|+..+...  ..+.|+++|+||+|+.... .++... +    .....+
T Consensus        62 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~p~ivv~nK~Dl~~~~-~~~~~~-~----~~~~~~  133 (161)
T cd04124          62 FQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY--RPEIPCIVVANKIDLDPSV-TQKKFN-F----AEKHNL  133 (161)
T ss_pred             hhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEECccCchhH-HHHHHH-H----HHHcCC
Confidence            4578899999999999999999988888777777766432  2468999999999984321 111111 1    111245


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++.+.+.+.++
T Consensus       134 ~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         134 PLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            788999999999999999999887654

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

>cd04131 Rnd Rnd subfamily

Probab=99.73  E-value=5e-17  Score=96.39  Aligned_cols=98  Identities=8%  Similarity=0.035  Sum_probs=71.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.+++.|+++||++|+|+|.+++.++... ..|+..+....  ++.|+++|+||+|+.+.              ...++
T Consensus        62 ~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~--~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e  139 (178)
T cd04131          62 YDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFC--PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQ  139 (178)
T ss_pred             hhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC--CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHH
Confidence            355778899999999999999999999885 56776665432  47899999999998542              11222


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCCC-HHHHHHHHHHHHH
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGEG-LYEGLDWLSNNIA  105 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-i~~l~~~l~~~~~  105 (110)
                      ..+.     ....+. ++++|||++|+| ++++|..+.+...
T Consensus       140 ~~~~-----a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         140 GCAI-----AKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             HHHH-----HHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            1111     112333 689999999995 9999999988543

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.73  E-value=8.2e-17  Score=96.23  Aligned_cols=104  Identities=17%  Similarity=0.173  Sum_probs=73.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh---------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL---------   70 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~---------   70 (110)
                      |+.+++.++++++++++|+|.+++.++.... .|+..+...  ..+.|+++|+||+|+.......+.....         
T Consensus        61 ~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~--~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~  138 (189)
T cd04134          61 FDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREH--CPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEE  138 (189)
T ss_pred             ccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHH
Confidence            4567888999999999999999999988775 466665433  2478999999999996543211110000         


Q ss_pred             CCCcc-cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           71 GLHSL-RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        71 ~~~~~-~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.... ....++++++||++|.|++++|.++.+.+.+
T Consensus       139 ~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         139 GLAVAKRINALRYLECSAKLNRGVNEAFTEAARVALN  175 (189)
T ss_pred             HHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence            00000 1123578999999999999999999988764

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.

>cd04112 Rab26 Rab26 subfamily

Probab=99.73  E-value=1.5e-16  Score=95.27  Aligned_cols=100  Identities=14%  Similarity=0.258  Sum_probs=75.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|+++++++.....|+..+.... ..+.|+++|+||+|+....  ..++.....     ...+
T Consensus        64 ~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~-----~~~~  137 (191)
T cd04112          64 RSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYA-QEDVVIMLLGNKADMSGERVVKREDGERLA-----KEYG  137 (191)
T ss_pred             HHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEcccchhccccCHHHHHHHH-----HHcC
Confidence            4567889999999999999999888888877777665432 2468999999999985322  222222211     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+++++||++|.|+++++.++.+.+...
T Consensus       138 ~~~~e~Sa~~~~~v~~l~~~l~~~~~~~  165 (191)
T cd04112         138 VPFMETSAKTGLNVELAFTAVAKELKHR  165 (191)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            4789999999999999999999888654

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.

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

Probab=99.73  E-value=7.8e-17  Score=91.60  Aligned_cols=102  Identities=23%  Similarity=0.311  Sum_probs=81.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH--HHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA--AEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~   78 (110)
                      ||+..++||++|.++++|+|.++.++++.+..|+.+...... +++-+++++||.|+.+....  .+....     ...+
T Consensus        71 FRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs-~nIvviL~GnKkDL~~~R~VtflEAs~F-----aqEn  144 (214)
T KOG0086|consen   71 FRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLAS-PNIVVILCGNKKDLDPEREVTFLEASRF-----AQEN  144 (214)
T ss_pred             HHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCC-CcEEEEEeCChhhcChhhhhhHHHHHhh-----hccc
Confidence            678899999999999999999999999999999988754432 57889999999999765432  222221     1234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      .+.++++||++|+|+++.|-...+.+..++
T Consensus       145 el~flETSa~TGeNVEEaFl~c~~tIl~kI  174 (214)
T KOG0086|consen  145 ELMFLETSALTGENVEEAFLKCARTILNKI  174 (214)
T ss_pred             ceeeeeecccccccHHHHHHHHHHHHHHHH
Confidence            567889999999999999999888887765

>cd04125 RabA_like RabA-like subfamily

Probab=99.73  E-value=1.8e-16  Score=94.53  Aligned_cols=101  Identities=18%  Similarity=0.235  Sum_probs=76.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++++|+|.+++.++.....|+..+..... ...|+++++||+|+.+..  ..+......     ...+
T Consensus        63 ~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~-~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  136 (188)
T cd04125          63 RSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYAR-ENVIKVIVANKSDLVNNKVVDSNIAKSFC-----DSLN  136 (188)
T ss_pred             HhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECCCCcccccCCHHHHHHHH-----HHcC
Confidence            45788899999999999999999888888887776654321 358999999999986432  222222111     1224


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|++++|.++.+.+.++.
T Consensus       137 ~~~~evSa~~~~~i~~~f~~l~~~~~~~~  165 (188)
T cd04125         137 IPFFETSAKQSINVEEAFILLVKLIIKRL  165 (188)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            47899999999999999999999887654

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.72  E-value=8.7e-17  Score=95.09  Aligned_cols=98  Identities=12%  Similarity=0.094  Sum_probs=69.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCC------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLH------   73 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~------   73 (110)
                      |+.+|..+++++|++|+|+|.+++.++..... |+..+...  ..+.|+++|+||+|+.+...   ..+.+...      
T Consensus        62 ~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~--~~~~piilvgnK~Dl~~~~~---~~~~l~~~~~~~v~  136 (175)
T cd01874          62 YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH--CPKTPFLLVGTQIDLRDDPS---TIEKLAKNKQKPIT  136 (175)
T ss_pred             hhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEECHhhhhChh---hHHHhhhccCCCcC
Confidence            35678889999999999999999989988764 65554332  24689999999999854311   00001000      


Q ss_pred             ------cccCc-ceEEEeeecccCCCHHHHHHHHHHH
Q 044598           74 ------SLRQR-HWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        74 ------~~~~~-~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                            ..... .+.++++||++|.|++++|+.++..
T Consensus       137 ~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~  173 (175)
T cd01874         137 PETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILA  173 (175)
T ss_pred             HHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHH
Confidence                  00112 3579999999999999999998875

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

>cd01868 Rab11_like Rab11-like

Probab=99.72  E-value=1.8e-16  Score=92.55  Aligned_cols=97  Identities=19%  Similarity=0.290  Sum_probs=73.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+++.++++++++++|+|++++.++.....|+..+..... .+.|+++|+||+|+....  ..++......     ..+
T Consensus        66 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~-----~~~  139 (165)
T cd01868          66 RAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTEEAKAFAE-----KNG  139 (165)
T ss_pred             HHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECccccccccCCHHHHHHHHH-----HcC
Confidence            45778899999999999999998888888888877654422 368999999999986432  2223222211     234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||++|+|++++++++.+.+
T Consensus       140 ~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         140 LSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998764

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.72  E-value=1e-16  Score=93.40  Aligned_cols=94  Identities=12%  Similarity=0.216  Sum_probs=70.0

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----CCHHHHHhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----MNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ..|++.+|++++|+|.+++.++.....|+..+.......+.|+++|+||.|+...    ...++..+...    ....+.
T Consensus        60 ~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~  135 (158)
T cd04103          60 AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCA----DMKRCS  135 (158)
T ss_pred             hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHH----HhCCCc
Confidence            3577899999999999999999998888887765544457899999999998421    12222211110    112468


Q ss_pred             EEeeecccCCCHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +++|||++|.|++++|..+.+.
T Consensus       136 ~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         136 YYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             EEEEecCCCCCHHHHHHHHHhh
Confidence            9999999999999999998864

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.72  E-value=8.4e-17  Score=96.66  Aligned_cols=93  Identities=9%  Similarity=0.018  Sum_probs=67.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCC---------------------C
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNA---------------------M   61 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~---------------------~   61 (110)
                      +.+.|+++||++|+|+|.+++.++.... .|+..+...  ..+.|+++|+||+|+...                     .
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V  157 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHF--CPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADIL  157 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhccccccchhhhcccccccccccCCcc
Confidence            3456899999999999999999998886 466655332  146899999999998531                     1


Q ss_pred             CHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           62 NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ..++....     ....+.++++|||++|+|++++|+.+++.
T Consensus       158 ~~~e~~~~-----a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         158 PPETGRAV-----AKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CHHHHHHH-----HHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            12222111     12234589999999999999999998764

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.72  E-value=2.4e-16  Score=94.89  Aligned_cols=100  Identities=18%  Similarity=0.256  Sum_probs=76.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..++++++++++|+|++++.++.....|+..+....  ...|+++|+||+|+.+..  ..++.....     ...
T Consensus        68 ~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~--~~~piivVgNK~Dl~~~~~~~~~~~~~~~-----~~~  140 (199)
T cd04110          68 FRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC--DDVCKVLVGNKNDDPERKVVETEDAYKFA-----GQM  140 (199)
T ss_pred             HHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            35678999999999999999999999988888887764432  468999999999986542  222222211     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||++|.|++++|+++.+.+...
T Consensus       141 ~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~  169 (199)
T cd04110         141 GISLFETSAKENINVEEMFNCITELVLRA  169 (199)
T ss_pred             CCEEEEEECCCCcCHHHHHHHHHHHHHHh
Confidence            35789999999999999999999988653

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.72  E-value=2.6e-16  Score=92.38  Aligned_cols=99  Identities=17%  Similarity=0.225  Sum_probs=76.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|++++.++.....|+..+.... .++.|+++|+||.|+.+..  ..++.....     ...+
T Consensus        67 ~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  140 (168)
T cd01866          67 RSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHS-NSNMTIMLIGNKCDLESRREVSYEEGEAFA-----KEHG  140 (168)
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHH-----HHcC
Confidence            4567889999999999999999989988888887765442 2579999999999986432  233332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..++++||++++|++++|.++.+.+..
T Consensus       141 ~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         141 LIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            578999999999999999999988754

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.71  E-value=3.6e-16  Score=96.94  Aligned_cols=99  Identities=16%  Similarity=0.141  Sum_probs=75.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC--------CCCCCeEEEEeeCCCCCC--CCCHHHHHhhhC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED--------ELRDAVLLVFANKQDLPN--AMNAAEITDKLG   71 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~iiv~nK~Dl~~--~~~~~~~~~~~~   71 (110)
                      +.++..++.++|++|+|+|.+++.+++....|+..+....        ...+.|+++|+||+|+..  ....+++.+..+
T Consensus        62 ~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~  141 (247)
T cd04143          62 PAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVG  141 (247)
T ss_pred             hHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHH
Confidence            4577788999999999999999989988877777765421        224789999999999964  233444444432


Q ss_pred             CCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           72 LHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        72 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .    .....++++||++|.|++++|.+|.+..
T Consensus       142 ~----~~~~~~~evSAktg~gI~elf~~L~~~~  170 (247)
T cd04143         142 G----DENCAYFEVSAKKNSNLDEMFRALFSLA  170 (247)
T ss_pred             h----cCCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            1    1245789999999999999999998864

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

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

Probab=99.71  E-value=1.4e-16  Score=94.58  Aligned_cols=100  Identities=15%  Similarity=0.278  Sum_probs=79.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ||.+...||++|.++++|+|.+...+++....|+.++..+.+ .++++++|+||+||...  .+.++....-     ...
T Consensus        76 yrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad-~nivimLvGNK~DL~~lraV~te~~k~~A-----e~~  149 (222)
T KOG0087|consen   76 YRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHAD-SNIVIMLVGNKSDLNHLRAVPTEDGKAFA-----EKE  149 (222)
T ss_pred             hccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCC-CCeEEEEeecchhhhhccccchhhhHhHH-----Hhc
Confidence            577888999999999999999998899999999999877654 68999999999999652  2333322211     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...++++||..+.|+++.|..+...+-+
T Consensus       150 ~l~f~EtSAl~~tNVe~aF~~~l~~I~~  177 (222)
T KOG0087|consen  150 GLFFLETSALDATNVEKAFERVLTEIYK  177 (222)
T ss_pred             CceEEEecccccccHHHHHHHHHHHHHH
Confidence            4578899999999999999888877643

>cd04140 ARHI_like ARHI subfamily

Probab=99.71  E-value=2e-16  Score=92.58  Aligned_cols=97  Identities=13%  Similarity=0.146  Sum_probs=70.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC--CCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE--DELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~--~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~   76 (110)
                      |+.++..++++++++++|+|.++++++.....|+..+...  ....+.|+++|+||+|+.+..  ..++....     ..
T Consensus        62 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~-----~~  136 (165)
T cd04140          62 FPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAAC-----AT  136 (165)
T ss_pred             chHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHH-----HH
Confidence            3457788999999999999999988888777766544322  122578999999999996532  12221111     11


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ....+++++||++|.|++++|++|..
T Consensus       137 ~~~~~~~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140         137 EWNCAFMETSAKTNHNVQELFQELLN  162 (165)
T ss_pred             HhCCcEEEeecCCCCCHHHHHHHHHh
Confidence            22357899999999999999999975

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.71  E-value=3.6e-16  Score=91.38  Aligned_cols=97  Identities=18%  Similarity=0.234  Sum_probs=72.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++......    ....
T Consensus        66 ~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~----~~~~  140 (165)
T cd01864          66 RTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYG-ASNVVLLLIGNKCDLEEQREVLFEEACTLAE----KNGM  140 (165)
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHH----HcCC
Confidence            4578889999999999999999988888877877765432 2578999999999986442  2222222111    1122


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ..++++||++|.|++++++++.+.
T Consensus       141 ~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         141 LAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHh
Confidence            367899999999999999999875

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.

>PLN03108 Rab family protein; Provisional

Probab=99.71  E-value=3.5e-16  Score=94.95  Aligned_cols=100  Identities=17%  Similarity=0.240  Sum_probs=75.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++++||+|+....  ..++.....     ...+
T Consensus        69 ~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  142 (210)
T PLN03108         69 RSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHA-NANMTIMLIGNKCDLAHRRAVSTEEGEQFA-----KEHG  142 (210)
T ss_pred             HHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCccccCCCHHHHHHHH-----HHcC
Confidence            4578889999999999999999988888777777654332 2478999999999986532  223322221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||+++.|++++|.++.+.+..+
T Consensus       143 ~~~~e~Sa~~~~~v~e~f~~l~~~~~~~  170 (210)
T PLN03108        143 LIFMEASAKTAQNVEEAFIKTAAKIYKK  170 (210)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            5789999999999999999999888654

>cd04116 Rab9 Rab9 subfamily

Probab=99.71  E-value=4.1e-16  Score=91.51  Aligned_cols=99  Identities=11%  Similarity=0.185  Sum_probs=73.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC---CCCCeEEEEeeCCCCCCC-CCHHHHHhhhCCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE---LRDAVLLVFANKQDLPNA-MNAAEITDKLGLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~---~~~~~~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~~   76 (110)
                      |+.+|..+++++|++++|+|.+++.++.....|...+.....   ..+.|+++|+||+|+.+. ...++..+....    
T Consensus        67 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----  142 (170)
T cd04116          67 FRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCRE----  142 (170)
T ss_pred             HHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHHH----
Confidence            356888999999999999999998888887777766654321   246899999999998542 233333332210    


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ....+++++||++|.|+.++|.++.+.
T Consensus       143 ~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         143 NGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            122478899999999999999999865

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

>PLN03110 Rab GTPase; Provisional

Probab=99.71  E-value=3.6e-16  Score=95.28  Aligned_cols=100  Identities=16%  Similarity=0.225  Sum_probs=76.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..++++++++++|+|++++.+++....|+..+.... ..+.|+++|+||+|+....  ..++.. .+.    ...
T Consensus        74 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~-~l~----~~~  147 (216)
T PLN03110         74 YRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHA-DSNIVIMMAGNKSDLNHLRSVAEEDGQ-ALA----EKE  147 (216)
T ss_pred             HHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhC-CCCCeEEEEEEChhcccccCCCHHHHH-HHH----HHc
Confidence            35678899999999999999999888888888877765432 2479999999999985432  222222 221    123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++++++||++|.|++++|+++.+.+.+
T Consensus       148 ~~~~~e~SA~~g~~v~~lf~~l~~~i~~  175 (216)
T PLN03110        148 GLSFLETSALEATNVEKAFQTILLEIYH  175 (216)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999988754

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.71  E-value=2.8e-16  Score=93.56  Aligned_cols=99  Identities=12%  Similarity=0.086  Sum_probs=72.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCC------CHHHHHhhhCCCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAM------NAAEITDKLGLHS   74 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------~~~~~~~~~~~~~   74 (110)
                      ..+++.+++++|++++|+|.+++.+++.... |+..+...  ..+.|+++|+||+|+....      ..++..+..    
T Consensus        63 ~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~----  136 (187)
T cd04132          63 DRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHF--CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVA----  136 (187)
T ss_pred             HHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHH----
Confidence            4577889999999999999999888887753 55544322  2478999999999985432      122222211    


Q ss_pred             ccCcce-EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           75 LRQRHW-YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        75 ~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       ...+. +++++||++|.|++++|..+.+.+...
T Consensus       137 -~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  169 (187)
T cd04132         137 -KKQGAFAYLECSAKTMENVEEVFDTAIEEALKK  169 (187)
T ss_pred             -HHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhh
Confidence             11222 788999999999999999999888654

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.70  E-value=4.2e-16  Score=91.68  Aligned_cols=94  Identities=20%  Similarity=0.137  Sum_probs=68.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-----HHHHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-----AAEITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-----~~~~~~~~~~~~~~   76 (110)
                      +.++..|+++||++++|+|++++.++.....|+..+..   ..+.|+++|+||+|+.+...     .+++...++.    
T Consensus        68 ~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~---~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~----  140 (169)
T cd01892          68 ILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFM---LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGL----  140 (169)
T ss_pred             cccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhcc---CCCCeEEEEEEcccccccccccccCHHHHHHHcCC----
Confidence            45788899999999999999998888776666654422   14689999999999854321     1222222221    


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                         ..++++||++|.|++++|+.+.+.+.
T Consensus       141 ---~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         141 ---PPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             ---CCCEEEEeccCccHHHHHHHHHHHhh
Confidence               12468999999999999999988764

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.70  E-value=4.2e-16  Score=90.92  Aligned_cols=96  Identities=16%  Similarity=0.258  Sum_probs=72.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+++.+++++|++++|+|++++.++.....|+..+....  .+.|+++|+||+|+.+..  ...... .+.    ...+
T Consensus        66 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~-~~~----~~~~  138 (164)
T cd04101          66 SDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS--KHMPGVLVGNKMDLADKAEVTDAQAQ-AFA----QANQ  138 (164)
T ss_pred             HHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccCCCHHHHH-HHH----HHcC
Confidence            4578899999999999999999888887777777665432  468999999999986543  221111 111    1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||++|.|++++++++.+..
T Consensus       139 ~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         139 LKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             CeEEEEeCCCCCChHHHHHHHHHHh
Confidence            4788999999999999999998865

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.70  E-value=5.4e-16  Score=93.29  Aligned_cols=100  Identities=17%  Similarity=0.154  Sum_probs=74.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC---CHHHHHhhhCCCcccCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM---NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~   78 (110)
                      +.+++.+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+..   ..+.......    ...
T Consensus        61 ~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~----~~~  136 (198)
T cd04147          61 PAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVE----LDW  136 (198)
T ss_pred             hHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHH----hhc
Confidence            457788999999999999999988888887777766654333579999999999985421   1222211111    012


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++||++|.|++++++++.+.+.
T Consensus       137 ~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         137 NCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            346889999999999999999998764

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.70  E-value=6.1e-16  Score=90.07  Aligned_cols=97  Identities=18%  Similarity=0.288  Sum_probs=74.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|+++++++.....|+..+..... .+.|+++++||+|+....  +.++......     ...
T Consensus        64 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~  137 (163)
T cd01860          64 RSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNAS-PNIIIALVGNKADLESKRQVSTEEAQEYAD-----ENG  137 (163)
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECccccccCcCCHHHHHHHHH-----HcC
Confidence            45778899999999999999999888888888877765433 578999999999986322  2333322211     123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||++|.|+.+++.++.+.+
T Consensus       138 ~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         138 LLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999875

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04113 Rab4 Rab4 subfamily

Probab=99.70  E-value=4.7e-16  Score=90.51  Aligned_cols=96  Identities=20%  Similarity=0.242  Sum_probs=73.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+++.+++++|++++|+|++++.++.....|+..+.... .++.|+++++||+|+....  ..++......     ..+
T Consensus        63 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~  136 (161)
T cd04113          63 RSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALA-SPNIVVILVGNKSDLADQREVTFLEASRFAQ-----ENG  136 (161)
T ss_pred             HHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEchhcchhccCCHHHHHHHHH-----HcC
Confidence            4567889999999999999999988888877777654332 2578999999999986432  2333322221     223


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +.++++||+++.|++++++++.+.
T Consensus       137 ~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         137 LLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            689999999999999999999875

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.70  E-value=7.7e-16  Score=89.59  Aligned_cols=100  Identities=18%  Similarity=0.253  Sum_probs=74.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++.++++++|+|.+++.++.....++..+.......+.|+++|+||+|+.+.  ...++.....     ....
T Consensus        62 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~-----~~~~  136 (164)
T cd04139          62 AAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLA-----RQWG  136 (164)
T ss_pred             hHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHH-----HHhC
Confidence            45678899999999999999998888777777777665433357999999999998652  2222222211     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|+|++++++++.+.+..
T Consensus       137 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~  163 (164)
T cd04139         137 VPYVETSAKTRQNVEKAFYDLVREIRQ  163 (164)
T ss_pred             CeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            478999999999999999999987753

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.70  E-value=3.9e-16  Score=91.86  Aligned_cols=98  Identities=10%  Similarity=0.060  Sum_probs=71.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--------------HHHH
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN--------------AAEI   66 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--------------~~~~   66 (110)
                      +.+++.+++++|++|+|+|.++++++.... .|+..+...  .++.|+++|+||+|+.....              .++.
T Consensus        60 ~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  137 (174)
T smart00174       60 DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHF--CPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQG  137 (174)
T ss_pred             chhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHH
Confidence            457788999999999999999998888775 466555433  25799999999999864221              1111


Q ss_pred             HhhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           67 TDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        67 ~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...     ....+ .+++++||++|.|++++|..+.+.+.+
T Consensus       138 ~~~-----~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~~  173 (174)
T smart00174      138 EAL-----AKRIGAVKYLECSALTQEGVREVFEEAIRAALN  173 (174)
T ss_pred             HHH-----HHHcCCcEEEEecCCCCCCHHHHHHHHHHHhcC
Confidence            111     01122 378899999999999999999987643

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.70  E-value=5.8e-16  Score=90.07  Aligned_cols=97  Identities=24%  Similarity=0.314  Sum_probs=73.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   80 (110)
                      ..++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.... ..++.....     .....
T Consensus        63 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~-----~~~~~  137 (161)
T cd01863          63 RTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFA-----RKHNM  137 (161)
T ss_pred             hhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHH-----HHcCC
Confidence            356788899999999999999988888877777666554444579999999999996332 233322221     12345


Q ss_pred             EEEeeecccCCCHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +++++||++|+|++++++++.+.
T Consensus       138 ~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         138 LFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             EEEEEecCCCCCHHHHHHHHHHh
Confidence            79999999999999999998765

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.69  E-value=6.6e-16  Score=94.35  Aligned_cols=105  Identities=10%  Similarity=0.088  Sum_probs=70.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHH--------HhhhC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEI--------TDKLG   71 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~--------~~~~~   71 (110)
                      |+.+++.+|+++|++|+|+|.+++++++....+|....... .++.|+++|+||+|+.+... ....        ....+
T Consensus        62 ~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~-~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g  140 (222)
T cd04173          62 YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEF-CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQG  140 (222)
T ss_pred             HHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHH
Confidence            45678899999999999999999999988854444333222 25799999999999964311 0000        00000


Q ss_pred             CCcccCcc-eEEEeeecccCCC-HHHHHHHHHHHHHh
Q 044598           72 LHSLRQRH-WYIQSTCATSGEG-LYEGLDWLSNNIAN  106 (110)
Q Consensus        72 ~~~~~~~~-~~~~~~Sa~~~~~-i~~l~~~l~~~~~~  106 (110)
                      .......+ ..+++|||+++++ ++++|.........
T Consensus       141 ~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~  177 (222)
T cd04173         141 TVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLG  177 (222)
T ss_pred             HHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHh
Confidence            00011223 3799999999985 99999988886654

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.69  E-value=8.1e-16  Score=92.62  Aligned_cols=98  Identities=12%  Similarity=0.067  Sum_probs=71.7

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC--CCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED--ELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~--~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ..++++||++++|+|++++.+++....|+..+....  ...++|+++|+||+|+.+..  ..++......    .....+
T Consensus        75 ~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~----~~~~~~  150 (198)
T cd04142          75 FRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVR----KSWKCG  150 (198)
T ss_pred             HhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHH----HhcCCc
Confidence            345789999999999999989988877777665432  12579999999999995532  2222221111    123457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++|+.+.+.+..+
T Consensus       151 ~~e~Sak~g~~v~~lf~~i~~~~~~~  176 (198)
T cd04142         151 YLECSAKYNWHILLLFKELLISATTR  176 (198)
T ss_pred             EEEecCCCCCCHHHHHHHHHHHhhcc
Confidence            89999999999999999999877543

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.69  E-value=6.1e-16  Score=89.99  Aligned_cols=95  Identities=16%  Similarity=0.240  Sum_probs=71.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|+++++++.....|+..+...  ..+.|+++|+||+|+....  ..++.....     ...+
T Consensus        65 ~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~--~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  137 (162)
T cd04106          65 DAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAE--CGDIPMVLVQTKIDLLDQAVITNEEAEALA-----KRLQ  137 (162)
T ss_pred             HHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhcccccCCCHHHHHHHH-----HHcC
Confidence            467889999999999999999998888877777665432  2479999999999986432  222322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++++++||++|.|+++++.++...
T Consensus       138 ~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         138 LPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            478999999999999999998764

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.69  E-value=1.4e-15  Score=89.23  Aligned_cols=103  Identities=11%  Similarity=0.129  Sum_probs=74.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC---CCCCCeEEEEeeCCCCCC--CCCHHHHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED---ELRDAVLLVFANKQDLPN--AMNAAEITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~~~~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~~   76 (110)
                      ..+|..+++++|++|+|+|+.++.++.....|...++...   ...+.|+++|+||+|+..  ....++.......    
T Consensus        63 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~----  138 (172)
T cd01862          63 QSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQS----  138 (172)
T ss_pred             HhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHH----
Confidence            4578899999999999999998887776666655544331   123789999999999963  2233333332211    


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ....+++++||++|.|++++++++.+.+.+..
T Consensus       139 ~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~  170 (172)
T cd01862         139 NGNIPYFETSAKEAINVEQAFETIARKALEQE  170 (172)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            12357899999999999999999998877653

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-

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.69  E-value=6.6e-16  Score=90.80  Aligned_cols=98  Identities=13%  Similarity=0.209  Sum_probs=73.9

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~   80 (110)
                      .+++.+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+...  .++.. .+.    ....+
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~----~~~~~  141 (170)
T cd04115          67 SMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQ-RFA----DAHSM  141 (170)
T ss_pred             hhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHH-HHH----HHcCC
Confidence            467889999999999999999989988888877665443335799999999999865432  22221 111    12235


Q ss_pred             EEEeeeccc---CCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATS---GEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~---~~~i~~l~~~l~~~~~  105 (110)
                      +++++||++   +.|++++|..+.+.+.
T Consensus       142 ~~~e~Sa~~~~~~~~i~~~f~~l~~~~~  169 (170)
T cd04115         142 PLFETSAKDPSENDHVEAIFMTLAHKLK  169 (170)
T ss_pred             cEEEEeccCCcCCCCHHHHHHHHHHHhh
Confidence            789999999   8999999999988763

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.69  E-value=1.2e-15  Score=88.57  Aligned_cols=97  Identities=21%  Similarity=0.280  Sum_probs=72.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..+++.+++++|++++|+|+++++++.....|+..+..... .+.|+++++||+|+....  ..+++....     ...+
T Consensus        63 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piiiv~nK~D~~~~~~~~~~~~~~~~-----~~~~  136 (162)
T cd04123          63 HALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRG-NNISLVIVGNKIDLERQRVVSKSEAEEYA-----KSVG  136 (162)
T ss_pred             HHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccCCCHHHHHHHH-----HHcC
Confidence            45788899999999999999998888777777666544322 368999999999986432  223332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||+++.|++++++++.+.+
T Consensus       137 ~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         137 AKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999998765

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.68  E-value=1.2e-15  Score=88.80  Aligned_cols=98  Identities=17%  Similarity=0.297  Sum_probs=74.9

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..+++.+|++++|+|++++.++.....|+..+..... .+.|+++++||+|+.+..  ..+......     ...++
T Consensus        64 ~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~-~~~pivvv~nK~D~~~~~~~~~~~~~~~~-----~~~~~  137 (164)
T smart00175       64 SITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYAD-PNVVIMLVGNKSDLEDQRQVSREEAEAFA-----EEHGL  137 (164)
T ss_pred             HHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEEchhcccccCCCHHHHHHHH-----HHcCC
Confidence            4678899999999999999998888887777776654432 479999999999986532  223332221     12235


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++||++|.|++++++++.+.+.+
T Consensus       138 ~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      138 PFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            78999999999999999999988764

Rab GTPases are implicated in vesicle trafficking.

>cd04177 RSR1 RSR1 subgroup

Probab=99.68  E-value=1.1e-15  Score=89.64  Aligned_cols=101  Identities=15%  Similarity=0.158  Sum_probs=74.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.++++++++++|+|.+++.+++....|...+.......+.|+++++||.|+.+..  ..++......    ...
T Consensus        62 ~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~----~~~  137 (168)
T cd04177          62 FTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQ----QWG  137 (168)
T ss_pred             chhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHH----HcC
Confidence            4678999999999999999999988888877776665543333579999999999986433  2222211110    111


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++||+++.|++++|+++.+++.
T Consensus       138 ~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         138 NVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            257899999999999999999998663

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

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.68  E-value=2.4e-16  Score=90.17  Aligned_cols=103  Identities=15%  Similarity=0.291  Sum_probs=82.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ||++.-.++++|-++++++|.+++.++-....|+..+..+.-..++.+++++||+|+.+..  +.++....     ....
T Consensus        80 FRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~L-----a~ky  154 (219)
T KOG0081|consen   80 FRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAAL-----ADKY  154 (219)
T ss_pred             HHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHH-----HHHh
Confidence            6888899999999999999999999999999999887666544567899999999997654  22222221     1234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++|++++||-+|.|+++..+.+...+.+++
T Consensus       155 glPYfETSA~tg~Nv~kave~LldlvM~Ri  184 (219)
T KOG0081|consen  155 GLPYFETSACTGTNVEKAVELLLDLVMKRI  184 (219)
T ss_pred             CCCeeeeccccCcCHHHHHHHHHHHHHHHH
Confidence            568999999999999999999998888765

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

Probab=99.68  E-value=3.5e-16  Score=88.49  Aligned_cols=100  Identities=17%  Similarity=0.243  Sum_probs=80.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ||.+...||++.++++.|+|.++.++|.....|+.++....  ...|-++|+||+|.++..  ..++....     ....
T Consensus        70 Frtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~nc--dsv~~vLVGNK~d~~~RrvV~t~dAr~~-----A~~m  142 (198)
T KOG0079|consen   70 FRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNC--DSVPKVLVGNKNDDPERRVVDTEDARAF-----ALQM  142 (198)
T ss_pred             HHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcC--ccccceecccCCCCccceeeehHHHHHH-----HHhc
Confidence            57788999999999999999999999999999999986553  478999999999987653  22332222     1245


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++.+|++||+..+|++++|.-|.++....
T Consensus       143 gie~FETSaKe~~NvE~mF~cit~qvl~~  171 (198)
T KOG0079|consen  143 GIELFETSAKENENVEAMFHCITKQVLQA  171 (198)
T ss_pred             CchheehhhhhcccchHHHHHHHHHHHHH
Confidence            66889999999999999999998887654

>cd04118 Rab24 Rab24 subfamily

Probab=99.68  E-value=3.8e-16  Score=93.44  Aligned_cols=99  Identities=14%  Similarity=0.208  Sum_probs=73.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------CHHHHHhhhCCCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM------NAAEITDKLGLHSL   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------~~~~~~~~~~~~~~   75 (110)
                      +.++..+++++|++++|+|++++.++.....|+..+....  .+.|+++|+||+|+.+..      ..+++....     
T Consensus        64 ~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~-----  136 (193)
T cd04118          64 EAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLE--EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFA-----  136 (193)
T ss_pred             hhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcC--CCCCEEEEEEcccccccccccCccCHHHHHHHH-----
Confidence            4678889999999999999999888887777777664431  468999999999985321      111222111     


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .....+++++||++|.|++++++++.+.+.+.
T Consensus       137 ~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  168 (193)
T cd04118         137 DEIKAQHFETSSKTGQNVDELFQKVAEDFVSR  168 (193)
T ss_pred             HHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            12235788999999999999999999887543

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

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.68  E-value=8.2e-16  Score=88.30  Aligned_cols=102  Identities=23%  Similarity=0.360  Sum_probs=80.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCC-CCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-DAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~   77 (110)
                      ||++.++||+++-++++|+|.++..+++....|+.+.......+ .+-+++|+.|+|+....  ..++ .+++    ...
T Consensus        71 frsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EE-aEkl----Aa~  145 (213)
T KOG0091|consen   71 FRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEE-AEKL----AAS  145 (213)
T ss_pred             HHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHH-HHHH----HHh
Confidence            68899999999999999999999999999999998765443323 35588999999997554  2333 2222    234


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+..++++||++|.|+++.|..+.+.+-.+
T Consensus       146 hgM~FVETSak~g~NVeEAF~mlaqeIf~~  175 (213)
T KOG0091|consen  146 HGMAFVETSAKNGCNVEEAFDMLAQEIFQA  175 (213)
T ss_pred             cCceEEEecccCCCcHHHHHHHHHHHHHHH
Confidence            566899999999999999999988877544

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

Probab=99.67  E-value=9.3e-16  Score=89.45  Aligned_cols=102  Identities=11%  Similarity=0.133  Sum_probs=80.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC---CCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE---LRDAVLLVFANKQDLPNAM----NAAEITDKLGLH   73 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~---~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~   73 (110)
                      |+++-..+|++||++++++|..++.+++.+..|-.+++....   ...-|++|++||+|+.+..    +.....+++.  
T Consensus        71 FqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~--  148 (210)
T KOG0394|consen   71 FQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCK--  148 (210)
T ss_pred             hhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHH--
Confidence            456667899999999999999999999999888888876533   1257999999999997643    2333344432  


Q ss_pred             cccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           74 SLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                        .+..++++++||+...||++.|..+.+..+.
T Consensus       149 --s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~  179 (210)
T KOG0394|consen  149 --SKGNIPYFETSAKEATNVDEAFEEIARRALA  179 (210)
T ss_pred             --hcCCceeEEecccccccHHHHHHHHHHHHHh
Confidence              2457799999999999999999998887653

>cd01861 Rab6 Rab6 subfamily

Probab=99.67  E-value=1.6e-15  Score=88.14  Aligned_cols=96  Identities=19%  Similarity=0.288  Sum_probs=72.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|+++++++.....|+..+..... .+.|+++++||+|+....  ..++.....     ...+
T Consensus        63 ~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~-----~~~~  136 (161)
T cd01861          63 RSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERG-NDVIIVLVGNKTDLSDKRQVSTEEGEKKA-----KELN  136 (161)
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEEChhccccCccCHHHHHHHH-----HHhC
Confidence            45688899999999999999999889888888877654422 369999999999994332  222222221     1223


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      .+++++||+++.|++++++++.+.
T Consensus       137 ~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         137 AMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHh
Confidence            678899999999999999999875

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

>PLN03118 Rab family protein; Provisional

Probab=99.67  E-value=2.9e-15  Score=90.90  Aligned_cols=101  Identities=21%  Similarity=0.285  Sum_probs=72.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~   77 (110)
                      |+.+|..+++++|++++|+|+++++++......+...+.. ....+.|+++|+||+|+.....  .++.....     ..
T Consensus        75 ~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~-----~~  149 (211)
T PLN03118         75 FRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALA-----KE  149 (211)
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHH-----HH
Confidence            3567899999999999999999988888776544333322 2224679999999999864332  22222211     12


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+..++++||+++.|++++++++.+.+..
T Consensus       150 ~~~~~~e~SAk~~~~v~~l~~~l~~~~~~  178 (211)
T PLN03118        150 HGCLFLECSAKTRENVEQCFEELALKIME  178 (211)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            34578999999999999999999988754

>cd04148 RGK RGK subfamily

Probab=99.67  E-value=2.5e-15  Score=91.89  Aligned_cols=96  Identities=18%  Similarity=0.166  Sum_probs=71.1

Q ss_pred             HHhcc-cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceEE
Q 044598            6 RHYFQ-NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         6 ~~~~~-~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      ..++. ++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ..++... +.    ...+.++
T Consensus        66 ~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~-~a----~~~~~~~  140 (221)
T cd04148          66 DSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRA-CA----VVFDCKF  140 (221)
T ss_pred             hHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHH-HH----HHcCCeE
Confidence            44566 999999999999998888877777766544333579999999999985432  2222211 11    1223578


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++||++|.|++++|+++.+.+..
T Consensus       141 ~e~SA~~~~gv~~l~~~l~~~~~~  164 (221)
T cd04148         141 IETSAGLQHNVDELLEGIVRQIRL  164 (221)
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHh
Confidence            899999999999999999998863

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.67  E-value=1.7e-15  Score=88.50  Aligned_cols=98  Identities=14%  Similarity=0.149  Sum_probs=70.3

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC-CCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE-LRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..+..+++.+|++++|+|++++.+++....|+..+..... ..+.|+++|+||+|+....  ..++.....     ...+
T Consensus        63 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  137 (165)
T cd04146          63 EQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLA-----SELG  137 (165)
T ss_pred             chHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHH-----HHcC
Confidence            3567789999999999999999888877766655443221 2479999999999985432  222221111     1123


Q ss_pred             eEEEeeecccC-CCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSG-EGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~-~~i~~l~~~l~~~~~  105 (110)
                      .+++++||++| .|++++|.++.+.+.
T Consensus       138 ~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         138 CLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            47899999999 599999999988664

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.66  E-value=1.8e-15  Score=88.06  Aligned_cols=97  Identities=21%  Similarity=0.298  Sum_probs=76.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC--CCCHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN--AMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..+++++|++|+|+|.+++++++....|+..+..... .+.|+++++||.|+..  ..+.++.....     ...+.
T Consensus        63 ~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~-~~~~iivvg~K~D~~~~~~v~~~~~~~~~-----~~~~~  136 (162)
T PF00071_consen   63 SLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKP-EDIPIIVVGNKSDLSDEREVSVEEAQEFA-----KELGV  136 (162)
T ss_dssp             HHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHST-TTSEEEEEEETTTGGGGSSSCHHHHHHHH-----HHTTS
T ss_pred             cccccccccccccccccccccccccccccccccccccccc-ccccceeeeccccccccccchhhHHHHHH-----HHhCC
Confidence            4567889999999999999999999999888887765433 4689999999999875  33444433322     12236


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++||+++.|+.++|..+.+.+.
T Consensus       137 ~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  137 PYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             EEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            8999999999999999999998874

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 ....

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

Probab=99.66  E-value=4.7e-16  Score=89.04  Aligned_cols=101  Identities=24%  Similarity=0.310  Sum_probs=77.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ||.+.++||++|.++|+|+|.+..+++..+..|+.++-....-+++-.++|+||+|....  .+.++     ++...+..
T Consensus        73 FRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reE-----G~kfAr~h  147 (209)
T KOG0080|consen   73 FRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREE-----GLKFARKH  147 (209)
T ss_pred             hhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHH-----HHHHHHhh
Confidence            788999999999999999999999999888888887754433356678899999997522  22222     11112344


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..-++++||++.+|+...|+.+...+.+
T Consensus       148 ~~LFiE~SAkt~~~V~~~FeelveKIi~  175 (209)
T KOG0080|consen  148 RCLFIECSAKTRENVQCCFEELVEKIIE  175 (209)
T ss_pred             CcEEEEcchhhhccHHHHHHHHHHHHhc
Confidence            5678899999999999999999887754

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.66  E-value=4.2e-16  Score=89.09  Aligned_cols=100  Identities=20%  Similarity=0.258  Sum_probs=74.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |..+-+.||++++++++|+|.++.++|...+.|..++..... ..+.++||+||+|+.+..  ..++....     ..+-
T Consensus        75 fHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlG-nei~l~IVGNKiDLEeeR~Vt~qeAe~Y-----Aesv  148 (218)
T KOG0088|consen   75 FHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLG-NEIELLIVGNKIDLEEERQVTRQEAEAY-----AESV  148 (218)
T ss_pred             hhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhC-CeeEEEEecCcccHHHhhhhhHHHHHHH-----HHhh
Confidence            345567899999999999999999999999999888754422 357899999999996543  22222211     1123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +..++++||+.+.||.++|+.+.....+
T Consensus       149 GA~y~eTSAk~N~Gi~elFe~Lt~~MiE  176 (218)
T KOG0088|consen  149 GALYMETSAKDNVGISELFESLTAKMIE  176 (218)
T ss_pred             chhheecccccccCHHHHHHHHHHHHHH
Confidence            4467799999999999999988776544

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.66  E-value=4.1e-15  Score=88.03  Aligned_cols=102  Identities=17%  Similarity=0.173  Sum_probs=76.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..++..++++++|+|.++..++.....++..+.......+.|+++++||+|+....  ..++.....     ...
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~-----~~~  136 (180)
T cd04137          62 YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELA-----ESW  136 (180)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHH-----HHc
Confidence            3567888999999999999999988888887777777654333568999999999986422  222222111     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+++++||+++.|+.+++.++.+.+...
T Consensus       137 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  165 (180)
T cd04137         137 GAAFLESSARENENVEEAFELLIEEIEKV  165 (180)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            35788999999999999999999888654

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.65  E-value=1.2e-15  Score=89.32  Aligned_cols=100  Identities=11%  Similarity=0.090  Sum_probs=69.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~   76 (110)
                      +..+..+++++|++++|+|++++.++..... |+..+... . .+.|+++|+||+|+.+....    +.+.....  .. 
T Consensus        61 ~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~-~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~-  135 (166)
T cd01893          61 RANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRL-G-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMN--EF-  135 (166)
T ss_pred             hHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-C-CCCCEEEEEEchhcccccchhHHHHHHHHHHH--HH-
Confidence            3456778899999999999999888887653 44433322 2 37899999999999654321    11111100  01 


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ....+++++||++|.|++++|..+.+.+..
T Consensus       136 ~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         136 REIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             hcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            111368899999999999999999887653

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.64  E-value=4.3e-15  Score=87.44  Aligned_cols=101  Identities=10%  Similarity=0.065  Sum_probs=68.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS------   74 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~------   74 (110)
                      +.++..+++++|++++|+|.+++.++..... |+..+...  ..+.|+++++||+|+.+...............      
T Consensus        62 ~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~--~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  139 (174)
T cd04135          62 DRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY--APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQG  139 (174)
T ss_pred             cccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHH
Confidence            4577888999999999999999888877754 44433322  35799999999999854321111000000000      


Q ss_pred             ---ccCcc-eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           75 ---LRQRH-WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        75 ---~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                         ....+ .+++++||++|.|++++|+.+.+.+
T Consensus       140 ~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         140 QKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             HHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence               01112 3688999999999999999998764

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.64  E-value=4.9e-16  Score=91.58  Aligned_cols=95  Identities=9%  Similarity=0.070  Sum_probs=67.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~   65 (110)
                      |+.+|..+++++|++++|+|.+++.++.... .|+..+...  ..+.|+++++||+|+....              ..++
T Consensus        61 ~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  138 (173)
T cd04130          61 FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH--NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSR  138 (173)
T ss_pred             hccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHH
Confidence            3457788999999999999999998887764 455554432  2468999999999985432              1111


Q ss_pred             HHhhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHH
Q 044598           66 ITDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        66 ~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ....     ....+ .+++++||++|.|++++|+.+.-
T Consensus       139 ~~~~-----a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         139 AKAL-----AEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             HHHH-----HHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            1111     01122 37899999999999999988753

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,

>cd00154 Rab Rab family

Probab=99.63  E-value=8e-15  Score=84.51  Aligned_cols=94  Identities=20%  Similarity=0.302  Sum_probs=72.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC--CCCCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP--NAMNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~   79 (110)
                      ++.+..+++++|++++|+|+++++++.....|+..+..... .+.|+++++||+|+.  .....++......     ...
T Consensus        63 ~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~  136 (159)
T cd00154          63 RSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAP-ENIPIILVGNKIDLEDQRQVSTEEAQQFAK-----ENG  136 (159)
T ss_pred             HHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEEcccccccccccHHHHHHHHH-----HcC
Confidence            35678899999999999999998888887777776654422 469999999999995  2333444433321     235


Q ss_pred             eEEEeeecccCCCHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLS  101 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~  101 (110)
                      .+++++||+++.|++++++++.
T Consensus       137 ~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         137 LLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             CeEEEEecCCCCCHHHHHHHHh
Confidence            6899999999999999999986

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

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.63  E-value=9.8e-16  Score=85.40  Aligned_cols=98  Identities=13%  Similarity=0.248  Sum_probs=76.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-----CHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-----NAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-----~~~~~~~~~~~~~~   75 (110)
                      ||+...+||+++|+.++++|..+..+++....|+.++-+... ....+.+++||+|+....     ..+.+.+.      
T Consensus        60 frsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k-~~v~l~llgnk~d~a~er~v~~ddg~kla~~------  132 (192)
T KOG0083|consen   60 FRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAK-EAVALMLLGNKCDLAHERAVKRDDGEKLAEA------  132 (192)
T ss_pred             HhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHH-hhHhHhhhccccccchhhccccchHHHHHHH------
Confidence            678889999999999999999998899999889887744322 357789999999995321     12223333      


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                        .++|++++||++|.|++-.|..|.+.+.+.
T Consensus       133 --y~ipfmetsaktg~nvd~af~~ia~~l~k~  162 (192)
T KOG0083|consen  133 --YGIPFMETSAKTGFNVDLAFLAIAEELKKL  162 (192)
T ss_pred             --HCCCceeccccccccHhHHHHHHHHHHHHh
Confidence              345788999999999999999999888654

>cd00876 Ras Ras family

Probab=99.61  E-value=1.5e-14  Score=83.82  Aligned_cols=98  Identities=20%  Similarity=0.253  Sum_probs=72.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|+++++++.+...++..+.........|+++++||+|+.+..  ..++.....     ....
T Consensus        61 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~  135 (160)
T cd00876          61 SAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALA-----KEWG  135 (160)
T ss_pred             HHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHH-----HHcC
Confidence            356778899999999999999988888777777766544332479999999999986532  222322221     1122


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||+++.|+++++++|.+.+
T Consensus       136 ~~~~~~S~~~~~~i~~l~~~l~~~i  160 (160)
T cd00876         136 CPFIETSAKDNINIDEVFKLLVREI  160 (160)
T ss_pred             CcEEEeccCCCCCHHHHHHHHHhhC
Confidence            5788999999999999999998753

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.61  E-value=2.1e-14  Score=84.07  Aligned_cols=98  Identities=14%  Similarity=0.221  Sum_probs=69.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~   80 (110)
                      +..+..+++.+|++++|+|.+++.++.....|+..+... ...+.|.++++||+|+.+... ..+....+.    .....
T Consensus        70 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~----~~~~~  144 (169)
T cd04114          70 RSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY-ANNKVITILVGNKIDLAERREVSQQRAEEFS----DAQDM  144 (169)
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCeEEEEEECcccccccccCHHHHHHHH----HHcCC
Confidence            456678999999999999999887777666666544322 124689999999999864332 112222221    11225


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .++++||++|.|++++++++.+.+
T Consensus       145 ~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         145 YYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             eEEEeeCCCCCCHHHHHHHHHHHh
Confidence            788999999999999999998764

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.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.60  E-value=3.9e-14  Score=85.10  Aligned_cols=100  Identities=21%  Similarity=0.217  Sum_probs=78.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      ..+...|++.+++.++|++.++..+|+....++..+.........|+++|+||+|+...  .+.++....     .....
T Consensus        65 ~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~l-----a~~~~  139 (196)
T KOG0395|consen   65 SAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKAL-----ARSWG  139 (196)
T ss_pred             hHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHH-----HHhcC
Confidence            45678899999999999999999999998888887755444456899999999999763  333332221     12344


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++++||+.+.+++++|..+.+.+..
T Consensus       140 ~~f~E~Sak~~~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen  140 CAFIETSAKLNYNVDEVFYELVREIRL  166 (196)
T ss_pred             CcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence            568999999999999999999998765

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.60  E-value=1.6e-14  Score=81.42  Aligned_cols=99  Identities=18%  Similarity=0.263  Sum_probs=76.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ||...++||+++.+.++|+|.+....++.+..|+.+...... ++..+++++||.|+....  +.++.++.-     ...
T Consensus        73 fravtrsyyrgaagalmvyditrrstynhlsswl~dar~ltn-pnt~i~lignkadle~qrdv~yeeak~fa-----een  146 (215)
T KOG0097|consen   73 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN-PNTVIFLIGNKADLESQRDVTYEEAKEFA-----EEN  146 (215)
T ss_pred             HHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCC-CceEEEEecchhhhhhcccCcHHHHHHHH-----hhc
Confidence            577889999999999999999988888888888877654332 567899999999997654  344443321     134


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +..++++||++|+|+++.|-...+.+-
T Consensus       147 gl~fle~saktg~nvedafle~akkiy  173 (215)
T KOG0097|consen  147 GLMFLEASAKTGQNVEDAFLETAKKIY  173 (215)
T ss_pred             CeEEEEecccccCcHHHHHHHHHHHHH
Confidence            568899999999999999877666553

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

Probab=99.59  E-value=1.5e-15  Score=86.17  Aligned_cols=102  Identities=16%  Similarity=0.254  Sum_probs=76.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~   79 (110)
                      ||++.++||+.|+++|+++|.++.+++.-+-+|+.++-+... ...-.++|+||.|+.+... .+++.+.+.    ....
T Consensus        69 frsitqsyyrsahalilvydiscqpsfdclpewlreie~yan-~kvlkilvgnk~d~~drrevp~qigeefs----~~qd  143 (213)
T KOG0095|consen   69 FRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYAN-NKVLKILVGNKIDLADRREVPQQIGEEFS----EAQD  143 (213)
T ss_pred             HHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhh-cceEEEeeccccchhhhhhhhHHHHHHHH----Hhhh
Confidence            688999999999999999999999898877778877654432 3566799999999865431 222333221    1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .-++++||+...|++.+|..++..+.+.
T Consensus       144 myfletsakea~nve~lf~~~a~rli~~  171 (213)
T KOG0095|consen  144 MYFLETSAKEADNVEKLFLDLACRLISE  171 (213)
T ss_pred             hhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            3577999999999999999998877654

>cd01890 LepA LepA subfamily

Probab=99.59  E-value=2.5e-14  Score=84.53  Aligned_cols=95  Identities=21%  Similarity=0.233  Sum_probs=64.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~   77 (110)
                      |+.++..+++++|++|+|+|+++..+......+. ....    .++|+++|+||+|+.+....   +++...++.     
T Consensus        80 ~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~-~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~-----  149 (179)
T cd01890          80 FSYEVSRSLAACEGALLLVDATQGVEAQTLANFY-LALE----NNLEIIPVINKIDLPSADPERVKQQIEDVLGL-----  149 (179)
T ss_pred             hHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHH-HHHH----cCCCEEEEEECCCCCcCCHHHHHHHHHHHhCC-----
Confidence            3467788999999999999998754443332222 2221    46899999999998643211   122222221     


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ....++++||++|+|++++++++.+.+.
T Consensus       150 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (179)
T cd01890         150 DPSEAILVSAKTGLGVEDLLEAIVERIP  177 (179)
T ss_pred             CcccEEEeeccCCCCHHHHHHHHHhhCC
Confidence            1235889999999999999999988753

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.59  E-value=2.8e-14  Score=84.04  Aligned_cols=101  Identities=13%  Similarity=0.143  Sum_probs=66.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCC--c---
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLH--S---   74 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~--~---   74 (110)
                      +.++..++.++|++++|+|.++++++..... |+..+...  ..+.|+++|+||+|+.+.... +++.......  .   
T Consensus        63 ~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~  140 (175)
T cd01870          63 DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF--CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEG  140 (175)
T ss_pred             hhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHH
Confidence            3456678899999999999998888877654 44444322  247899999999998543211 1110000000  0   


Q ss_pred             ---cc-CcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           75 ---LR-QRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        75 ---~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                         .. ....++++|||++|.|++++|.++.+..
T Consensus       141 ~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         141 RDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             HHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence               00 1124789999999999999999998654

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

>cd01898 Obg Obg subfamily

Probab=99.56  E-value=6.1e-14  Score=82.14  Aligned_cols=91  Identities=25%  Similarity=0.215  Sum_probs=62.4

Q ss_pred             cccCCEEEEEEECCCh-hhHHHHHHHHHHHhcCC-CCCCCeEEEEeeCCCCCCCCCHHH-HHhhhCCCcccCcceEEEee
Q 044598            9 FQNTQGLIFVVDSNDR-DRVVEARDELHRMLNED-ELRDAVLLVFANKQDLPNAMNAAE-ITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~iiv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ++.+|++++|+|++++ .++.....|...+.... ...++|+++|+||+|+.+.....+ .......    ....+++++
T Consensus        76 ~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~  151 (170)
T cd01898          76 IERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELLKELLKE----LWGKPVFPI  151 (170)
T ss_pred             HHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHHHHHHhh----CCCCCEEEE
Confidence            4469999999999987 56666555555543321 124689999999999865433222 2222111    124568899


Q ss_pred             ecccCCCHHHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~  103 (110)
                      ||+++.|++++++++.+.
T Consensus       152 Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         152 SALTGEGLDELLRKLAEL  169 (170)
T ss_pred             ecCCCCCHHHHHHHHHhh
Confidence            999999999999999865

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.56  E-value=3.9e-14  Score=91.15  Aligned_cols=96  Identities=23%  Similarity=0.172  Sum_probs=67.0

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC-CCCCCeEEEEeeCCCCCCCCCHH-HHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED-ELRDAVLLVFANKQDLPNAMNAA-EITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .++++|+++++|+|+++.+++++...|..++.... .+.++|+++|+||+|+.+..... ......    ......++++
T Consensus       232 rhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~----~~~~~~~i~~  307 (335)
T PRK12299        232 KHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALE----LAALGGPVFL  307 (335)
T ss_pred             HHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHH----HHhcCCCEEE
Confidence            35678999999999997666666666655553321 23478999999999986543211 111111    1112357889


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++++|++++++++.+.+..
T Consensus       308 iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        308 ISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>cd00157 Rho Rho (Ras homology) family

Probab=99.55  E-value=1.4e-14  Score=84.83  Aligned_cols=94  Identities=13%  Similarity=0.092  Sum_probs=65.3

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-------------HHHHh
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNA-------------AEITD   68 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-------------~~~~~   68 (110)
                      .++..+++.+|++++|+|++++.++..... |+..+...  ..+.|+++|+||+|+.+....             ++...
T Consensus        63 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~  140 (171)
T cd00157          63 RLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHY--CPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEK  140 (171)
T ss_pred             ccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHH
Confidence            455677899999999999999888776654 44433322  147999999999998654321             11111


Q ss_pred             hhCCCcccCcceEEEeeecccCCCHHHHHHHHHH
Q 044598           69 KLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        69 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ...    .....+++++||++|.|+++++.++.+
T Consensus       141 ~~~----~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         141 LAK----EIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             HHH----HhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            110    112237899999999999999999875

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.54  E-value=1.4e-13  Score=82.11  Aligned_cols=95  Identities=11%  Similarity=0.136  Sum_probs=66.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------------CHHHHHhhh
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM------------NAAEITDKL   70 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------------~~~~~~~~~   70 (110)
                      ++..++++++++++++|.++++++.... .|+..+...  ..+.|+++|+||+|+....            ..++.. .+
T Consensus        65 ~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~--~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~  141 (187)
T cd04129          65 LRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRY--CPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGK-RV  141 (187)
T ss_pred             cchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHH-HH
Confidence            4456788999999999999988888775 455555433  2469999999999984321            011111 11


Q ss_pred             CCCcccCc-ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           71 GLHSLRQR-HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        71 ~~~~~~~~-~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .    ... ..+++++||++|.|++++|+++.+.+.
T Consensus       142 ~----~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~  173 (187)
T cd04129         142 A----KEIGAKKYMECSALTGEGVDDVFEAATRAAL  173 (187)
T ss_pred             H----HHhCCcEEEEccCCCCCCHHHHHHHHHHHHh
Confidence            0    111 236889999999999999999997764

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).

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.54  E-value=2.2e-13  Score=82.94  Aligned_cols=100  Identities=16%  Similarity=0.188  Sum_probs=74.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.++..|+.+++++++|+|.++..++.....|+..+....  .+.|+++++||+|+.......+.....     ...++.
T Consensus        72 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~i~lv~nK~Dl~~~~~~~~~~~~~-----~~~~~~  144 (215)
T PTZ00132         72 GGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC--ENIPIVLVGNKVDVKDRQVKARQITFH-----RKKNLQ  144 (215)
T ss_pred             hhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECccCccccCCHHHHHHH-----HHcCCE
Confidence            4567889999999999999999888888777777665332  468999999999985432211111111     123457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++||++|.|+++.|.++++.+..+.
T Consensus       145 ~~e~Sa~~~~~v~~~f~~ia~~l~~~p  171 (215)
T PTZ00132        145 YYDISAKSNYNFEKPFLWLARRLTNDP  171 (215)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHhhcc
Confidence            889999999999999999999886543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.52  E-value=3.7e-14  Score=87.92  Aligned_cols=92  Identities=20%  Similarity=0.191  Sum_probs=67.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH-HHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA-EITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~   79 (110)
                      +.+.+.+++++|++++|+|++++. ++.....|+..+. .   .+.|+++|+||+|+.+..... +....+     ...+
T Consensus        27 ~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~-~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~-----~~~g   97 (245)
T TIGR00157        27 NELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAE-A---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-----RNIG   97 (245)
T ss_pred             ceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHH-H---CCCCEEEEEECcccCCCHHHHHHHHHHH-----HHCC
Confidence            456778999999999999999876 6777777765432 2   578999999999996432211 112221     2245


Q ss_pred             eEEEeeecccCCCHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      .+++++||++|+|++++++.+.+
T Consensus        98 ~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        98 YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CeEEEEecCCchhHHHHHhhhcC
Confidence            68899999999999999988764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.50  E-value=2.2e-13  Score=87.55  Aligned_cols=94  Identities=23%  Similarity=0.219  Sum_probs=63.0

Q ss_pred             HhcccCCEEEEEEECCCh---hhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEE
Q 044598            7 HYFQNTQGLIFVVDSNDR---DRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      .++++|+++++|+|+++.   .++++...+..++... ....++|+++|+||+|+.+....+++.+.+.    .....++
T Consensus       231 rhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~----~~~~~~v  306 (329)
T TIGR02729       231 KHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELK----KALGKPV  306 (329)
T ss_pred             HHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHH----HHcCCcE
Confidence            346689999999999865   3445544444433222 1234789999999999865432222222221    1113478


Q ss_pred             EeeecccCCCHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++||++++|++++++++.+.+
T Consensus       307 i~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       307 FPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             EEEEccCCcCHHHHHHHHHHHh
Confidence            8999999999999999998765

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.49  E-value=4.1e-13  Score=78.55  Aligned_cols=87  Identities=15%  Similarity=0.147  Sum_probs=59.0

Q ss_pred             cCCEEEEEEECCChhhH--HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598           11 NTQGLIFVVDSNDRDRV--VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      .+|++++|+|+++..++  .....++..+...  ..+.|+++|+||+|+.+.....+....     .....++++++||+
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~--~~~~pvilv~NK~Dl~~~~~~~~~~~~-----~~~~~~~~~~~Sa~  151 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPL--FKNKPVIVVLNKIDLLTFEDLSEIEEE-----EELEGEEVLKISTL  151 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhh--cCcCCeEEEEEccccCchhhHHHHHHh-----hhhccCceEEEEec
Confidence            36899999999875432  3333444444322  247899999999998654322221111     11234578999999


Q ss_pred             cCCCHHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNNI  104 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~  104 (110)
                      +|.|++++++++.+.+
T Consensus       152 ~~~gi~~l~~~l~~~~  167 (168)
T cd01897         152 TEEGVDEVKNKACELL  167 (168)
T ss_pred             ccCCHHHHHHHHHHHh
Confidence            9999999999998876

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.44  E-value=3.8e-13  Score=76.85  Aligned_cols=82  Identities=15%  Similarity=0.133  Sum_probs=54.9

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC-CCHHHHHhhhCCCcccCcceEEEeee
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-MNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .++++|++++|+|++++.++.. ..| ...      ...|+++|+||+|+.+. ...++.......    ....+++++|
T Consensus        59 ~~~~ad~vilv~d~~~~~s~~~-~~~-~~~------~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~S  126 (142)
T TIGR02528        59 TAADADVIALVQSATDPESRFP-PGF-ASI------FVKPVIGLVTKIDLAEADVDIERAKELLET----AGAEPIFEIS  126 (142)
T ss_pred             HhhcCCEEEEEecCCCCCcCCC-hhH-HHh------ccCCeEEEEEeeccCCcccCHHHHHHHHHH----cCCCcEEEEe
Confidence            4789999999999998776533 122 222      13499999999998642 222222222110    1112678999


Q ss_pred             cccCCCHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLS  101 (110)
Q Consensus        87 a~~~~~i~~l~~~l~  101 (110)
                      |++|.|++++++++.
T Consensus       127 a~~~~gi~~l~~~l~  141 (142)
T TIGR02528       127 SVDEQGLEALVDYLN  141 (142)
T ss_pred             cCCCCCHHHHHHHHh
Confidence            999999999999874

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.

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=2.6e-13  Score=78.18  Aligned_cols=103  Identities=30%  Similarity=0.598  Sum_probs=83.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCC---------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGL---------   72 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~---------   72 (110)
                      |..|+.|+-.+|+++|++|+-+.+.+.+++..+..++....+...|+++.+||+|.+.+...++....+++         
T Consensus        78 rr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se~~l~~~l~l~~~t~~~~~  157 (193)
T KOG0077|consen   78 RRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASEDELRFHLGLSNFTTGKGK  157 (193)
T ss_pred             HHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccHHHHHHHHHHHHHhccccc
Confidence            56899999999999999999999999998888888887776788999999999999887766665443321         


Q ss_pred             ---CcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           73 ---HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        73 ---~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                         .....++..++.||...+.|..+.|.|+...+
T Consensus       158 v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  158 VNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQYI  192 (193)
T ss_pred             ccccCCCCCeEEEEEEEEEccCccceeeeehhhhc
Confidence               11234677899999999999889999987654

>cd01859 MJ1464 MJ1464

Probab=99.42  E-value=5.4e-13  Score=77.53  Aligned_cols=94  Identities=17%  Similarity=0.104  Sum_probs=62.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.+++++.+++|++++|+|++++.....  ..+......   .++|+++|+||+|+.+...........     .....+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~--~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~-----~~~~~~   72 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS--RKLERYVLE---LGKKLLIVLNKADLVPKEVLEKWKSIK-----ESEGIP   72 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC--HHHHHHHHh---CCCcEEEEEEhHHhCCHHHHHHHHHHH-----HhCCCc
Confidence            5678889999999999999976532111  122222222   368999999999985321111111111     112346


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++.+||+++.|++++++.+.+.+.
T Consensus        73 ~~~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          73 VVYVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EEEEEccccccHHHHHHHHHHHHh
Confidence            789999999999999999988764

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.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.42  E-value=2.5e-12  Score=75.14  Aligned_cols=98  Identities=22%  Similarity=0.217  Sum_probs=63.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhh---hCCCc--cc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDK---LGLHS--LR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~---~~~~~--~~   76 (110)
                      +.+|..++..+|++++|+|+++.... +....+..+ ..   .++|+++|+||+|+.+... +.+...   .....  ..
T Consensus        64 ~~~~~~~~~~~d~il~v~d~~~~~~~-~~~~~~~~~-~~---~~~p~ivv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~  137 (168)
T cd01887          64 TNMRARGASLTDIAILVVAADDGVMP-QTIEAIKLA-KA---ANVPFIVALNKIDKPNANP-ERVKNELSELGLQGEDEW  137 (168)
T ss_pred             HHHHHHHHhhcCEEEEEEECCCCccH-HHHHHHHHH-HH---cCCCEEEEEEceecccccH-HHHHHHHHHhhccccccc
Confidence            45678889999999999999864221 111222222 11   4689999999999864321 111111   11100  11


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...++++++||++|.|++++++++.+...
T Consensus       138 ~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  166 (168)
T cd01887         138 GGDVQIVPTSAKTGEGIDDLLEAILLLAE  166 (168)
T ss_pred             cCcCcEEEeecccCCCHHHHHHHHHHhhh
Confidence            23467899999999999999999988754

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.

>cd01878 HflX HflX subfamily

Probab=99.42  E-value=2.3e-12  Score=77.78  Aligned_cols=87  Identities=24%  Similarity=0.262  Sum_probs=59.8

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      +.++|++++|+|++++.+......+. ..+......++|+++|+||+|+.+.....   ..     ......+++++||+
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~~~~~-~~l~~~~~~~~~viiV~NK~Dl~~~~~~~---~~-----~~~~~~~~~~~Sa~  188 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQIETVE-KVLKELGAEDIPMILVLNKIDLLDDEELE---ER-----LEAGRPDAVFISAK  188 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHHHHHH-HHHHHcCcCCCCEEEEEEccccCChHHHH---HH-----hhcCCCceEEEEcC
Confidence            67899999999998776554433222 22222222468999999999986542211   11     11234468899999


Q ss_pred             cCCCHHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNNI  104 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~  104 (110)
                      ++.|+++++++|.+.+
T Consensus       189 ~~~gi~~l~~~L~~~~  204 (204)
T cd01878         189 TGEGLDELLEAIEELL  204 (204)
T ss_pred             CCCCHHHHHHHHHhhC
Confidence            9999999999998753

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.42  E-value=1.2e-12  Score=76.89  Aligned_cols=94  Identities=18%  Similarity=0.109  Sum_probs=62.6

Q ss_pred             HhcccCCEEEEEEECCCh------hhHHHHHHHHHHHhcCCC------CCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc
Q 044598            7 HYFQNTQGLIFVVDSNDR------DRVVEARDELHRMLNEDE------LRDAVLLVFANKQDLPNAMNAAEITDKLGLHS   74 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~------~~~~~~~~~~~~~~~~~~------~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~   74 (110)
                      .+++++|++++|+|++++      .++.+...+...+.....      ..++|+++|+||+|+..............   
T Consensus        70 ~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~---  146 (176)
T cd01881          70 AHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVREL---  146 (176)
T ss_pred             HHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHH---
Confidence            457889999999999876      345555445444432221      14689999999999865432222100010   


Q ss_pred             ccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           75 LRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        75 ~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      .......++++||+++.|++++++++...
T Consensus       147 ~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         147 ALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             hcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            11234568899999999999999998764

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.42  E-value=3.6e-12  Score=74.58  Aligned_cols=96  Identities=27%  Similarity=0.326  Sum_probs=74.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.||+.+.+++.++++++|.+.+..+ .... +..++...  ...|+++++||.|+.++.+.+.+.+.+....   ...
T Consensus        81 F~fm~~~l~~ga~gaivlVDss~~~~~-~a~~-ii~f~~~~--~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~---~~~  153 (187)
T COG2229          81 FKFMWEILSRGAVGAIVLVDSSRPITF-HAEE-IIDFLTSR--NPIPVVVAINKQDLFDALPPEKIREALKLEL---LSV  153 (187)
T ss_pred             HHHHHHHHhCCcceEEEEEecCCCcch-HHHH-HHHHHhhc--cCCCEEEEeeccccCCCCCHHHHHHHHHhcc---CCC
Confidence            578999999999999999999988776 3333 33333331  1299999999999999988888887765421   456


Q ss_pred             EEEeeecccCCCHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++++++|..+.+..+.+..+...
T Consensus       154 ~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         154 PVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             ceeeeecccchhHHHHHHHHHhh
Confidence            89999999999999888777655

>cd01855 YqeH YqeH

Probab=99.41  E-value=1.3e-12  Score=78.27  Aligned_cols=98  Identities=18%  Similarity=0.077  Sum_probs=63.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhh---CCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKL---GLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~---~~~~~~   76 (110)
                      |+.++..+++++|++++|+|++++...  ....+..   .  ..++|+++|+||+|+.+... ........   ......
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~--~~~~l~~---~--~~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS--LIPRLRL---F--GGNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc--cchhHHH---h--cCCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcC
Confidence            467889999999999999999865321  1111111   1  14689999999999864322 22222111   000011


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .....++.+||++|.|++++++++.+.+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            11125789999999999999999988764

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.40  E-value=4e-12  Score=85.36  Aligned_cols=94  Identities=12%  Similarity=0.093  Sum_probs=61.7

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .++++||++++|+|+++..+..+. .++..+. .   .++|+++|+||+|+.+.....................+++++|
T Consensus       289 ~~i~~ad~vilV~Da~~~~s~~~~-~~~~~~~-~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~S  363 (472)
T PRK03003        289 AAIEAAEVAVVLIDASEPISEQDQ-RVLSMVI-E---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNIS  363 (472)
T ss_pred             HHHhcCCEEEEEEeCCCCCCHHHH-HHHHHHH-H---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEE
Confidence            357899999999999876555443 2333332 2   4689999999999965322111111111000111234788999


Q ss_pred             cccCCCHHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~  105 (110)
                      |++|.|++++|+.+.+...
T Consensus       364 Ak~g~gv~~lf~~i~~~~~  382 (472)
T PRK03003        364 AKTGRAVDKLVPALETALE  382 (472)
T ss_pred             CCCCCCHHHHHHHHHHHHH
Confidence            9999999999999988764

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.39  E-value=1.1e-11  Score=73.48  Aligned_cols=99  Identities=24%  Similarity=0.235  Sum_probs=66.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcc--
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSL--   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~--   75 (110)
                      +..+..+++.+|++++|+|+.++..... ..++.... .   .+.|+++++||+|+......    +.+...+.....  
T Consensus        76 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~-~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  150 (189)
T cd00881          76 SSEVIRGLSVSDGAILVVDANEGVQPQT-REHLRIAR-E---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFIS  150 (189)
T ss_pred             HHHHHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHH-H---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccc
Confidence            3467888999999999999986533221 22222222 1   47899999999998653221    222222221110  


Q ss_pred             -------cCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           76 -------RQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        76 -------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                             .....+++++||++|.|+++++.++.+.+.
T Consensus       151 ~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         151 TKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             hhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence                   124568999999999999999999998764

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.39  E-value=3.1e-12  Score=85.93  Aligned_cols=92  Identities=17%  Similarity=0.207  Sum_probs=61.6

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEE
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      ..+..+++.||++|+|+|+++..+...  ..+...+..   .++|+++|+||+|+.....  +......+    ... ..
T Consensus       109 ~~~~~~~~~aD~il~VvD~~~~~s~~~--~~i~~~l~~---~~~piilV~NK~Dl~~~~~--~~~~~~~~----g~~-~~  176 (472)
T PRK03003        109 EQAEVAMRTADAVLFVVDATVGATATD--EAVARVLRR---SGKPVILAANKVDDERGEA--DAAALWSL----GLG-EP  176 (472)
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCCccch--hhHHHHhc----CCC-Ce
Confidence            346678999999999999987544322  223333332   4699999999999864321  11111111    111 23


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++||++|.|++++++++.+.+.+
T Consensus       177 ~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        177 HPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             EEEEcCCCCCcHHHHHHHHhhccc
Confidence            589999999999999999988754

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.39  E-value=7.5e-12  Score=82.75  Aligned_cols=92  Identities=21%  Similarity=0.221  Sum_probs=61.0

Q ss_pred             hcccCCEEEEEEECCCh---hhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDR---DRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ++++|+++++|+|+++.   +.+++...+..++... ..+.++|.++|+||+|+...  .+.+.....     ....+++
T Consensus       233 hier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~--~e~l~~l~~-----~l~~~i~  305 (424)
T PRK12297        233 HIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA--EENLEEFKE-----KLGPKVF  305 (424)
T ss_pred             HHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC--HHHHHHHHH-----HhCCcEE
Confidence            35679999999999754   3444444444443322 12357999999999998432  122211110     0114688


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++||++++|++++++++.+.+..
T Consensus       306 ~iSA~tgeGI~eL~~~L~~~l~~  328 (424)
T PRK12297        306 PISALTGQGLDELLYAVAELLEE  328 (424)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999887754

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.38  E-value=7.5e-12  Score=72.38  Aligned_cols=90  Identities=21%  Similarity=0.171  Sum_probs=59.5

Q ss_pred             hHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            4 LWRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++..++.  ++|++++|+|+.+++...   .++..+..    .++|+++++||+|+.+..........+.    ...+.+
T Consensus        65 ~~~~~~~~~~~d~vi~v~d~~~~~~~~---~~~~~~~~----~~~~~iiv~NK~Dl~~~~~~~~~~~~~~----~~~~~~  133 (158)
T cd01879          65 VARDFLLGEKPDLIVNVVDATNLERNL---YLTLQLLE----LGLPVVVALNMIDEAEKRGIKIDLDKLS----ELLGVP  133 (158)
T ss_pred             HHHHHhcCCCCcEEEEEeeCCcchhHH---HHHHHHHH----cCCCEEEEEehhhhcccccchhhHHHHH----HhhCCC
Confidence            4566775  999999999998753322   22222221    3689999999999965432111111110    112347


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++++||.++.|++++++++.+..
T Consensus       134 ~~~iSa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         134 VVPTSARKGEGIDELKDAIAELA  156 (158)
T ss_pred             eEEEEccCCCCHHHHHHHHHHHh
Confidence            88999999999999999998765

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.38  E-value=4.6e-12  Score=76.27  Aligned_cols=101  Identities=23%  Similarity=0.250  Sum_probs=60.2

Q ss_pred             cchHHHhcc----cCCEEEEEEECCChhhH-H--------HHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHH
Q 044598            2 RPLWRHYFQ----NTQGLIFVVDSNDRDRV-V--------EARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEI   66 (110)
Q Consensus         2 ~~~~~~~~~----~~~~~i~v~d~~~~~~~-~--------~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~   66 (110)
                      +++|..|+.    .++++++|+|++..... .        .....+...+..   .++|+++|+||+|+.+..  ..+++
T Consensus        77 ~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~  153 (201)
T PRK04213         77 KDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKIKNRDEVLDEI  153 (201)
T ss_pred             HHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECccccCcHHHHHHHH
Confidence            345555654    45789999998642211 0        011112222222   468999999999986443  12233


Q ss_pred             HhhhCCCc-ccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           67 TDKLGLHS-LRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        67 ~~~~~~~~-~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...++... ......+++++||++| |+++++++|.+.+..
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        154 AERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             HHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            33333211 1111236889999999 999999999988754

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.38  E-value=6.4e-12  Score=86.26  Aligned_cols=96  Identities=21%  Similarity=0.240  Sum_probs=65.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~   77 (110)
                      |...+..+++.||++|+|+|+++..+......|.. ...    .+.|+++|+||+|+.+....   +++...++.     
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~-~~~----~~ipiIiViNKiDl~~~~~~~~~~el~~~lg~-----  152 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYL-ALE----NDLEIIPVINKIDLPSADPERVKKEIEEVIGL-----  152 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHH-HHH----cCCCEEEEEECcCCCccCHHHHHHHHHHHhCC-----
Confidence            34567889999999999999987544433333322 221    36799999999998654321   223333222     


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ....++++||++|.|++++++++.+.+..
T Consensus       153 ~~~~vi~vSAktG~GI~~Lle~I~~~lp~  181 (595)
T TIGR01393       153 DASEAILASAKTGIGIEEILEAIVKRVPP  181 (595)
T ss_pred             CcceEEEeeccCCCCHHHHHHHHHHhCCC
Confidence            11257899999999999999999987753

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.37  E-value=3.5e-12  Score=80.20  Aligned_cols=92  Identities=16%  Similarity=0.083  Sum_probs=61.1

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH-HHHhhhCCCcccCcceEEE
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA-EITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (110)
                      ...+++++|++++|+|+++..+..   ..+...+..   .+.|+++|+||+|+.+..... ........    ....+++
T Consensus        73 ~~~~l~~aDvvl~VvD~~~~~~~~---~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~----~~~~~v~  142 (270)
T TIGR00436        73 ARSAIGGVDLILFVVDSDQWNGDG---EFVLTKLQN---LKRPVVLTRNKLDNKFKDKLLPLIDKYAIL----EDFKDIV  142 (270)
T ss_pred             HHHHHhhCCEEEEEEECCCCCchH---HHHHHHHHh---cCCCEEEEEECeeCCCHHHHHHHHHHHHhh----cCCCceE
Confidence            345789999999999998754432   223333322   468999999999985322111 11111111    1112688


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++||++|.|++++++++.+.+..
T Consensus       143 ~iSA~~g~gi~~L~~~l~~~l~~  165 (270)
T TIGR00436       143 PISALTGDNTSFLAAFIEVHLPE  165 (270)
T ss_pred             EEecCCCCCHHHHHHHHHHhCCC
Confidence            99999999999999999988754

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.37  E-value=2.7e-12  Score=77.60  Aligned_cols=97  Identities=13%  Similarity=0.112  Sum_probs=58.8

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcce
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHW   80 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~   80 (110)
                      +...+..+|++++|+|++++.........+..+. .  ....|+++|+||+|+.+....    +++...+.  .......
T Consensus       100 ~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~-~--~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~--~~~~~~~  174 (203)
T cd01888         100 MLSGAAVMDGALLLIAANEPCPQPQTSEHLAALE-I--MGLKHIIIVQNKIDLVKEEQALENYEQIKKFVK--GTIAENA  174 (203)
T ss_pred             HHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHH-H--cCCCcEEEEEEchhccCHHHHHHHHHHHHHHHh--ccccCCC
Confidence            3445667899999999986311111122222221 1  123579999999998643211    11222211  0112345


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++||++|+|++++++++.+.+..
T Consensus       175 ~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         175 PIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             cEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            78999999999999999999887653

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.37  E-value=1.4e-11  Score=69.94  Aligned_cols=94  Identities=27%  Similarity=0.385  Sum_probs=65.4

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHH--hhhCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEIT--DKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~--~~~~~~~~~~~~~~   81 (110)
                      .+..+++.+|++++|+|++++........++..........++|+++++||+|+..........  ...    ......+
T Consensus        61 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~----~~~~~~~  136 (157)
T cd00882          61 LRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQL----AKELGVP  136 (157)
T ss_pred             HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHH----HhhcCCc
Confidence            4456788999999999999887766665542222222233579999999999986554322211  111    1223457


Q ss_pred             EEeeecccCCCHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLS  101 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~  101 (110)
                      ++++|+.++.|+.++++++.
T Consensus       137 ~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         137 YFETSAKTGENVEELFEELA  156 (157)
T ss_pred             EEEEecCCCCChHHHHHHHh
Confidence            89999999999999999985

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

>cd04171 SelB SelB subfamily

Probab=99.37  E-value=3.8e-12  Score=74.00  Aligned_cols=92  Identities=22%  Similarity=0.140  Sum_probs=56.2

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCcce
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~   80 (110)
                      ...+++++|++++|+|+++.. ..+....+.. +...  ..+|+++++||+|+.+...    .+++.+.+...  .....
T Consensus        68 ~~~~~~~ad~ii~V~d~~~~~-~~~~~~~~~~-~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~  141 (164)
T cd04171          68 MLAGAGGIDLVLLVVAADEGI-MPQTREHLEI-LELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGT--FLADA  141 (164)
T ss_pred             HHhhhhcCCEEEEEEECCCCc-cHhHHHHHHH-HHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhc--CcCCC
Confidence            345678999999999997621 1111121211 1111  2358999999999865321    12222222110  01345


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++++||++|.|++++++.+.+
T Consensus       142 ~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         142 PIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             cEEEEeCCCCcCHHHHHHHHhh
Confidence            8999999999999999998764

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.37  E-value=4.2e-12  Score=85.14  Aligned_cols=94  Identities=28%  Similarity=0.317  Sum_probs=61.3

Q ss_pred             hcccCCEEEEEEECCCh----hhHHHHH---HHHHHHhcC-------CCCCCCeEEEEeeCCCCCCCCCHH-HHHhhhCC
Q 044598            8 YFQNTQGLIFVVDSNDR----DRVVEAR---DELHRMLNE-------DELRDAVLLVFANKQDLPNAMNAA-EITDKLGL   72 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~----~~~~~~~---~~~~~~~~~-------~~~~~~~~iiv~nK~Dl~~~~~~~-~~~~~~~~   72 (110)
                      ++++|+++++|+|+++.    +.+.+..   ..+..+...       ..+.++|.++|+||+|+.+..... .+...+  
T Consensus       233 hieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e~l~~~l--  310 (500)
T PRK12296        233 HIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAEFVRPEL--  310 (500)
T ss_pred             HHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHHHHHHHH--
Confidence            47889999999999752    2233322   233332210       023578999999999986433211 112121  


Q ss_pred             CcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           73 HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        73 ~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                         ....++++++||++++|+++++.+|.+.+..
T Consensus       311 ---~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~  341 (500)
T PRK12296        311 ---EARGWPVFEVSAASREGLRELSFALAELVEE  341 (500)
T ss_pred             ---HHcCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence               1234689999999999999999999888754

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.36  E-value=5.3e-12  Score=73.61  Aligned_cols=88  Identities=18%  Similarity=0.173  Sum_probs=60.2

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .++++|++++|+|+++..+..  ..++...     ..++|+++++||+|+.+. ..+.+.+.+..   .....+++++||
T Consensus        61 ~~~~ad~il~v~d~~~~~s~~--~~~~~~~-----~~~~~ii~v~nK~Dl~~~-~~~~~~~~~~~---~~~~~p~~~~Sa  129 (158)
T PRK15467         61 TLQDVDMLIYVHGANDPESRL--PAGLLDI-----GVSKRQIAVISKTDMPDA-DVAATRKLLLE---TGFEEPIFELNS  129 (158)
T ss_pred             HHhcCCEEEEEEeCCCccccc--CHHHHhc-----cCCCCeEEEEEccccCcc-cHHHHHHHHHH---cCCCCCEEEEEC
Confidence            478999999999998764431  1233332     136789999999998653 33333332211   111247899999


Q ss_pred             ccCCCHHHHHHHHHHHHHh
Q 044598           88 TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++|+|++++++.+.+.+.+
T Consensus       130 ~~g~gi~~l~~~l~~~~~~  148 (158)
T PRK15467        130 HDPQSVQQLVDYLASLTKQ  148 (158)
T ss_pred             CCccCHHHHHHHHHHhchh
Confidence            9999999999999887754

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.36  E-value=7.1e-12  Score=81.32  Aligned_cols=86  Identities=26%  Similarity=0.212  Sum_probs=58.0

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .+.+||++++|+|++++........+ ..++......++|+++|+||+|+.+..   .+.....      ...+++.+||
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~-~~~L~~l~~~~~piIlV~NK~Dl~~~~---~v~~~~~------~~~~~i~iSA  334 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAV-EKVLEELGAEDIPQLLVYNKIDLLDEP---RIERLEE------GYPEAVFVSA  334 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHH-HHHHHHhccCCCCEEEEEEeecCCChH---hHHHHHh------CCCCEEEEEc
Confidence            47899999999999987655443322 222222222468999999999986432   2211111      1124789999


Q ss_pred             ccCCCHHHHHHHHHHH
Q 044598           88 TSGEGLYEGLDWLSNN  103 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~  103 (110)
                      ++|.|+++++++|.+.
T Consensus       335 ktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       335 KTGEGLDLLLEAIAER  350 (351)
T ss_pred             cCCCCHHHHHHHHHhh
Confidence            9999999999998764

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).

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.36  E-value=4.7e-12  Score=84.06  Aligned_cols=94  Identities=18%  Similarity=0.162  Sum_probs=60.8

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-CCCHHHHHhhhCCCcccCcceEEEee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN-AMNAAEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      .+++.||++++|+|+++..+..+. ..+.... .   .++|+++|+||+|+.+ ....+++...+......-...+++++
T Consensus       250 ~~~~~ad~~ilV~D~~~~~~~~~~-~~~~~~~-~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi~~  324 (429)
T TIGR03594       250 KAIERADVVLLVLDATEGITEQDL-RIAGLIL-E---AGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIVFI  324 (429)
T ss_pred             HHHHhCCEEEEEEECCCCccHHHH-HHHHHHH-H---cCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceEEE
Confidence            468899999999999875443322 2222222 2   4689999999999962 11122222222110011134589999


Q ss_pred             ecccCCCHHHHHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ||++|.|++++++++.+...
T Consensus       325 SA~~g~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       325 SALTGQGVDKLLDAIDEVYE  344 (429)
T ss_pred             eCCCCCCHHHHHHHHHHHHH
Confidence            99999999999999887654

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.35  E-value=6.2e-12  Score=72.54  Aligned_cols=88  Identities=17%  Similarity=0.210  Sum_probs=58.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      +..+++++|++++|+|+.+..+...  .++...+..   .+.|+++|+||+|+.+....  ......+     ...++++
T Consensus        70 ~~~~~~~~d~ii~v~d~~~~~~~~~--~~~~~~~~~---~~~piiiv~nK~D~~~~~~~--~~~~~~~-----~~~~~~~  137 (157)
T cd01894          70 AELAIEEADVILFVVDGREGLTPAD--EEIAKYLRK---SKKPVILVVNKVDNIKEEDE--AAEFYSL-----GFGEPIP  137 (157)
T ss_pred             HHHHHHhCCEEEEEEeccccCCccH--HHHHHHHHh---cCCCEEEEEECcccCChHHH--HHHHHhc-----CCCCeEE
Confidence            3457889999999999876432222  223333322   35899999999998654321  1111111     0115679


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +||+++.|++++++++.+++
T Consensus       138 ~Sa~~~~gv~~l~~~l~~~~  157 (157)
T cd01894         138 ISAEHGRGIGDLLDAILELL  157 (157)
T ss_pred             EecccCCCHHHHHHHHHhhC
Confidence            99999999999999998753

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.34  E-value=8.6e-12  Score=80.68  Aligned_cols=90  Identities=14%  Similarity=0.202  Sum_probs=59.9

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      ++++||++++|+|+.+.  +.....++...+..   .+.|.++|+||+|+.+. ...++.+.+..   ......++++||
T Consensus       128 ~l~~aDvil~VvD~~~s--~~~~~~~il~~l~~---~~~p~IlViNKiDl~~~-~~~~~~~~l~~---~~~~~~i~~iSA  198 (339)
T PRK15494        128 SLHSADLVLLIIDSLKS--FDDITHNILDKLRS---LNIVPIFLLNKIDIESK-YLNDIKAFLTE---NHPDSLLFPISA  198 (339)
T ss_pred             HhhhCCEEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEEhhcCccc-cHHHHHHHHHh---cCCCcEEEEEec
Confidence            47899999999998652  33333333333322   24677889999998643 23333333211   112357899999


Q ss_pred             ccCCCHHHHHHHHHHHHHh
Q 044598           88 TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++|.|++++++++.+.+..
T Consensus       199 ktg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        199 LSGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             cCccCHHHHHHHHHHhCCC
Confidence            9999999999999988754

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.31  E-value=2.1e-11  Score=73.73  Aligned_cols=59  Identities=22%  Similarity=0.293  Sum_probs=48.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC------------------CCCCCeEEEEeeCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED------------------ELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~iiv~nK~Dl~~   59 (110)
                      |+.++..||+++|++|+|+|.+++.+++.+..|+..+....                  ...+.|+++|+||+|+.+
T Consensus        67 ~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~  143 (202)
T cd04102          67 VKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP  143 (202)
T ss_pred             HHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence            45688999999999999999999999999988888875421                  113689999999999854

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.30  E-value=8e-11  Score=78.15  Aligned_cols=91  Identities=18%  Similarity=0.211  Sum_probs=59.0

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .+++||++|+|+|++++........ +..++......++|+++|+||+|+.+... ...... .    ...+ .++.+||
T Consensus       273 ~~~~ADlIL~VvDaS~~~~~e~l~~-v~~iL~el~~~~~pvIiV~NKiDL~~~~~-~~~~~~-~----~~~~-~~v~ISA  344 (426)
T PRK11058        273 ETRQATLLLHVVDAADVRVQENIEA-VNTVLEEIDAHEIPTLLVMNKIDMLDDFE-PRIDRD-E----ENKP-IRVWLSA  344 (426)
T ss_pred             HhhcCCEEEEEEeCCCccHHHHHHH-HHHHHHHhccCCCCEEEEEEcccCCCchh-HHHHHH-h----cCCC-ceEEEeC
Confidence            4689999999999998765544321 12222221224689999999999864321 111111 0    0111 2468999


Q ss_pred             ccCCCHHHHHHHHHHHHHh
Q 044598           88 TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++|.|++++++++.+.+..
T Consensus       345 ktG~GIdeL~e~I~~~l~~  363 (426)
T PRK11058        345 QTGAGIPLLFQALTERLSG  363 (426)
T ss_pred             CCCCCHHHHHHHHHHHhhh
Confidence            9999999999999988754

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.30  E-value=4.6e-11  Score=82.20  Aligned_cols=95  Identities=23%  Similarity=0.247  Sum_probs=64.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQR   78 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~   78 (110)
                      ...|..+++.||++|+|+|+++.........+ .....    .+.|+++|+||+|+.+....   +++...++.     .
T Consensus        88 ~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~-~~~~~----~~lpiIvViNKiDl~~a~~~~v~~ei~~~lg~-----~  157 (600)
T PRK05433         88 SYEVSRSLAACEGALLVVDASQGVEAQTLANV-YLALE----NDLEIIPVLNKIDLPAADPERVKQEIEDVIGI-----D  157 (600)
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHH-HHHHH----CCCCEEEEEECCCCCcccHHHHHHHHHHHhCC-----C
Confidence            45678899999999999999874333322222 22221    36899999999998654321   222222222     1


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...++++||++|.|++++++++.+.++.
T Consensus       158 ~~~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        158 ASDAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             cceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence            2358899999999999999999987754

>cd00880 Era_like Era (E

Probab=99.30  E-value=5.3e-11  Score=68.29  Aligned_cols=95  Identities=25%  Similarity=0.226  Sum_probs=63.4

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      .+..+++.+|++++|+|+.+........ +.....    ..+.|+++|+||+|+.......................+++
T Consensus        68 ~~~~~~~~~d~il~v~~~~~~~~~~~~~-~~~~~~----~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (163)
T cd00880          68 LARRVLERADLILFVVDADLRADEEEEK-LLELLR----ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVI  142 (163)
T ss_pred             HHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHH----hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceE
Confidence            4456889999999999998765443322 222221    15789999999999865433222211011111234556899


Q ss_pred             eeecccCCCHHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++||+++.|+.++++++.+.
T Consensus       143 ~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         143 AVSALTGEGIDELREALIEA  162 (163)
T ss_pred             EEeeeccCCHHHHHHHHHhh
Confidence            99999999999999999875

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.29  E-value=2.3e-11  Score=81.26  Aligned_cols=82  Identities=18%  Similarity=0.252  Sum_probs=60.0

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+++++|++++|+|++++.+..+.. .+..      ..++|+++|+||+|+.+.....           .....+++++|
T Consensus       290 ~~~~~aD~il~VvD~s~~~s~~~~~-~l~~------~~~~piiiV~NK~DL~~~~~~~-----------~~~~~~~i~iS  351 (449)
T PRK05291        290 EAIEEADLVLLVLDASEPLTEEDDE-ILEE------LKDKPVIVVLNKADLTGEIDLE-----------EENGKPVIRIS  351 (449)
T ss_pred             HHHHhCCEEEEEecCCCCCChhHHH-HHHh------cCCCCcEEEEEhhhccccchhh-----------hccCCceEEEE
Confidence            4788999999999998775554332 2222      2568999999999986432211           01223678999


Q ss_pred             cccCCCHHHHHHHHHHHHHh
Q 044598           87 ATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~~  106 (110)
                      |++|.|++++++++.+.+..
T Consensus       352 Aktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        352 AKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             eeCCCCHHHHHHHHHHHHhh
Confidence            99999999999999988753

>cd01895 EngA2 EngA2 subfamily

Probab=99.28  E-value=7e-11  Score=69.02  Aligned_cols=92  Identities=15%  Similarity=0.124  Sum_probs=58.5

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .++.++|++++|+|+.++.+.... ..+.. ...   .+.|+++++||+|+.+..  ..+.....+..........++++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~-~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGL-ILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVF  154 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHH-HHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEE
Confidence            356799999999999876443322 22222 211   368999999999986552  22222222211000112357899


Q ss_pred             eecccCCCHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +||+++.|++++++++.+.
T Consensus       155 ~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         155 ISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             EeccCCCCHHHHHHHHHHh
Confidence            9999999999999988753

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.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.28  E-value=3.3e-11  Score=71.89  Aligned_cols=100  Identities=11%  Similarity=0.160  Sum_probs=68.6

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCCcc------
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLHSL------   75 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~------   75 (110)
                      ++.-.|.++|++|+|++..++.+++... .|+-++ .+.. ++.|+++|++|.||.+.... +.+.. .+....      
T Consensus        69 lRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi-~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~-~~~~~Vt~~~g~  145 (198)
T KOG0393|consen   69 LRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEI-KHHC-PNVPIILVGTKADLRDDPSTLEKLQR-QGLEPVTYEQGL  145 (198)
T ss_pred             ccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHH-HhhC-CCCCEEEEeehHHhhhCHHHHHHHHh-ccCCcccHHHHH
Confidence            4555789999999999999999998865 455554 3433 78999999999999743211 11110 000000      


Q ss_pred             ---cCc-ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           76 ---RQR-HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        76 ---~~~-~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                         ... ...+++|||+++.|+.++|+........
T Consensus       146 ~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~  180 (198)
T KOG0393|consen  146 ELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALR  180 (198)
T ss_pred             HHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhc
Confidence               011 2478999999999999999987776643

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.28  E-value=3.1e-11  Score=72.46  Aligned_cols=90  Identities=20%  Similarity=0.228  Sum_probs=56.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhh---CCCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKL---GLHS   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~---~~~~   74 (110)
                      |+.++..+++++|++++|+|+++.. ......++.....    .+.|+++|+||+|+......   +++...+   +.. 
T Consensus        78 ~~~~~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~----~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~-  151 (194)
T cd01891          78 FGGEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE----LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGAT-  151 (194)
T ss_pred             HHHHHHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH----cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCc-
Confidence            3567888999999999999998632 2222233333221    36899999999999654321   1222221   110 


Q ss_pred             ccCcceEEEeeecccCCCHHHH
Q 044598           75 LRQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        75 ~~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      ....+++++++||++|.|+.+.
T Consensus       152 ~~~~~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         152 EEQLDFPVLYASAKNGWASLNL  173 (194)
T ss_pred             cccCccCEEEeehhcccccccc
Confidence            1123568899999999887433

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

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.26  E-value=9e-11  Score=67.61  Aligned_cols=81  Identities=22%  Similarity=0.135  Sum_probs=58.6

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .++.++|++++|+|++++.+......+. .      ..++|+++|+||+|+.+....      .    ......+++++|
T Consensus        76 ~~~~~~~~~v~v~d~~~~~~~~~~~~~~-~------~~~~~vi~v~nK~D~~~~~~~------~----~~~~~~~~~~~S  138 (157)
T cd04164          76 EAIEEADLVLFVIDASRGLDEEDLEILE-L------PADKPIIVVLNKSDLLPDSEL------L----SLLAGKPIIAIS  138 (157)
T ss_pred             HHHhhCCEEEEEEECCCCCCHHHHHHHH-h------hcCCCEEEEEEchhcCCcccc------c----cccCCCceEEEE
Confidence            4677999999999999755544332211 1      257999999999998654321      0    122345788999


Q ss_pred             cccCCCHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~  104 (110)
                      |+++.|+++++++|.+.+
T Consensus       139 a~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         139 AKTGEGLDELKEALLELA  156 (157)
T ss_pred             CCCCCCHHHHHHHHHHhh
Confidence            999999999999998764

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.25  E-value=5.9e-11  Score=77.99  Aligned_cols=97  Identities=21%  Similarity=0.120  Sum_probs=62.4

Q ss_pred             hcccCCEEEEEEECC---ChhhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSN---DRDRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~---~~~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ++++++++++|+|++   ..+...+...++..+... ..+.++|.++|+||+|+.......+....+.  .......+++
T Consensus       234 ~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~--~~~~~~~~Vi  311 (390)
T PRK12298        234 HLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIV--EALGWEGPVY  311 (390)
T ss_pred             HHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHH--HHhCCCCCEE
Confidence            588999999999987   333444444444443322 1234689999999999864322211111110  0011112578


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+||+++.|++++++++.+.+..
T Consensus       312 ~ISA~tg~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        312 LISAASGLGVKELCWDLMTFIEE  334 (390)
T ss_pred             EEECCCCcCHHHHHHHHHHHhhh
Confidence            99999999999999999998864

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.25  E-value=9.1e-11  Score=82.26  Aligned_cols=95  Identities=11%  Similarity=0.063  Sum_probs=62.3

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .++++||++++|+|+++..+..+.. ++..+..    .++|+++|+||+|+.+....+.+...+..........+++.+|
T Consensus       528 ~~i~~advvilViDat~~~s~~~~~-i~~~~~~----~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~ii~iS  602 (712)
T PRK09518        528 AAIERSELALFLFDASQPISEQDLK-VMSMAVD----AGRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARRVNLS  602 (712)
T ss_pred             HHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH----cCCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCEEEEE
Confidence            3478999999999998765544332 2333221    4689999999999965332222222211100011234678899


Q ss_pred             cccCCCHHHHHHHHHHHHHh
Q 044598           87 ATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~~  106 (110)
                      |++|.|++++++.+.+...+
T Consensus       603 Aktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        603 AKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             CCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999887754

>cd01858 NGP_1 NGP-1

Probab=99.25  E-value=6.3e-11  Score=68.96  Aligned_cols=92  Identities=15%  Similarity=0.103  Sum_probs=58.2

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      |. .++++|++++|+|+.++...  ....+.+.+... ..++|+++|+||+|+.+..........+..    .....++.
T Consensus         3 ~~-~l~~aD~il~VvD~~~p~~~--~~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~~~~~~~~~~----~~~~~~~~   74 (157)
T cd01858           3 YK-VIDSSDVVIQVLDARDPMGT--RCKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVTARWVKILSK----EYPTIAFH   74 (157)
T ss_pred             hH-hhhhCCEEEEEEECCCCccc--cCHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHHHHHHHHHhc----CCcEEEEE
Confidence            44 58899999999999875321  112333333321 135899999999999543211122222211    11223578


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +||+++.|++++++.+.+..
T Consensus        75 iSa~~~~~~~~L~~~l~~~~   94 (157)
T cd01858          75 ASINNPFGKGSLIQLLRQFS   94 (157)
T ss_pred             eeccccccHHHHHHHHHHHH
Confidence            99999999999999997764

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.24  E-value=4.1e-11  Score=79.80  Aligned_cols=94  Identities=16%  Similarity=0.164  Sum_probs=60.6

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+++.+|++|+|+|+++..+..+. . +......   .++|+++++||+|+.+.....++...+..........+++++|
T Consensus       251 ~~~~~ad~~ilViD~~~~~~~~~~-~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~i~~~S  325 (435)
T PRK00093        251 KAIERADVVLLVIDATEGITEQDL-R-IAGLALE---AGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAPIVFIS  325 (435)
T ss_pred             HHHHHCCEEEEEEeCCCCCCHHHH-H-HHHHHHH---cCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCCEEEEe
Confidence            467899999999999875443322 2 2222222   4689999999999863322222222221100112345899999


Q ss_pred             cccCCCHHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~  105 (110)
                      |++|.|+++++..+.+...
T Consensus       326 A~~~~gv~~l~~~i~~~~~  344 (435)
T PRK00093        326 ALTGQGVDKLLEAIDEAYE  344 (435)
T ss_pred             CCCCCCHHHHHHHHHHHHH
Confidence            9999999999998876553

>PRK12289 GTPase RsgA; Reviewed

Probab=99.24  E-value=5e-11  Score=77.30  Aligned_cols=91  Identities=21%  Similarity=0.202  Sum_probs=60.8

Q ss_pred             hHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      +.+..+.++|.+++|+|+.++. ....+..++...    ...++|+++|+||+|+.+..........+     ...++++
T Consensus        82 L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a----~~~~ip~ILVlNK~DLv~~~~~~~~~~~~-----~~~g~~v  152 (352)
T PRK12289         82 LDRPPVANADQILLVFALAEPPLDPWQLSRFLVKA----ESTGLEIVLCLNKADLVSPTEQQQWQDRL-----QQWGYQP  152 (352)
T ss_pred             eechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHH----HHCCCCEEEEEEchhcCChHHHHHHHHHH-----HhcCCeE
Confidence            3455688999999999998754 232334444433    12578999999999996432112222221     1234578


Q ss_pred             EeeecccCCCHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +.+||+++.|++++++.+...
T Consensus       153 ~~iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        153 LFISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEEEcCCCCCHHHHhhhhccc
Confidence            899999999999999888654

>cd01889 SelB_euk SelB subfamily

Probab=99.23  E-value=8.2e-11  Score=70.51  Aligned_cols=92  Identities=25%  Similarity=0.151  Sum_probs=56.8

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhC--CCcccCcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLG--LHSLRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~--~~~~~~~~~~~   82 (110)
                      ...+|++++|+|+++.........+.  +...   .+.|+++++||+|+......    +++...++  +.......+++
T Consensus        89 ~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~---~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v  163 (192)
T cd01889          89 AQIIDLMLLVVDATKGIQTQTAECLV--IGEI---LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPI  163 (192)
T ss_pred             HhhCCEEEEEEECCCCccHHHHHHHH--HHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCE
Confidence            34578999999998643222221111  1111   35799999999998643211    11222111  00011235689


Q ss_pred             EeeecccCCCHHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++||++|.|+++++.++.+.+.
T Consensus       164 i~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         164 IPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             EEEeccCCCCHHHHHHHHHhccc
Confidence            99999999999999999988764

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

>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=99.23  E-value=6.8e-11  Score=70.67  Aligned_cols=96  Identities=24%  Similarity=0.214  Sum_probs=60.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHhhh-CCCcccC-cc
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITDKL-GLHSLRQ-RH   79 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~~~-~~~~~~~-~~   79 (110)
                      ....++.+|++|+|+|+.+..... ....+..+. .   .+.|+++++||+|+....-   .+++...+ ....... ..
T Consensus        87 ~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~-~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~  161 (188)
T PF00009_consen   87 MIRGLRQADIAILVVDANDGIQPQ-TEEHLKILR-E---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEI  161 (188)
T ss_dssp             HHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHH-H---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTST
T ss_pred             ccceecccccceeeeecccccccc-ccccccccc-c---cccceEEeeeeccchhhhHHHHHHHHHHHhccccccCcccc
Confidence            344578999999999998543221 222233222 1   4788999999999862211   11122111 0001112 35


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+++++||.+|.|++++++.+.+.++
T Consensus       162 ~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  162 VPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             EEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            79999999999999999999998875

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 ....

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.22  E-value=6.8e-11  Score=82.88  Aligned_cols=91  Identities=18%  Similarity=0.161  Sum_probs=60.3

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ....+++.||++|+|+|+++.  +......+...+..   .++|+++|+||+|+.....  .......+    ... ..+
T Consensus       347 ~~~~~~~~aD~iL~VvDa~~~--~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~~--~~~~~~~l----g~~-~~~  414 (712)
T PRK09518        347 QAQIAVSLADAVVFVVDGQVG--LTSTDERIVRMLRR---AGKPVVLAVNKIDDQASEY--DAAEFWKL----GLG-EPY  414 (712)
T ss_pred             HHHHHHHhCCEEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEECcccccchh--hHHHHHHc----CCC-CeE
Confidence            445678999999999999753  22222333333332   4799999999999854321  11221111    111 245


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++||++|.|++++++++.+.+..
T Consensus       415 ~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        415 PISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             EEECCCCCCchHHHHHHHHhccc
Confidence            89999999999999999987754

>smart00275 G_alpha G protein alpha subunit

Probab=99.21  E-value=3.9e-10  Score=73.12  Aligned_cols=106  Identities=25%  Similarity=0.385  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDR----------DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----------   60 (110)
                      +|+.|.+|+++++++|||+|+++.          ..+.++...+..++....+.+.|+++++||.|+...          
T Consensus       197 ~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~  276 (342)
T smart00275      197 ERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPLVDY  276 (342)
T ss_pred             hhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCchhcc
Confidence            478999999999999999999863          357777788888888777788999999999997311          


Q ss_pred             -------CCHHH----HHhhh-CCCcc-cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           61 -------MNAAE----ITDKL-GLHSL-RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        61 -------~~~~~----~~~~~-~~~~~-~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                             .+.+.    +...+ ..... .++.+.++.++|.+..++..+|+.+.+.+..
T Consensus       277 fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~  335 (342)
T smart00275      277 FPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQ  335 (342)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHH
Confidence                   01111    11222 11111 2345677889999999999999988887764

Subunit of G proteins that contains the guanine nucleotide binding site

>PRK00089 era GTPase Era; Reviewed

Probab=99.21  E-value=8.4e-11  Score=74.65  Aligned_cols=93  Identities=17%  Similarity=0.246  Sum_probs=61.1

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcceEEEe
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ...+.++|++++|+|+++.  +.....++...+..   .+.|+++|+||+|+.... ........+..   .....++++
T Consensus        79 ~~~~~~~D~il~vvd~~~~--~~~~~~~i~~~l~~---~~~pvilVlNKiDl~~~~~~l~~~~~~l~~---~~~~~~i~~  150 (292)
T PRK00089         79 WSSLKDVDLVLFVVDADEK--IGPGDEFILEKLKK---VKTPVILVLNKIDLVKDKEELLPLLEELSE---LMDFAEIVP  150 (292)
T ss_pred             HHHHhcCCEEEEEEeCCCC--CChhHHHHHHHHhh---cCCCEEEEEECCcCCCCHHHHHHHHHHHHh---hCCCCeEEE
Confidence            4467899999999999872  22222333333332   368999999999996321 11112222110   112357889


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||+++.|++++++++.+.+..
T Consensus       151 iSA~~~~gv~~L~~~L~~~l~~  172 (292)
T PRK00089        151 ISALKGDNVDELLDVIAKYLPE  172 (292)
T ss_pred             ecCCCCCCHHHHHHHHHHhCCC
Confidence            9999999999999999988753

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.21  E-value=2.8e-10  Score=75.97  Aligned_cols=86  Identities=13%  Similarity=0.096  Sum_probs=60.0

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEee
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ..+++++|++++|+|++++.+....  |+.... .   .++|+++|+||+|+.+. ..+.+..        ....+++.+
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~-~---~~~piIlV~NK~Dl~~~-~~~~~~~--------~~~~~~~~v  341 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF--LIIDLN-K---SKKPFILVLNKIDLKIN-SLEFFVS--------SKVLNSSNL  341 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH--HHHHHh-h---CCCCEEEEEECccCCCc-chhhhhh--------hcCCceEEE
Confidence            4678999999999999876655443  444432 1   36899999999998643 1111111        112356789


Q ss_pred             ecccCCCHHHHHHHHHHHHHhh
Q 044598           86 CATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ||++ .|++++++.+.+.+...
T Consensus       342 Sak~-~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       342 SAKQ-LKIKALVDLLTQKINAF  362 (442)
T ss_pred             EEec-CCHHHHHHHHHHHHHHH
Confidence            9998 69999999888877654

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.20  E-value=8e-11  Score=75.28  Aligned_cols=59  Identities=17%  Similarity=0.245  Sum_probs=49.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC-----------CCCCeEEEEeeCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE-----------LRDAVLLVFANKQDLPN   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~iiv~nK~Dl~~   59 (110)
                      |+.+|..|+++++++|+|+|.++..++..+..|+..+.....           ..+.|++||+||+|+..
T Consensus        96 frsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023         96 YKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             hhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence            567899999999999999999999999988888887764321           12589999999999954

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.19  E-value=7.7e-11  Score=71.34  Aligned_cols=101  Identities=25%  Similarity=0.343  Sum_probs=67.7

Q ss_pred             cchHHHhcccC-CEEEEEEECCCh-hhHHHHHHHHHHHhcCCC--CCCCeEEEEeeCCCCCCCCCHHHHHhhh-------
Q 044598            2 RPLWRHYFQNT-QGLIFVVDSNDR-DRVVEARDELHRMLNEDE--LRDAVLLVFANKQDLPNAMNAAEITDKL-------   70 (110)
Q Consensus         2 ~~~~~~~~~~~-~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~~~~~~~~~~~~-------   70 (110)
                      +.++..+++++ +++|||+|+++. .++.....++..++....  ..+.|+++++||+|+..+.+.+.+...+       
T Consensus        62 ~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~~~~i~~~le~ei~~~  141 (203)
T cd04105          62 RDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPAKKIKEQLEKELNTL  141 (203)
T ss_pred             HHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCCHHHHHHHHHHHHHHH
Confidence            56778899999 999999999886 556666666666544321  1479999999999986554322211110       


Q ss_pred             ------CCCc--------------------c--cCcceEEEeeecccCC-CHHHHHHHHHH
Q 044598           71 ------GLHS--------------------L--RQRHWYIQSTCATSGE-GLYEGLDWLSN  102 (110)
Q Consensus        71 ------~~~~--------------------~--~~~~~~~~~~Sa~~~~-~i~~l~~~l~~  102 (110)
                            .+..                    +  ....+.++++|++.+. |++.+.+|+.+
T Consensus       142 ~~~r~~~l~~~~~~~~~~~~~~~~~~~~f~f~~~~~~v~~~~~s~~~~~~~~~~~~~w~~~  202 (203)
T cd04105         142 RESRSKSLSSLDGDEGSKESLGDKGGKSFEFDQLEGKVEFLEGSVKVDGGGIDGWEEWIDE  202 (203)
T ss_pred             HHHHhccccccccccccccccccccCcceeeccCceeEEEEEeEEecCCCChHhHHHHHhh
Confidence                  0000                    0  0134678899998776 69999999865

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.19  E-value=6.1e-11  Score=69.48  Aligned_cols=98  Identities=14%  Similarity=0.253  Sum_probs=74.1

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~   80 (110)
                      .+...||++|.+.++|+..++..+|+....|..++..+.  ..+|.++|-||+|+.+..  ...++....     .....
T Consensus        84 aItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~--~~IPtV~vqNKIDlveds~~~~~evE~la-----k~l~~  156 (246)
T KOG4252|consen   84 AITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKET--ERIPTVFVQNKIDLVEDSQMDKGEVEGLA-----KKLHK  156 (246)
T ss_pred             HHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHh--ccCCeEEeeccchhhHhhhcchHHHHHHH-----HHhhh
Confidence            456789999999999999999999999989988876542  579999999999996542  122221110     11223


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++.+|++...|+.++|..|++.+..+
T Consensus       157 RlyRtSvked~NV~~vF~YLaeK~~q~  183 (246)
T KOG4252|consen  157 RLYRTSVKEDFNVMHVFAYLAEKLTQQ  183 (246)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            456899999999999999998877654

>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=99.19  E-value=8.2e-11  Score=68.26  Aligned_cols=81  Identities=25%  Similarity=0.344  Sum_probs=55.5

Q ss_pred             HHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCc
Q 044598            5 WRHYF--QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         5 ~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~   78 (110)
                      +..|+  ++.|++++|+|++..+   ........+.+    .++|++++.||+|.....    +.+.+.+.++       
T Consensus        70 ~~~~l~~~~~D~ii~VvDa~~l~---r~l~l~~ql~e----~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg-------  135 (156)
T PF02421_consen   70 ARDYLLSEKPDLIIVVVDATNLE---RNLYLTLQLLE----LGIPVVVVLNKMDEAERKGIEIDAEKLSERLG-------  135 (156)
T ss_dssp             HHHHHHHTSSSEEEEEEEGGGHH---HHHHHHHHHHH----TTSSEEEEEETHHHHHHTTEEE-HHHHHHHHT-------
T ss_pred             HHHHHhhcCCCEEEEECCCCCHH---HHHHHHHHHHH----cCCCEEEEEeCHHHHHHcCCEECHHHHHHHhC-------
Confidence            44554  5899999999998643   22223333332    479999999999975432    2344444443       


Q ss_pred             ceEEEeeecccCCCHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWL  100 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l  100 (110)
                       ++++++||++++|++++++.|
T Consensus       136 -~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  136 -VPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             -S-EEEEBTTTTBTHHHHHHHH
T ss_pred             -CCEEEEEeCCCcCHHHHHhhC
Confidence             479999999999999998865

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 ....

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.19  E-value=1.8e-10  Score=72.81  Aligned_cols=89  Identities=30%  Similarity=0.392  Sum_probs=61.2

Q ss_pred             hcccCCEEEEEEECCCh---hhHHHHHHHHHHHhc-CCCCCCCeEEEEeeCCCCCCCCCH--HHHHhhhCCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDR---DRVVEARDELHRMLN-EDELRDAVLLVFANKQDLPNAMNA--AEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~-~~~~~~~~~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~   81 (110)
                      .+++|+.++||+|++..   +.++++..++.++-. +..+.++|.++|+||+|+++....  +++...+       ....
T Consensus       271 HiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~~~l~~L~~~l-------q~~~  343 (366)
T KOG1489|consen  271 HIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEKNLLSSLAKRL-------QNPH  343 (366)
T ss_pred             HHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHHHHHHHHHHHc-------CCCc
Confidence            47899999999999877   556665544444322 234567999999999998533211  2222221       1115


Q ss_pred             EEeeecccCCCHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++++||++++|+.++++.|.+.
T Consensus       344 V~pvsA~~~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  344 VVPVSAKSGEGLEELLNGLREL  365 (366)
T ss_pred             EEEeeeccccchHHHHHHHhhc
Confidence            8899999999999999887653

>cd04163 Era Era subfamily

Probab=99.18  E-value=1.4e-10  Score=67.24  Aligned_cols=91  Identities=20%  Similarity=0.199  Sum_probs=59.6

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcceEEE
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ...++..+|++++|+|++++.  .....++...+..   .+.|+++++||+|+.... ...+....+..   .....+++
T Consensus        76 ~~~~~~~~d~i~~v~d~~~~~--~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~  147 (168)
T cd04163          76 AWSALKDVDLVLFVVDASEPI--GEGDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKE---LGPFAEIF  147 (168)
T ss_pred             HHHHHHhCCEEEEEEECCCcc--CchHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHh---ccCCCceE
Confidence            345688999999999998751  2222233333322   358999999999986322 12222222211   12234788


Q ss_pred             eeecccCCCHHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++|++++.|+++++++|.+.
T Consensus       148 ~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         148 PISALKGENVDELLEEIVKY  167 (168)
T ss_pred             EEEeccCCChHHHHHHHHhh
Confidence            99999999999999999765

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.

>cd00066 G-alpha G protein alpha subunit

Probab=99.18  E-value=4.7e-10  Score=72.08  Aligned_cols=107  Identities=25%  Similarity=0.402  Sum_probs=78.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDR----------DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----------   60 (110)
                      .|+.|.+|++++++++||+|.++.          ..+.++...+..+.......+.|+++++||.|+...          
T Consensus       174 ~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l~~~  253 (317)
T cd00066         174 ERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPLTDY  253 (317)
T ss_pred             cchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCcccc
Confidence            478999999999999999999863          457777788888887777778999999999996211          


Q ss_pred             --------CCHHHHH----hhh-CCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           61 --------MNAAEIT----DKL-GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        61 --------~~~~~~~----~~~-~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                              .+.+...    ..+ ......++.+.++.++|.+..++..+|+.+.+.+...
T Consensus       254 fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         254 FPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence                    1111111    111 1111123566778899999999999999998887654

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.18  E-value=1.9e-10  Score=76.52  Aligned_cols=92  Identities=17%  Similarity=0.171  Sum_probs=61.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEE
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      .++..+++.+|++++|+|+.+.....  ...+..++..   .++|+++|+||+|+.+....  ..+...+     ...++
T Consensus        70 ~~~~~~~~~ad~vl~vvD~~~~~~~~--d~~i~~~l~~---~~~piilVvNK~D~~~~~~~--~~~~~~l-----g~~~~  137 (429)
T TIGR03594        70 EQAEIAIEEADVILFVVDGREGLTPE--DEEIAKWLRK---SGKPVILVANKIDGKKEDAV--AAEFYSL-----GFGEP  137 (429)
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCHH--HHHHHHHHHH---hCCCEEEEEECccCCccccc--HHHHHhc-----CCCCe
Confidence            34566789999999999997642222  2233333332   46899999999998643211  1111111     11157


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++||.+|.|++++++++.+.+..
T Consensus       138 ~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       138 IPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             EEEeCCcCCChHHHHHHHHHhcCc
Confidence            899999999999999999887743

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.17  E-value=1.7e-10  Score=73.22  Aligned_cols=86  Identities=20%  Similarity=0.139  Sum_probs=59.8

Q ss_pred             hcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            8 YFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+.++|.+++|+|+.++. ++.....|+..+..    .++|+++|+||+|+.+... .......    ....+.+++.+|
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~----~~ip~iIVlNK~DL~~~~~-~~~~~~~----~~~~g~~v~~vS  145 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA----AGIEPVIVLTKADLLDDEE-EELELVE----ALALGYPVLAVS  145 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH----cCCCEEEEEEHHHCCChHH-HHHHHHH----HHhCCCeEEEEE
Confidence            478999999999998776 55555555554321    4689999999999964321 1111110    112345888999


Q ss_pred             cccCCCHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSN  102 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~  102 (110)
                      |+++.|+++++..+..
T Consensus       146 A~~g~gi~~L~~~L~~  161 (287)
T cd01854         146 AKTGEGLDELREYLKG  161 (287)
T ss_pred             CCCCccHHHHHhhhcc
Confidence            9999999999888764

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.17  E-value=3.6e-10  Score=74.41  Aligned_cols=93  Identities=17%  Similarity=0.207  Sum_probs=62.8

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceEEEee
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      .++.|+++++|+|++++  +.+.+..+..+..+   .+.++++|+||+|+.+.  ...++....+......-...+++.+
T Consensus       257 aI~~a~vvllviDa~~~--~~~qD~~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~i  331 (444)
T COG1160         257 AIERADVVLLVIDATEG--ISEQDLRIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFI  331 (444)
T ss_pred             HHhhcCEEEEEEECCCC--chHHHHHHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEE
Confidence            46789999999999875  33333344444433   57899999999998664  2233333222211112234588999


Q ss_pred             ecccCCCHHHHHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ||++|.|+.++++.+.....
T Consensus       332 SA~~~~~i~~l~~~i~~~~~  351 (444)
T COG1160         332 SALTGQGLDKLFEAIKEIYE  351 (444)
T ss_pred             EecCCCChHHHHHHHHHHHH
Confidence            99999999999998877654

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.16  E-value=6.2e-10  Score=67.77  Aligned_cols=105  Identities=24%  Similarity=0.302  Sum_probs=68.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH-HHhhh--------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE-ITDKL--------   70 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~-~~~~~--------   70 (110)
                      |+.+|..|+.+++++++|+|.+...+..+. ..|...+... .....|+++++||+|+........ +...+        
T Consensus        67 ~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  145 (219)
T COG1100          67 YRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELREL-APDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLV  145 (219)
T ss_pred             HHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHh-CCCCceEEEEecccccccchhHHHHHHhhhhcCcchhh
Confidence            367899999999999999999885554444 4454444332 223689999999999976532111 11000        


Q ss_pred             --CCCccc-CcceEEEeeecc--cCCCHHHHHHHHHHHHHh
Q 044598           71 --GLHSLR-QRHWYIQSTCAT--SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        71 --~~~~~~-~~~~~~~~~Sa~--~~~~i~~l~~~l~~~~~~  106 (110)
                        ...... .....++++|++  ++.++.+++..+...+..
T Consensus       146 ~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~  186 (219)
T COG1100         146 LAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLE  186 (219)
T ss_pred             hHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHH
Confidence              000000 112237899999  999999999988887753

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.16  E-value=6e-10  Score=63.84  Aligned_cols=95  Identities=17%  Similarity=0.202  Sum_probs=61.6

Q ss_pred             cchHHHhcccCCEEEEEEECCCh-hhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDR-DRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   79 (110)
                      +++|..++++++.++.++|.... .++.... .+...+..... .+.|+++++||+|+............+..    ...
T Consensus        64 ~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~----~~~  138 (161)
T TIGR00231        64 RAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAE-SNVPIILVGNKIDLRDAKLKTHVAFLFAK----LNG  138 (161)
T ss_pred             hHHHHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcc-cCCcEEEEEEcccCCcchhhHHHHHHHhh----ccC
Confidence            45778888999999999998654 3343333 23332222212 27899999999998654322222222211    122


Q ss_pred             eEEEeeecccCCCHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLS  101 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~  101 (110)
                      .+++++||+++.|+.+++++|.
T Consensus       139 ~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231       139 EPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             CceEEeecCCCCCHHHHHHHhh
Confidence            3588999999999999999874

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.15  E-value=2.6e-10  Score=76.02  Aligned_cols=88  Identities=19%  Similarity=0.234  Sum_probs=57.7

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      .+..+++.+|++++|+|+.+..+..  ..++..++..   .++|+++|+||+|+.+..  ....+...+.     ...++
T Consensus        73 ~~~~~~~~ad~il~vvd~~~~~~~~--~~~~~~~l~~---~~~piilv~NK~D~~~~~--~~~~~~~~lg-----~~~~~  140 (435)
T PRK00093         73 QAELAIEEADVILFVVDGRAGLTPA--DEEIAKILRK---SNKPVILVVNKVDGPDEE--ADAYEFYSLG-----LGEPY  140 (435)
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCHH--HHHHHHHHHH---cCCcEEEEEECccCccch--hhHHHHHhcC-----CCCCE
Confidence            3556789999999999998643322  2223333332   368999999999975421  1222221110     01357


Q ss_pred             eeecccCCCHHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++||++|.|++++++++.+.
T Consensus       141 ~iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        141 PISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             EEEeeCCCCHHHHHHHHHhh
Confidence            89999999999999999873

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.14  E-value=4.4e-10  Score=78.66  Aligned_cols=98  Identities=14%  Similarity=0.127  Sum_probs=63.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCC----Cccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGL----HSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~----~~~~   76 (110)
                      |..+|..+++.+|++|+|+|+++.... +....+..+ .   ..+.|+++++||+|+.+.. .+.+...+..    ....
T Consensus       308 F~~mr~rg~~~aDiaILVVDA~dGv~~-QT~E~I~~~-k---~~~iPiIVViNKiDl~~~~-~e~v~~eL~~~~ll~e~~  381 (742)
T CHL00189        308 FSSMRSRGANVTDIAILIIAADDGVKP-QTIEAINYI-Q---AANVPIIVAINKIDKANAN-TERIKQQLAKYNLIPEKW  381 (742)
T ss_pred             HHHHHHHHHHHCCEEEEEEECcCCCCh-hhHHHHHHH-H---hcCceEEEEEECCCccccC-HHHHHHHHHHhccchHhh
Confidence            456788899999999999998763211 111222222 1   1468999999999986532 2233222211    0001


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ...++++++||++|.|++++++++....
T Consensus       382 g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        382 GGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            1236899999999999999999987653

>PRK00098 GTPase RsgA; Reviewed

Probab=99.14  E-value=1.5e-10  Score=73.73  Aligned_cols=85  Identities=21%  Similarity=0.221  Sum_probs=56.5

Q ss_pred             cccCCEEEEEEECCChhhHHH-HHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcceEEEeee
Q 044598            9 FQNTQGLIFVVDSNDRDRVVE-ARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+++|++++|+|+.++..... ...++... ..   .++|+++|+||+|+.+... ..+....     +...+.+++.+|
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~-~~---~~ip~iIVlNK~DL~~~~~~~~~~~~~-----~~~~g~~v~~vS  148 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLA-EA---NGIKPIIVLNKIDLLDDLEEARELLAL-----YRAIGYDVLELS  148 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHH-HH---CCCCEEEEEEhHHcCCCHHHHHHHHHH-----HHHCCCeEEEEe
Confidence            589999999999987654333 23444333 22   4789999999999953211 1111111     112345789999


Q ss_pred             cccCCCHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSN  102 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~  102 (110)
                      |+++.|++++++.+..
T Consensus       149 A~~g~gi~~L~~~l~g  164 (298)
T PRK00098        149 AKEGEGLDELKPLLAG  164 (298)
T ss_pred             CCCCccHHHHHhhccC
Confidence            9999999999987753

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.13  E-value=5.6e-10  Score=63.94  Aligned_cols=98  Identities=18%  Similarity=0.309  Sum_probs=69.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCCcccCcceEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~   82 (110)
                      +=++|++-+|++++|++..++++|......-..+-+..+...+|+++.+||+|+.++... ......    +.....+..
T Consensus        77 Lprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~----Wa~rEkvkl  152 (198)
T KOG3883|consen   77 LPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQI----WAKREKVKL  152 (198)
T ss_pred             hhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHH----HHhhhheeE
Confidence            347899999999999999999988655432233333444467999999999999654321 111211    233445678


Q ss_pred             EeeecccCCCHHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+++|.+...+.+.|..+...+.
T Consensus       153 ~eVta~dR~sL~epf~~l~~rl~  175 (198)
T KOG3883|consen  153 WEVTAMDRPSLYEPFTYLASRLH  175 (198)
T ss_pred             EEEEeccchhhhhHHHHHHHhcc
Confidence            89999999999999998887663

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.12  E-value=7.2e-10  Score=76.17  Aligned_cols=96  Identities=20%  Similarity=0.230  Sum_probs=61.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh---CCCc-cc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL---GLHS-LR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~---~~~~-~~   76 (110)
                      |..++..++..+|++++|+|+++... .+....+... .   ..+.|+++++||+|+.+.. .+.+...+   +... ..
T Consensus       148 F~~~r~rga~~aDiaILVVda~dgv~-~qT~e~i~~~-~---~~~vPiIVviNKiDl~~~~-~e~v~~~L~~~g~~~~~~  221 (587)
T TIGR00487       148 FTSMRARGAKVTDIVVLVVAADDGVM-PQTIEAISHA-K---AANVPIIVAINKIDKPEAN-PDRVKQELSEYGLVPEDW  221 (587)
T ss_pred             hhhHHHhhhccCCEEEEEEECCCCCC-HhHHHHHHHH-H---HcCCCEEEEEECcccccCC-HHHHHHHHHHhhhhHHhc
Confidence            45677888999999999999875321 1112222221 1   1468999999999986532 22332222   1100 00


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ....+++++||++|+|++++++++..
T Consensus       222 ~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       222 GGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             CCCceEEEEECCCCCChHHHHHhhhh
Confidence            12347899999999999999999864

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.11  E-value=6e-10  Score=73.76  Aligned_cols=97  Identities=15%  Similarity=0.130  Sum_probs=59.2

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcc
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRH   79 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~   79 (110)
                      .+......+|++++|+|+++.....+....+..+ ..  ...+|+++++||+|+.+....    +++...+.  ......
T Consensus        96 ~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l-~~--~gi~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~--~~~~~~  170 (406)
T TIGR03680        96 TMLSGAALMDGALLVIAANEPCPQPQTKEHLMAL-EI--IGIKNIVIVQNKIDLVSKEKALENYEEIKEFVK--GTVAEN  170 (406)
T ss_pred             HHHHHHHHCCEEEEEEECCCCccccchHHHHHHH-HH--cCCCeEEEEEEccccCCHHHHHHHHHHHHhhhh--hcccCC
Confidence            3445566789999999998532111222222222 11  123579999999998653211    12222111  011235


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++++||++|.|+++++++|...+.
T Consensus       171 ~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       171 APIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHhCC
Confidence            68999999999999999999988654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.10  E-value=1e-09  Score=77.34  Aligned_cols=97  Identities=21%  Similarity=0.229  Sum_probs=62.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh---CC-Cccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL---GL-HSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~---~~-~~~~   76 (110)
                      |..++..+++.+|++|+|+|+++... .+....+...    ...+.|+++++||+|+.+.. .+.+...+   +. ....
T Consensus       350 F~~m~~rga~~aDiaILVVdAddGv~-~qT~e~i~~a----~~~~vPiIVviNKiDl~~a~-~e~V~~eL~~~~~~~e~~  423 (787)
T PRK05306        350 FTAMRARGAQVTDIVVLVVAADDGVM-PQTIEAINHA----KAAGVPIIVAINKIDKPGAN-PDRVKQELSEYGLVPEEW  423 (787)
T ss_pred             chhHHHhhhhhCCEEEEEEECCCCCC-HhHHHHHHHH----HhcCCcEEEEEECccccccC-HHHHHHHHHHhcccHHHh
Confidence            45678888999999999999976311 1111222221    12468999999999996532 22222211   11 0001


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ...++++++||++|.|++++++++...
T Consensus       424 g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        424 GGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             CCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            123689999999999999999998753

>COG2262 HflX GTPases [General function prediction only]

Probab=99.10  E-value=2.1e-09  Score=70.03  Aligned_cols=89  Identities=20%  Similarity=0.215  Sum_probs=60.2

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeeccc
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATS   89 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~   89 (110)
                      ..||++++|+|+++|...... .-...++.+-...++|+++|+||+|+.....   .......    ..+ ..+.+||++
T Consensus       270 ~~aDlllhVVDaSdp~~~~~~-~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~---~~~~~~~----~~~-~~v~iSA~~  340 (411)
T COG2262         270 KEADLLLHVVDASDPEILEKL-EAVEDVLAEIGADEIPIILVLNKIDLLEDEE---ILAELER----GSP-NPVFISAKT  340 (411)
T ss_pred             hcCCEEEEEeecCChhHHHHH-HHHHHHHHHcCCCCCCEEEEEecccccCchh---hhhhhhh----cCC-CeEEEEecc
Confidence            479999999999998544333 2233444443445699999999999754322   1111110    112 456899999


Q ss_pred             CCCHHHHHHHHHHHHHhh
Q 044598           90 GEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        90 ~~~i~~l~~~l~~~~~~~  107 (110)
                      |.|++.+.+.|.+.+...
T Consensus       341 ~~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         341 GEGLDLLRERIIELLSGL  358 (411)
T ss_pred             CcCHHHHHHHHHHHhhhc
Confidence            999999999999988643

>COG1159 Era GTPase [General function prediction only]

Probab=99.09  E-value=7.2e-10  Score=69.57  Aligned_cols=93  Identities=15%  Similarity=0.182  Sum_probs=63.9

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcceEEEe
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .+.+.++|+++||+|++++..  ..+.++...+..   .+.|++++.||+|...... ...+.+....   ......+++
T Consensus        80 ~~sl~dvDlilfvvd~~~~~~--~~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~---~~~f~~ivp  151 (298)
T COG1159          80 RSALKDVDLILFVVDADEGWG--PGDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKK---LLPFKEIVP  151 (298)
T ss_pred             HHHhccCcEEEEEEeccccCC--ccHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHh---hCCcceEEE
Confidence            456889999999999986422  233444444433   3579999999999865543 1222222211   122337999


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|.|++.+.+.+...+..
T Consensus       152 iSA~~g~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         152 ISALKGDNVDTLLEIIKEYLPE  173 (298)
T ss_pred             eeccccCCHHHHHHHHHHhCCC
Confidence            9999999999999999988864

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.09  E-value=1.2e-09  Score=75.08  Aligned_cols=95  Identities=21%  Similarity=0.181  Sum_probs=60.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NA   63 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~   63 (110)
                      |+.++..+++.+|++++|+|+++   +.+++..    . .+..   .+.|+++++||+|+.+..              ..
T Consensus        82 f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i----~-~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~  153 (590)
T TIGR00491        82 FTNLRKRGGALADLAILIVDINEGFKPQTQEAL----N-ILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQE  153 (590)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHH----H-HHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhh
Confidence            45677888999999999999986   3333222    1 1211   468999999999985321              00


Q ss_pred             HHHH--------------hhhCCCc-------ccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           64 AEIT--------------DKLGLHS-------LRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        64 ~~~~--------------~~~~~~~-------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +.+.              ...++..       ......+++++||++|+|++++..++...
T Consensus       154 ~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l  214 (590)
T TIGR00491       154 IQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGL  214 (590)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHH
Confidence            0010              0011110       01234689999999999999999988653

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.09  E-value=1.9e-10  Score=75.05  Aligned_cols=95  Identities=24%  Similarity=0.253  Sum_probs=60.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhC--CCcccCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLG--LHSLRQR   78 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~--~~~~~~~   78 (110)
                      +.+...++.+++++++|+|+.+...  .....+.+.+     .++|+++|+||+|+.+.. ..+.+..++.  .....-.
T Consensus        54 ~~~l~~~~~~~~~Il~VvD~~d~~~--s~~~~l~~~~-----~~~piilV~NK~DLl~k~~~~~~~~~~l~~~~k~~g~~  126 (360)
T TIGR03597        54 LNLLNSLGDSNALIVYVVDIFDFEG--SLIPELKRFV-----GGNPVLLVGNKIDLLPKSVNLSKIKEWMKKRAKELGLK  126 (360)
T ss_pred             HHHHhhcccCCcEEEEEEECcCCCC--CccHHHHHHh-----CCCCEEEEEEchhhCCCCCCHHHHHHHHHHHHHHcCCC
Confidence            4566778889999999999976532  1112233322     367999999999986432 2233332210  0000001


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ...++.+||++|.|++++++.+.+.
T Consensus       127 ~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       127 PVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCcEEEecCCCCCCHHHHHHHHHHH
Confidence            1247889999999999999999765

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.09  E-value=6.3e-10  Score=76.62  Aligned_cols=89  Identities=20%  Similarity=0.182  Sum_probs=57.2

Q ss_pred             HHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEE
Q 044598            5 WRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         5 ~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      ++.|+.  ++|++++|+|+++.+.   ...+.....+    .+.|+++|+||+|+.+......-.+.+.    ...+.++
T Consensus        64 ~~~~l~~~~aDvvI~VvDat~ler---~l~l~~ql~~----~~~PiIIVlNK~Dl~~~~~i~~d~~~L~----~~lg~pv  132 (591)
T TIGR00437        64 ARDYLLNEKPDLVVNVVDASNLER---NLYLTLQLLE----LGIPMILALNLVDEAEKKGIRIDEEKLE----ERLGVPV  132 (591)
T ss_pred             HHHHHhhcCCCEEEEEecCCcchh---hHHHHHHHHh----cCCCEEEEEehhHHHHhCCChhhHHHHH----HHcCCCE
Confidence            444543  7999999999986432   1222222221    4689999999999854322111011110    1123578


Q ss_pred             EeeecccCCCHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++||++|+|++++++++.+..
T Consensus       133 v~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       133 VPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999999999998753

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.

>PRK13768 GTPase; Provisional

Probab=99.08  E-value=4e-10  Score=70.32  Aligned_cols=94  Identities=16%  Similarity=0.059  Sum_probs=57.0

Q ss_pred             CCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCC--------Cc--------
Q 044598           12 TQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGL--------HS--------   74 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~--------~~--------   74 (110)
                      ++++++|+|+.......+.. .++....... ..++|+++|+||+|+.+....+.....+..        ..        
T Consensus       129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~  207 (253)
T PRK13768        129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLSEEELERILKWLEDPEYLLEELKLEKGLQGLL  207 (253)
T ss_pred             CeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcCchhHHHHHHHHhCHHHHHHHHhcccchHHHH
Confidence            88999999996533222221 1111111100 147899999999998655333332222210        00        


Q ss_pred             -------c--cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           75 -------L--RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        75 -------~--~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                             +  .....+++++||++++|++++.+++.+.+..
T Consensus       208 ~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~  248 (253)
T PRK13768        208 SLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCG  248 (253)
T ss_pred             HHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCC
Confidence                   0  0123478999999999999999999988753

>cd01856 YlqF YlqF

Probab=99.07  E-value=7.2e-10  Score=65.39  Aligned_cols=88  Identities=16%  Similarity=0.115  Sum_probs=57.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ....+++||++++|+|+.++.....  ..+....     .++|.++|+||+|+.+........+.+.     .....++.
T Consensus        13 ~~~~i~~aD~il~v~D~~~~~~~~~--~~i~~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~-----~~~~~vi~   80 (171)
T cd01856          13 IKEKLKLVDLVIEVRDARIPLSSRN--PLLEKIL-----GNKPRIIVLNKADLADPKKTKKWLKYFE-----SKGEKVLF   80 (171)
T ss_pred             HHHHHhhCCEEEEEeeccCccCcCC--hhhHhHh-----cCCCEEEEEehhhcCChHHHHHHHHHHH-----hcCCeEEE
Confidence            3456889999999999976532111  1122221     3578999999999853311111111111     11235788


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +||+++.|++++.+.+.+.+
T Consensus        81 iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          81 VNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             EECCCcccHHHHHHHHHHHH
Confidence            99999999999999998875

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.

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.07  E-value=1.9e-09  Score=72.53  Aligned_cols=91  Identities=15%  Similarity=0.200  Sum_probs=63.5

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccCcceEEE
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ..+.-|+++|+|+|+.+-..-. ....+...++    .+..+|.|.||+|++.+.+.   .++.+.+.+     .+.+++
T Consensus       144 Rslaac~G~lLvVDA~qGvqAQ-T~anf~lAfe----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~-----~~~~~i  213 (650)
T KOG0462|consen  144 RSLAACDGALLVVDASQGVQAQ-TVANFYLAFE----AGLAIIPVLNKIDLPSADPERVENQLFELFDI-----PPAEVI  213 (650)
T ss_pred             ehhhhcCceEEEEEcCcCchHH-HHHHHHHHHH----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcC-----CccceE
Confidence            3467899999999998632222 2222222332    46779999999999877543   233444443     233788


Q ss_pred             eeecccCCCHHHHHHHHHHHHHhh
Q 044598           84 STCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+||++|.|++++++++.+.++.-
T Consensus       214 ~vSAK~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  214 YVSAKTGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             EEEeccCccHHHHHHHHHhhCCCC
Confidence            999999999999999999988643

>PRK12288 GTPase RsgA; Reviewed

Probab=99.06  E-value=1e-09  Score=71.21  Aligned_cols=90  Identities=20%  Similarity=0.150  Sum_probs=60.3

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      ..++|.+++|++.....++.....|+... .   ..++|.++|+||+|+.+............  .+...+.+++.+||+
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a-~---~~~i~~VIVlNK~DL~~~~~~~~~~~~~~--~y~~~g~~v~~vSA~  191 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVAC-E---TLGIEPLIVLNKIDLLDDEGRAFVNEQLD--IYRNIGYRVLMVSSH  191 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHH-H---hcCCCEEEEEECccCCCcHHHHHHHHHHH--HHHhCCCeEEEEeCC
Confidence            46799999999977555566666665533 2   24689999999999965322111111111  012234588999999


Q ss_pred             cCCCHHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNNI  104 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~  104 (110)
                      ++.|++++++.+...+
T Consensus       192 tg~GideL~~~L~~ki  207 (347)
T PRK12288        192 TGEGLEELEAALTGRI  207 (347)
T ss_pred             CCcCHHHHHHHHhhCC
Confidence            9999999999887543

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=99.05  E-value=8.3e-10  Score=69.73  Aligned_cols=90  Identities=12%  Similarity=0.098  Sum_probs=59.2

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ....++.||++++|+|+..+.+...  ..+.+.+     .++|+++|.||+|+.+........+.+.     ..+.+++.
T Consensus        15 ~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l-----~~kp~IiVlNK~DL~~~~~~~~~~~~~~-----~~~~~vi~   82 (276)
T TIGR03596        15 IKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR-----GNKPRLIVLNKADLADPAVTKQWLKYFE-----EKGIKALA   82 (276)
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH-----CCCCEEEEEEccccCCHHHHHHHHHHHH-----HcCCeEEE
Confidence            3556889999999999976533211  2233333     3579999999999853211112111221     11236788


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||+++.|++++.+.+.+.+..
T Consensus        83 iSa~~~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        83 INAKKGKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             EECCCcccHHHHHHHHHHHHHH
Confidence            9999999999999988877653

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.05  E-value=1.6e-09  Score=63.00  Aligned_cols=83  Identities=17%  Similarity=0.169  Sum_probs=52.3

Q ss_pred             CEEEEEEECCChhhHHHHHHHHH-HHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCC
Q 044598           13 QGLIFVVDSNDRDRVVEARDELH-RMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGE   91 (110)
Q Consensus        13 ~~~i~v~d~~~~~~~~~~~~~~~-~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~   91 (110)
                      |++++|+|+.++.....  .++. ..+..   .++|+++|+||+|+.+..........+.    ......++.+||+++.
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~~~~~~---~~~p~IiVlNK~Dl~~~~~~~~~~~~~~----~~~~~~ii~vSa~~~~   71 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIERVLIKE---KGKKLILVLNKADLVPKEVLRKWLAYLR----HSYPTIPFKISATNGQ   71 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHHHHHhc---CCCCEEEEEechhcCCHHHHHHHHHHHH----hhCCceEEEEeccCCc
Confidence            78999999987643321  2232 22222   4689999999999853211111111111    0123467899999999


Q ss_pred             CHHHHHHHHHHHH
Q 044598           92 GLYEGLDWLSNNI  104 (110)
Q Consensus        92 ~i~~l~~~l~~~~  104 (110)
                      |++++.+.+.+..
T Consensus        72 gi~~L~~~i~~~~   84 (155)
T cd01849          72 GIEKKESAFTKQT   84 (155)
T ss_pred             ChhhHHHHHHHHh
Confidence            9999999887653

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.04  E-value=1.2e-09  Score=71.97  Aligned_cols=87  Identities=21%  Similarity=0.256  Sum_probs=61.2

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhh--hCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDK--LGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~--~~~~~~~~~~~~   81 (110)
                      +....++.||++|||+|..+-  ....+..+.+++..   .++|+++|.||+|..+..  +...+.  +++.       +
T Consensus        76 Qa~~Ai~eADvilfvVD~~~G--it~~D~~ia~~Lr~---~~kpviLvvNK~D~~~~e--~~~~efyslG~g-------~  141 (444)
T COG1160          76 QALIAIEEADVILFVVDGREG--ITPADEEIAKILRR---SKKPVILVVNKIDNLKAE--ELAYEFYSLGFG-------E  141 (444)
T ss_pred             HHHHHHHhCCEEEEEEeCCCC--CCHHHHHHHHHHHh---cCCCEEEEEEcccCchhh--hhHHHHHhcCCC-------C
Confidence            345567899999999998752  33334455555543   569999999999975322  122222  2221       4


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+.+||..|.|+.++++++.+.+
T Consensus       142 ~~~ISA~Hg~Gi~dLld~v~~~l  164 (444)
T COG1160         142 PVPISAEHGRGIGDLLDAVLELL  164 (444)
T ss_pred             ceEeehhhccCHHHHHHHHHhhc
Confidence            56899999999999999999886

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.04  E-value=7.2e-10  Score=66.36  Aligned_cols=96  Identities=15%  Similarity=0.176  Sum_probs=58.0

Q ss_pred             HHHhcccC---CEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            5 WRHYFQNT---QGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         5 ~~~~~~~~---~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ...|++.+   +++++|+|.+.+....+  .++...+..   .+.|+++++||+|+.+....+........ .......+
T Consensus        97 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~--~~i~~~l~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~-~l~~~~~~  170 (196)
T PRK00454         97 IEEYLRTRENLKGVVLLIDSRHPLKELD--LQMIEWLKE---YGIPVLIVLTKADKLKKGERKKQLKKVRK-ALKFGDDE  170 (196)
T ss_pred             HHHHHHhCccceEEEEEEecCCCCCHHH--HHHHHHHHH---cCCcEEEEEECcccCCHHHHHHHHHHHHH-HHHhcCCc
Confidence            34555544   67888899775432221  222233322   46889999999998643222221111100 01111457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++||++++|++++++.+.+.+..
T Consensus       171 ~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        171 VILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            8899999999999999999887653

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.04  E-value=3.9e-10  Score=64.59  Aligned_cols=78  Identities=13%  Similarity=0.149  Sum_probs=47.2

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      ..++++|++++|+|+.++.+..  ...+.+.+.... .++|+++|+||+|+.+..........+     ......++.+|
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~--~~~l~~~l~~~~-~~k~~iivlNK~DL~~~~~~~~~~~~~-----~~~~~~ii~iS   78 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFR--PPDLERYVKEVD-PRKKNILLLNKADLLTEEQRKAWAEYF-----KKEGIVVVFFS   78 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccC--CHHHHHHHHhcc-CCCcEEEEEechhcCCHHHHHHHHHHH-----HhcCCeEEEEE
Confidence            3589999999999998764322  112333332211 468999999999985322111222222     12234678899


Q ss_pred             cccCCC
Q 044598           87 ATSGEG   92 (110)
Q Consensus        87 a~~~~~   92 (110)
                      |+++.+
T Consensus        79 a~~~~~   84 (141)
T cd01857          79 ALKENA   84 (141)
T ss_pred             ecCCCc
Confidence            987764

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.03  E-value=1.2e-09  Score=75.20  Aligned_cols=96  Identities=19%  Similarity=0.093  Sum_probs=59.3

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCCH----HHHHhhhCCCcccCc
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNA----AEITDKLGLHSLRQR   78 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~   78 (110)
                      .+..++.++|++++|+|+++... .+....+. ++..   .+.| +++|+||+|+.+....    +++...+.... ...
T Consensus        66 ~~~~g~~~aD~aILVVDa~~G~~-~qT~ehl~-il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~-~~~  139 (581)
T TIGR00475        66 NAIAGGGGIDAALLVVDADEGVM-TQTGEHLA-VLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYI-FLK  139 (581)
T ss_pred             HHHhhhccCCEEEEEEECCCCCc-HHHHHHHH-HHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhC-CCC
Confidence            34556789999999999986211 11122222 1221   3566 9999999998643211    11222111000 012


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++||++|+|+++++.++.+.+.
T Consensus       140 ~~~ii~vSA~tG~GI~eL~~~L~~l~~  166 (581)
T TIGR00475       140 NAKIFKTSAKTGQGIGELKKELKNLLE  166 (581)
T ss_pred             CCcEEEEeCCCCCCchhHHHHHHHHHH
Confidence            468999999999999999998877654

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.02  E-value=5.2e-10  Score=68.46  Aligned_cols=87  Identities=18%  Similarity=0.155  Sum_probs=49.3

Q ss_pred             HHhcccCCEEEEEEECCChh------hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-C---HHHHHh----hhC
Q 044598            6 RHYFQNTQGLIFVVDSNDRD------RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-N---AAEITD----KLG   71 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~------~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~---~~~~~~----~~~   71 (110)
                      ...+..+|++++|+|+++..      ........+. ....  ...+|+++++||+|+.... .   .+.+..    .+.
T Consensus        95 ~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~  171 (219)
T cd01883          95 ITGASQADVAVLVVDARKGEFEAGFEKGGQTREHAL-LART--LGVKQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLK  171 (219)
T ss_pred             HHHhhhCCEEEEEEECCCCccccccccccchHHHHH-HHHH--cCCCeEEEEEEccccccccccHHHHHHHHHHHHHHHH
Confidence            34456799999999998631      0111111111 1111  1237899999999997421 1   112222    121


Q ss_pred             CCcccCcceEEEeeecccCCCHHH
Q 044598           72 LHSLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        72 ~~~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      ........++++++||++|.|+++
T Consensus       172 ~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         172 KVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             HcCCCcCCceEEEeecCcCCCCCc
Confidence            111123357899999999999873

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

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.01  E-value=4e-09  Score=69.98  Aligned_cols=90  Identities=16%  Similarity=0.162  Sum_probs=54.6

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcceEEEeee
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+|++++|+|++++.........+..+ ..  ....|+++|+||+|+.+....    +++...+..  ......+++++|
T Consensus       108 ~~D~~llVVDa~~~~~~~~t~~~l~~l-~~--~~i~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~ii~vS  182 (411)
T PRK04000        108 LMDGAILVIAANEPCPQPQTKEHLMAL-DI--IGIKNIVIVQNKIDLVSKERALENYEQIKEFVKG--TVAENAPIIPVS  182 (411)
T ss_pred             hCCEEEEEEECCCCCCChhHHHHHHHH-HH--cCCCcEEEEEEeeccccchhHHHHHHHHHHHhcc--ccCCCCeEEEEE
Confidence            469999999998532111111222211 11  123578999999998653221    122222110  112346889999


Q ss_pred             cccCCCHHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~  105 (110)
                      |++|.|+++++++|.+.+.
T Consensus       183 A~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        183 ALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             CCCCcCHHHHHHHHHHhCC
Confidence            9999999999999988764

>PRK09866 hypothetical protein; Provisional

Probab=98.99  E-value=3.3e-09  Score=73.02  Aligned_cols=94  Identities=15%  Similarity=0.128  Sum_probs=59.2

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhC--CCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLG--LHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~--~~~~~~~~~~   81 (110)
                      ...+.++|+++||+|+....+..+  ..+.+.+.... .+.|+++|+||+|..+...  .+.+.....  +.........
T Consensus       253 ~eqL~eADvVLFVVDat~~~s~~D--eeIlk~Lkk~~-K~~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~e  329 (741)
T PRK09866        253 NQQLARASAVLAVLDYTQLKSISD--EEVREAILAVG-QSVPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQ  329 (741)
T ss_pred             HHHHhhCCEEEEEEeCCCCCChhH--HHHHHHHHhcC-CCCCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCce
Confidence            346899999999999986433222  22333333211 1359999999999854221  233333221  1011123447


Q ss_pred             EEeeecccCCCHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++++||++|.|++++++.+.+
T Consensus       330 IfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        330 IFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            999999999999999998876

>PRK10218 GTP-binding protein; Provisional

Probab=98.98  E-value=4.7e-09  Score=72.43  Aligned_cols=101  Identities=16%  Similarity=0.130  Sum_probs=66.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCC-Ccc-
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGL-HSL-   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~-~~~-   75 (110)
                      |...|..+++.+|++|+|+|+++... .+....+.....    .+.|.++++||+|+.+....   +++.+.+.. ... 
T Consensus        81 f~~~v~~~l~~aDg~ILVVDa~~G~~-~qt~~~l~~a~~----~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~  155 (607)
T PRK10218         81 FGGEVERVMSMVDSVLLVVDAFDGPM-PQTRFVTKKAFA----YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATD  155 (607)
T ss_pred             hHHHHHHHHHhCCEEEEEEecccCcc-HHHHHHHHHHHH----cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccc
Confidence            45678889999999999999976322 222333333322    46889999999998765432   223333211 101 


Q ss_pred             cCcceEEEeeecccCC----------CHHHHHHHHHHHHHh
Q 044598           76 RQRHWYIQSTCATSGE----------GLYEGLDWLSNNIAN  106 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~----------~i~~l~~~l~~~~~~  106 (110)
                      ....++++.+||.+|.          |+..+++.+.+.++.
T Consensus       156 ~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~  196 (607)
T PRK10218        156 EQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPA  196 (607)
T ss_pred             cccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCC
Confidence            1235789999999998          588888888887653

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.98  E-value=8.5e-09  Score=68.62  Aligned_cols=90  Identities=22%  Similarity=0.300  Sum_probs=61.9

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccCcceEEEe
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .+..|.++++|+|+++--.-..... ..-.+.    .+..++-|.||+||+.+.+.   +++.+.++++.     ...+.
T Consensus        96 SLAACEGalLvVDAsQGveAQTlAN-~YlAle----~~LeIiPViNKIDLP~Adpervk~eIe~~iGid~-----~dav~  165 (603)
T COG0481          96 SLAACEGALLVVDASQGVEAQTLAN-VYLALE----NNLEIIPVLNKIDLPAADPERVKQEIEDIIGIDA-----SDAVL  165 (603)
T ss_pred             hHhhCCCcEEEEECccchHHHHHHH-HHHHHH----cCcEEEEeeecccCCCCCHHHHHHHHHHHhCCCc-----chhee
Confidence            3678999999999986322222112 222222    46789999999999877542   33444455432     25668


Q ss_pred             eecccCCCHHHHHHHHHHHHHhh
Q 044598           85 TCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +||++|.|++++++.+.+.++.-
T Consensus       166 ~SAKtG~gI~~iLe~Iv~~iP~P  188 (603)
T COG0481         166 VSAKTGIGIEDVLEAIVEKIPPP  188 (603)
T ss_pred             EecccCCCHHHHHHHHHhhCCCC
Confidence            99999999999999999988643

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.97  E-value=7.9e-09  Score=63.51  Aligned_cols=86  Identities=20%  Similarity=0.173  Sum_probs=52.4

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcc-----------
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSL-----------   75 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~-----------   75 (110)
                      .+|++++|+|+..... ......+. ++..   .++|+++|.||+|+.+....    .++...+.....           
T Consensus       109 ~~D~~llVvda~~g~~-~~d~~~l~-~l~~---~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~  183 (224)
T cd04165         109 APDYAMLVVAANAGII-GMTKEHLG-LALA---LNIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPVPVKSDD  183 (224)
T ss_pred             CCCEEEEEEECCCCCc-HHHHHHHH-HHHH---cCCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccceeeeccc
Confidence            6899999999875422 11122222 2222   46899999999998543211    122222221100           


Q ss_pred             ----------cCcceEEEeeecccCCCHHHHHHHHH
Q 044598           76 ----------RQRHWYIQSTCATSGEGLYEGLDWLS  101 (110)
Q Consensus        76 ----------~~~~~~~~~~Sa~~~~~i~~l~~~l~  101 (110)
                                .....+++.+||.+|+|++++.+.|.
T Consensus       184 ~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         184 DVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             ceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence                      11234899999999999999987764

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

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.97  E-value=2.3e-09  Score=68.05  Aligned_cols=90  Identities=13%  Similarity=0.134  Sum_probs=59.1

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ....++.||++++|+|+.++.+...  .++....     .++|.++|.||+|+.+....+.....+.     ..+.+++.
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~-----~~kp~iiVlNK~DL~~~~~~~~~~~~~~-----~~~~~vi~   85 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSEN--PMIDKII-----GNKPRLLILNKSDLADPEVTKKWIEYFE-----EQGIKALA   85 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh-----CCCCEEEEEEchhcCCHHHHHHHHHHHH-----HcCCeEEE
Confidence            3456889999999999976533211  2233333     2589999999999853211112222111     11246788


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||+++.|++++.+.+.+.+..
T Consensus        86 vSa~~~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         86 INAKKGQGVKKILKAAKKLLKE  107 (287)
T ss_pred             EECCCcccHHHHHHHHHHHHHH
Confidence            9999999999999988877654

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.95  E-value=4.4e-09  Score=72.50  Aligned_cols=100  Identities=18%  Similarity=0.200  Sum_probs=66.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcc--c
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSL--R   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~--~   76 (110)
                      ...+..+++.+|++++|+|+++. ...+...++.....    .+.|.++|+||+|+.+....   .++...+.....  .
T Consensus        78 ~~ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~----~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e  152 (594)
T TIGR01394        78 GGEVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALE----LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDE  152 (594)
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHH----CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccc
Confidence            34567789999999999999753 23334445554432    46889999999998654321   222222210001  1


Q ss_pred             CcceEEEeeecccCC----------CHHHHHHHHHHHHHh
Q 044598           77 QRHWYIQSTCATSGE----------GLYEGLDWLSNNIAN  106 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~----------~i~~l~~~l~~~~~~  106 (110)
                      ...++++++||++|.          |+..+++.+.+.++.
T Consensus       153 ~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~  192 (594)
T TIGR01394       153 QLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPA  192 (594)
T ss_pred             cccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCC
Confidence            224578999999995          799999999888753

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=98.92  E-value=1.4e-09  Score=64.53  Aligned_cols=81  Identities=17%  Similarity=0.260  Sum_probs=48.6

Q ss_pred             HHhccc---CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCc
Q 044598            6 RHYFQN---TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQR   78 (110)
Q Consensus         6 ~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~   78 (110)
                      ..|++.   ++++++|+|++++-+....  .+...+..   .++|+++++||+|+.....    .+++...+..   ...
T Consensus        92 ~~~l~~~~~~~~ii~vvd~~~~~~~~~~--~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~---~~~  163 (179)
T TIGR03598        92 EEYLEKRENLKGVVLLMDIRHPLKELDL--EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKK---DAD  163 (179)
T ss_pred             HHHHHhChhhcEEEEEecCCCCCCHHHH--HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhh---ccC
Confidence            345553   5799999998764222221  22223322   4689999999999864321    1222333221   122


Q ss_pred             ceEEEeeecccCCCHH
Q 044598           79 HWYIQSTCATSGEGLY   94 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~   94 (110)
                      .++++++||++|+|++
T Consensus       164 ~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       164 DPSVQLFSSLKKTGID  179 (179)
T ss_pred             CCceEEEECCCCCCCC
Confidence            3479999999999974

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.92  E-value=1.3e-08  Score=67.34  Aligned_cols=88  Identities=20%  Similarity=0.219  Sum_probs=60.0

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEee
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ...+++||.++||+|++.+.+-.+  ..+...    ...++|+++|.||.|+.........  .     . ....+++.+
T Consensus       291 ~~~i~~ADlvL~v~D~~~~~~~~d--~~~~~~----~~~~~~~i~v~NK~DL~~~~~~~~~--~-----~-~~~~~~i~i  356 (454)
T COG0486         291 KKAIEEADLVLFVLDASQPLDKED--LALIEL----LPKKKPIIVVLNKADLVSKIELESE--K-----L-ANGDAIISI  356 (454)
T ss_pred             HHHHHhCCEEEEEEeCCCCCchhh--HHHHHh----cccCCCEEEEEechhcccccccchh--h-----c-cCCCceEEE
Confidence            345889999999999987522221  112221    1247999999999999765432221  1     0 122367899


Q ss_pred             ecccCCCHHHHHHHHHHHHHhh
Q 044598           86 CATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ||++|+|++.+.+.|.+.....
T Consensus       357 Sa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         357 SAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             EecCccCHHHHHHHHHHHHhhc
Confidence            9999999999999998877654

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=98.91  E-value=4.3e-09  Score=70.14  Aligned_cols=85  Identities=16%  Similarity=0.149  Sum_probs=49.2

Q ss_pred             hcccCCEEEEEEECCChhhH--HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC------HHHHHhhhCCCcccCcc
Q 044598            8 YFQNTQGLIFVVDSNDRDRV--VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN------AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~------~~~~~~~~~~~~~~~~~   79 (110)
                      .+..+|++++|+|+++.+..  .....++. +...  ....|+++++||+|+.+...      .+++...+.........
T Consensus       105 ~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~--~~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~  181 (426)
T TIGR00483       105 GASQADAAVLVVAVGDGEFEVQPQTREHAF-LART--LGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDT  181 (426)
T ss_pred             hhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHH--cCCCeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCccc
Confidence            45789999999999875321  11111111 1111  12367999999999964221      11222222111112234


Q ss_pred             eEEEeeecccCCCHHH
Q 044598           80 WYIQSTCATSGEGLYE   95 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~   95 (110)
                      ++++++||++|.|+++
T Consensus       182 ~~~i~iSA~~g~ni~~  197 (426)
T TIGR00483       182 VPFIPISAWNGDNVIK  197 (426)
T ss_pred             ceEEEeeccccccccc
Confidence            6899999999999986

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.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.91  E-value=2.5e-08  Score=66.93  Aligned_cols=88  Identities=22%  Similarity=0.212  Sum_probs=57.4

Q ss_pred             cccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHh--hhCCCcc-cCcceEE
Q 044598            9 FQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITD--KLGLHSL-RQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~--~~~~~~~-~~~~~~~   82 (110)
                      .+-+|.+++|+|+.+   |++.+.    +... +   ..+.|++++.||+|.++..+.....+  ..++... -.....+
T Consensus        76 a~vtDIaILVVa~dDGv~pQTiEA----I~ha-k---~a~vP~iVAiNKiDk~~~np~~v~~el~~~gl~~E~~gg~v~~  147 (509)
T COG0532          76 ASVTDIAILVVAADDGVMPQTIEA----INHA-K---AAGVPIVVAINKIDKPEANPDKVKQELQEYGLVPEEWGGDVIF  147 (509)
T ss_pred             CccccEEEEEEEccCCcchhHHHH----HHHH-H---HCCCCEEEEEecccCCCCCHHHHHHHHHHcCCCHhhcCCceEE
Confidence            456899999999886   333322    2221 1   15899999999999986643322111  1122211 1344689


Q ss_pred             EeeecccCCCHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++||++|+|+++++..+.-..
T Consensus       148 VpvSA~tg~Gi~eLL~~ill~a  169 (509)
T COG0532         148 VPVSAKTGEGIDELLELILLLA  169 (509)
T ss_pred             EEeeccCCCCHHHHHHHHHHHH
Confidence            9999999999999998776543

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.89  E-value=3.8e-08  Score=67.91  Aligned_cols=94  Identities=23%  Similarity=0.252  Sum_probs=59.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--------------H
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--------------A   63 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--------------~   63 (110)
                      |+.++...++.+|++++|+|+++   +.++...    . .+..   .+.|+++++||+|+.....              .
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i----~-~~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~  155 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAI----N-ILKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQS  155 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHH----H-HHHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhh
Confidence            34567777889999999999986   3333322    1 1211   4689999999999852110              0


Q ss_pred             HH-----------HHhhh---CCCc-------ccCcceEEEeeecccCCCHHHHHHHHHH
Q 044598           64 AE-----------ITDKL---GLHS-------LRQRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        64 ~~-----------~~~~~---~~~~-------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ..           +...+   ++..       ......+++++||++|+|+++++..+..
T Consensus       156 ~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        156 QRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHH
Confidence            00           10111   1110       0113468999999999999999988764

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.88  E-value=1e-08  Score=65.64  Aligned_cols=97  Identities=22%  Similarity=0.211  Sum_probs=60.3

Q ss_pred             hcccCCEEEEEEECCChh---hHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcceEE
Q 044598            8 YFQNTQGLIFVVDSNDRD---RVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~---~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      .+++|.++++|+|++..+   ..+++.....++-+. ..+.++|.++|+||+|+.... ..+.....+..  .......+
T Consensus       234 HIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~--~~~~~~~~  311 (369)
T COG0536         234 HIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAE--ALGWEVFY  311 (369)
T ss_pred             HHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHH--hcCCCcce
Confidence            478999999999988543   234443333333222 345689999999999964432 22222222211  00111122


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHhh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       ++||.+++|++++...+.+.+...
T Consensus       312 -~ISa~t~~g~~~L~~~~~~~l~~~  335 (369)
T COG0536         312 -LISALTREGLDELLRALAELLEET  335 (369)
T ss_pred             -eeehhcccCHHHHHHHHHHHHHHh
Confidence             299999999999999988887654

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.87  E-value=4.9e-09  Score=59.89  Aligned_cols=80  Identities=21%  Similarity=0.279  Sum_probs=53.4

Q ss_pred             cccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-CCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            9 FQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDLPN-AMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      -.+||.+++|.|++++.+ +..   .+...      -++|++-|.||+|+.. ..+.+.....+.....  .  +++++|
T Consensus        61 a~dad~V~ll~dat~~~~~~pP---~fa~~------f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~--~--~if~vS  127 (143)
T PF10662_consen   61 AQDADVVLLLQDATEPRSVFPP---GFASM------FNKPVIGVITKIDLPSDDANIERAKKWLKNAGV--K--EIFEVS  127 (143)
T ss_pred             HhhCCEEEEEecCCCCCccCCc---hhhcc------cCCCEEEEEECccCccchhhHHHHHHHHHHcCC--C--CeEEEE
Confidence            458999999999997643 211   11111      3689999999999973 2233333334322111  1  468999


Q ss_pred             cccCCCHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLS  101 (110)
Q Consensus        87 a~~~~~i~~l~~~l~  101 (110)
                      +.+|+|++++.++|.
T Consensus       128 ~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  128 AVTGEGIEELKDYLE  142 (143)
T ss_pred             CCCCcCHHHHHHHHh
Confidence            999999999998874

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.87  E-value=2e-08  Score=58.29  Aligned_cols=88  Identities=19%  Similarity=0.192  Sum_probs=52.4

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhC--CCcccCcceEEEeeecc
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLG--LHSLRQRHWYIQSTCAT   88 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~--~~~~~~~~~~~~~~Sa~   88 (110)
                      .++++++++|........  ...+...+..   .+.|+++++||+|+..............  +.. .....+++++||+
T Consensus        81 ~~~~~~~v~d~~~~~~~~--~~~~~~~l~~---~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~Sa~  154 (170)
T cd01876          81 NLKGVVLLIDSRHGPTEI--DLEMLDWLEE---LGIPFLVVLTKADKLKKSELAKALKEIKKELKL-FEIDPPIILFSSL  154 (170)
T ss_pred             hhhEEEEEEEcCcCCCHh--HHHHHHHHHH---cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHh-ccCCCceEEEecC
Confidence            356889999987542211  1112222222   3589999999999854322111111111  000 1233478899999


Q ss_pred             cCCCHHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNNI  104 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~  104 (110)
                      ++.|+.+++++|.+.+
T Consensus       155 ~~~~~~~l~~~l~~~~  170 (170)
T cd01876         155 KGQGIDELRALIEKWL  170 (170)
T ss_pred             CCCCHHHHHHHHHHhC
Confidence            9999999999998753

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.86  E-value=2.2e-08  Score=62.00  Aligned_cols=99  Identities=18%  Similarity=0.214  Sum_probs=63.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHhhhCC------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITDKLGL------   72 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~~~~~------   72 (110)
                      ...+..+++.+|++++|+|+++.... ....++... ..   .++|+++++||+|+.+...   .+++...++.      
T Consensus        78 ~~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~-~~---~~~P~iivvNK~D~~~a~~~~~~~~i~~~~~~~~~~~~  152 (237)
T cd04168          78 IAEVERSLSVLDGAILVISAVEGVQA-QTRILWRLL-RK---LNIPTIIFVNKIDRAGADLEKVYQEIKEKLSSDIVPMQ  152 (237)
T ss_pred             HHHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHH-HH---cCCCEEEEEECccccCCCHHHHHHHHHHHHCCCeEEEE
Confidence            44577889999999999999864322 222333322 22   4689999999999864321   1111111110      


Q ss_pred             ------------------------------------Ccc--------------cCcceEEEeeecccCCCHHHHHHHHHH
Q 044598           73 ------------------------------------HSL--------------RQRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        73 ------------------------------------~~~--------------~~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                                                          ...              ...-+|++..||.++.|+..+++.+.+
T Consensus       153 ~p~~~~~~~~~~~~~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~~~~Pv~~gsa~~~~Gv~~ll~~~~~  232 (237)
T cd04168         153 KVGLAPNICETNEIDDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKRKVFPVYHGSALKGIGIEELLEGITK  232 (237)
T ss_pred             CCcEeeeeeeeeeccHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCeEEEEEccccCCcCHHHHHHHHHH
Confidence                                                000              112368999999999999999999988


Q ss_pred             HHH
Q 044598          103 NIA  105 (110)
Q Consensus       103 ~~~  105 (110)
                      .++
T Consensus       233 ~~p  235 (237)
T cd04168         233 LFP  235 (237)
T ss_pred             hcC
Confidence            765

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.

>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=98.85  E-value=2.5e-08  Score=61.63  Aligned_cols=50  Identities=24%  Similarity=0.123  Sum_probs=36.5

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..|.++|+||+|+.+.   ++... +.      ...+++++||++|.|++++++.+.+.+
T Consensus       176 y~p~iiV~NK~Dl~~~---~~~~~-~~------~~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         176 YIPCLYVYNKIDLISI---EELDL-LA------RQPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             EeeEEEEEECccCCCH---HHHHH-Hh------cCCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            3699999999998532   23222 11      112477899999999999999998865

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.85  E-value=3e-08  Score=71.83  Aligned_cols=93  Identities=26%  Similarity=0.277  Sum_probs=57.5

Q ss_pred             chHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-----------------
Q 044598            3 PLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-----------------   62 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-----------------   62 (110)
                      .+....+..+|++++|+|+++   +.+.+.    +. .+..   .++|+++|+||+|+.....                 
T Consensus       541 ~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~----I~-~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~  612 (1049)
T PRK14845        541 SLRKRGGSLADLAVLVVDINEGFKPQTIEA----IN-ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQH  612 (1049)
T ss_pred             HHHHhhcccCCEEEEEEECcccCCHhHHHH----HH-HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHH
Confidence            344556788999999999975   222222    22 2222   3689999999999853211                 


Q ss_pred             -HHHHH----------hhhCCCc-------ccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           63 -AAEIT----------DKLGLHS-------LRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        63 -~~~~~----------~~~~~~~-------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                       .+++.          ...++..       ......+++++||++|+|+++++.++...
T Consensus       613 ~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        613 ALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             HHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHh
Confidence             01110          0111110       01235689999999999999999887643

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.85  E-value=1.2e-08  Score=68.08  Aligned_cols=85  Identities=19%  Similarity=0.236  Sum_probs=48.5

Q ss_pred             cccCCEEEEEEECCChhhH-HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH------HHHHhhhCCCcccCcceE
Q 044598            9 FQNTQGLIFVVDSNDRDRV-VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA------AEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~------~~~~~~~~~~~~~~~~~~   81 (110)
                      +..+|++++|+|++++... ......+ .+...  ....|+++++||+|+.+....      +++...+..........+
T Consensus       105 ~~~aD~~ilVvDa~~~~~~~~~~~~~~-~~~~~--~~~~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~  181 (425)
T PRK12317        105 ASQADAAVLVVAADDAGGVMPQTREHV-FLART--LGINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIP  181 (425)
T ss_pred             hhcCCEEEEEEEcccCCCCCcchHHHH-HHHHH--cCCCeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcce
Confidence            5689999999999862111 1111122 12211  123579999999998652111      122222211111222468


Q ss_pred             EEeeecccCCCHHHH
Q 044598           82 IQSTCATSGEGLYEG   96 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l   96 (110)
                      ++++||++|.|+++.
T Consensus       182 ii~iSA~~g~gi~~~  196 (425)
T PRK12317        182 FIPVSAFEGDNVVKK  196 (425)
T ss_pred             EEEeecccCCCcccc
Confidence            999999999999874

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.84  E-value=2.3e-08  Score=69.32  Aligned_cols=92  Identities=20%  Similarity=0.151  Sum_probs=56.2

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCCHH----HHHhhhCCCcccCcceE
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNAA----EITDKLGLHSLRQRHWY   81 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~   81 (110)
                      ..+.++|++++|+|+++.. ..+....+. ++..   .+.| +++|+||+|+.+....+    ++...+..  ......+
T Consensus        70 ~g~~~~D~~lLVVda~eg~-~~qT~ehl~-il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~--~~~~~~~  142 (614)
T PRK10512         70 AGVGGIDHALLVVACDDGV-MAQTREHLA-ILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLRE--YGFAEAK  142 (614)
T ss_pred             HHhhcCCEEEEEEECCCCC-cHHHHHHHH-HHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHh--cCCCCCc
Confidence            3577899999999987631 112222222 2221   2445 68999999986432111    22222210  1112357


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|.|++++++.|.+...
T Consensus       143 ii~VSA~tG~gI~~L~~~L~~~~~  166 (614)
T PRK10512        143 LFVTAATEGRGIDALREHLLQLPE  166 (614)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhc
Confidence            899999999999999999987543

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.84  E-value=8.8e-08  Score=57.81  Aligned_cols=99  Identities=23%  Similarity=0.368  Sum_probs=64.6

Q ss_pred             HHHhcc---cCCEEEEEEECCCh-hhHHHHHHHHHHHhcCC--CCCCCeEEEEeeCCCCCCCCCHHHHHhhhC-------
Q 044598            5 WRHYFQ---NTQGLIFVVDSNDR-DRVVEARDELHRMLNED--ELRDAVLLVFANKQDLPNAMNAAEITDKLG-------   71 (110)
Q Consensus         5 ~~~~~~---~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~-------   71 (110)
                      ...|+.   .+.+++||+|+... ....+..+.+..++...  ....+|++|++||.|+..+.+.+.+++.+.       
T Consensus        99 l~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr  178 (238)
T KOG0090|consen   99 LLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLR  178 (238)
T ss_pred             HHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHH
Confidence            344555   78999999998643 33555566677666554  235689999999999966554333222110       


Q ss_pred             ----------CCc------------------ccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           72 ----------LHS------------------LRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        72 ----------~~~------------------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                                ..+                  .......+.++|++++ +++++.+|+.+.+
T Consensus       179 ~sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~l  238 (238)
T KOG0090|consen  179 ESRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREAL  238 (238)
T ss_pred             HHHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHhC
Confidence                      000                  0113357889999988 8999999998753

>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=98.83  E-value=7.6e-09  Score=57.30  Aligned_cols=51  Identities=16%  Similarity=0.311  Sum_probs=37.6

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHH---HHHHHhcCCCCCCCeEEEEeeCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARD---ELHRMLNEDELRDAVLLVFANKQD   56 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~---~~~~~~~~~~~~~~~~iiv~nK~D   56 (110)
                      .+..+++++|++++|+|.+++.+++.+..   |+..+...  ..+.|+++|+||.|
T Consensus        66 ~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~--~~~~piilv~nK~D  119 (119)
T PF08477_consen   66 QHQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKR--DKNIPIILVGNKSD  119 (119)
T ss_dssp             TSHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHH--SSCSEEEEEEE-TC
T ss_pred             cccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHcc--CCCCCEEEEEeccC
Confidence            34556899999999999999888877643   44444321  24699999999998

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.83  E-value=3.1e-08  Score=70.15  Aligned_cols=84  Identities=19%  Similarity=0.114  Sum_probs=55.5

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeeccc
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATS   89 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~   89 (110)
                      +.+|++++|+|+++.++.   ..+.....+    .++|+++++||+|+.+......-.+.+.    ...+.+++++||++
T Consensus        84 ~~aD~vI~VvDat~ler~---l~l~~ql~e----~giPvIvVlNK~Dl~~~~~i~id~~~L~----~~LG~pVvpiSA~~  152 (772)
T PRK09554         84 GDADLLINVVDASNLERN---LYLTLQLLE----LGIPCIVALNMLDIAEKQNIRIDIDALS----ARLGCPVIPLVSTR  152 (772)
T ss_pred             cCCCEEEEEecCCcchhh---HHHHHHHHH----cCCCEEEEEEchhhhhccCcHHHHHHHH----HHhCCCEEEEEeec
Confidence            489999999999874332   223333322    4689999999999864332111111110    11234788999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 044598           90 GEGLYEGLDWLSNNI  104 (110)
Q Consensus        90 ~~~i~~l~~~l~~~~  104 (110)
                      |+|++++.+.+.+..
T Consensus       153 g~GIdeL~~~I~~~~  167 (772)
T PRK09554        153 GRGIEALKLAIDRHQ  167 (772)
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999887754

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.82  E-value=2.5e-08  Score=66.97  Aligned_cols=92  Identities=14%  Similarity=0.157  Sum_probs=56.1

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcceEEEe
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ...+|++++|+|+.+.....+..+.+.- ...  ..-.++++|.||+|+.+....    +++...+..  ......++++
T Consensus       138 ~~~~D~alLVVda~~g~~~~qT~ehl~i-~~~--lgi~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~--~~~~~~~iip  212 (460)
T PTZ00327        138 AAVMDAALLLIAANESCPQPQTSEHLAA-VEI--MKLKHIIILQNKIDLVKEAQAQDQYEEIRNFVKG--TIADNAPIIP  212 (460)
T ss_pred             HhhCCEEEEEEECCCCccchhhHHHHHH-HHH--cCCCcEEEEEecccccCHHHHHHHHHHHHHHHHh--hccCCCeEEE
Confidence            5678999999999863111111222221 111  123568999999998643211    122222110  1123568999


Q ss_pred             eecccCCCHHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +||++|.|++.+++.|.+.+.
T Consensus       213 VSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        213 ISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             eeCCCCCCHHHHHHHHHhhCC
Confidence            999999999999999987654

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=98.81  E-value=1.4e-08  Score=59.99  Aligned_cols=99  Identities=15%  Similarity=0.124  Sum_probs=71.6

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCC---CCeEEEEeeCCCCCCCCCH---HHHHhhhCCCccc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR---DAVLLVFANKQDLPNAMNA---AEITDKLGLHSLR   76 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~   76 (110)
                      .|.+.||+.+.+..+|+|.+....++....|..+..+...++   ..|+++..||||.......   ..+.....    .
T Consensus        90 ~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~k----e  165 (229)
T KOG4423|consen   90 NMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKK----E  165 (229)
T ss_pred             ceEEEEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHh----c
Confidence            366789999999999999998777877777877765443332   4789999999998654311   22222211    1


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +....++++|++.+.++++....+.+.+.
T Consensus       166 ngf~gwtets~Kenkni~Ea~r~lVe~~l  194 (229)
T KOG4423|consen  166 NGFEGWTETSAKENKNIPEAQRELVEKIL  194 (229)
T ss_pred             cCccceeeeccccccChhHHHHHHHHHHH
Confidence            22346889999999999999998888765

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.78  E-value=1.1e-07  Score=61.52  Aligned_cols=105  Identities=25%  Similarity=0.441  Sum_probs=74.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC------------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRD----------RVVEARDELHRMLNEDELRDAVLLVFANKQDLPN------------   59 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~------------   59 (110)
                      |+.|-+++.+++++|||++.++.+          .+.++...+..+..+....+.++++++||.|+-.            
T Consensus       209 RrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~F  288 (354)
T KOG0082|consen  209 RKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKKVPLTDCF  288 (354)
T ss_pred             hhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhccCchhhhC
Confidence            568999999999999999887632          3556667888888888888999999999999821            


Q ss_pred             -----CCCHHHHHh----hh-CCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           60 -----AMNAAEITD----KL-GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        60 -----~~~~~~~~~----~~-~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                           ....++...    .+ .+.....+.+-++.+.|.+.++|+.+|..+.+.+.+
T Consensus       289 pdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~  345 (354)
T KOG0082|consen  289 PDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQ  345 (354)
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHH
Confidence                 111222111    11 111112256667788999999999999888877754

>PRK13796 GTPase YqeH; Provisional

Probab=98.75  E-value=3.1e-08  Score=64.90  Aligned_cols=88  Identities=23%  Similarity=0.236  Sum_probs=53.3

Q ss_pred             ccCC-EEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhC--CCcccCcceEEEee
Q 044598           10 QNTQ-GLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLG--LHSLRQRHWYIQST   85 (110)
Q Consensus        10 ~~~~-~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~   85 (110)
                      ..++ .+++|+|+.+...  .....+.+..     .++|+++|+||+|+.+.. ..+.+.....  .....-....++.+
T Consensus        67 ~~~~~lIv~VVD~~D~~~--s~~~~L~~~~-----~~kpviLViNK~DLl~~~~~~~~i~~~l~~~~k~~g~~~~~v~~v  139 (365)
T PRK13796         67 GDSDALVVNVVDIFDFNG--SWIPGLHRFV-----GNNPVLLVGNKADLLPKSVKKNKVKNWLRQEAKELGLRPVDVVLI  139 (365)
T ss_pred             cccCcEEEEEEECccCCC--chhHHHHHHh-----CCCCEEEEEEchhhCCCccCHHHHHHHHHHHHHhcCCCcCcEEEE
Confidence            3445 8999999987431  1122333332     367899999999996432 2222222211  00000011257899


Q ss_pred             ecccCCCHHHHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ||+++.|++++++.+.+..
T Consensus       140 SAk~g~gI~eL~~~I~~~~  158 (365)
T PRK13796        140 SAQKGHGIDELLEAIEKYR  158 (365)
T ss_pred             ECCCCCCHHHHHHHHHHhc
Confidence            9999999999999997654

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.73  E-value=9.4e-08  Score=57.62  Aligned_cols=82  Identities=20%  Similarity=0.186  Sum_probs=46.9

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HH----HHHhhhCCCcccCcce
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AA----EITDKLGLHSLRQRHW   80 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~   80 (110)
                      ..+..+|++++|+|+..... ......+..+ ..   .++| ++++.||+|+..... .+    ++...+....+.....
T Consensus        84 ~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~-~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v  158 (195)
T cd01884          84 TGAAQMDGAILVVSATDGPM-PQTREHLLLA-RQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNT  158 (195)
T ss_pred             HHhhhCCEEEEEEECCCCCc-HHHHHHHHHH-HH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCC
Confidence            34678999999999875321 1112222222 21   3455 789999999853221 11    1222221111122357


Q ss_pred             EEEeeecccCCCH
Q 044598           81 YIQSTCATSGEGL   93 (110)
Q Consensus        81 ~~~~~Sa~~~~~i   93 (110)
                      +++++||++|.|+
T Consensus       159 ~iipiSa~~g~n~  171 (195)
T cd01884         159 PIVRGSALKALEG  171 (195)
T ss_pred             eEEEeeCccccCC
Confidence            8999999999985

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.69  E-value=1.2e-07  Score=57.56  Aligned_cols=88  Identities=18%  Similarity=0.108  Sum_probs=48.1

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH--HHHHhhhC--CCcccCcce
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA--AEITDKLG--LHSLRQRHW   80 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~--~~~~~~~~--~~~~~~~~~   80 (110)
                      +...++.+|++++|+|+++... ..... ...+...  ...+++++|+||+|+.+....  ..+...+.  .........
T Consensus        94 ~~~~~~~ad~~llVvD~~~~~~-~~~~~-~~~~~~~--~~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~  169 (208)
T cd04166          94 MVTGASTADLAILLVDARKGVL-EQTRR-HSYILSL--LGIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDI  169 (208)
T ss_pred             HHHhhhhCCEEEEEEECCCCcc-HhHHH-HHHHHHH--cCCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCc
Confidence            3445789999999999986421 11111 1112211  122457889999998643211  11111110  000111235


Q ss_pred             EEEeeecccCCCHHHH
Q 044598           81 YIQSTCATSGEGLYEG   96 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l   96 (110)
                      +++++||++|.|+.+.
T Consensus       170 ~ii~iSA~~g~ni~~~  185 (208)
T cd04166         170 TFIPISALDGDNVVSR  185 (208)
T ss_pred             eEEEEeCCCCCCCccC
Confidence            6899999999998753

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.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.68  E-value=2.8e-08  Score=58.86  Aligned_cols=97  Identities=14%  Similarity=0.179  Sum_probs=71.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      +...||-+..++|+++|.+..-.+.....|..++....  .++|+++.+||.|......    .. ........+.+.++
T Consensus        75 lrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~--~NiPiv~cGNKvDi~~r~~----k~-k~v~~~rkknl~y~  147 (216)
T KOG0096|consen   75 LRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVR--ENIPIVLCGNKVDIKARKV----KA-KPVSFHRKKNLQYY  147 (216)
T ss_pred             cccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHh--cCCCeeeeccceecccccc----cc-ccceeeecccceeE
Confidence            44567888899999999987777777777777765442  4689999999999754321    11 11111235667889


Q ss_pred             eeecccCCCHHHHHHHHHHHHHhh
Q 044598           84 STCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++||+++.|.+..|-|+++.+...
T Consensus       148 ~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  148 EISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             EeecccccccccchHHHhhhhcCC
Confidence            999999999999999999887654

>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=98.65  E-value=1.2e-07  Score=56.31  Aligned_cols=61  Identities=33%  Similarity=0.529  Sum_probs=39.9

Q ss_pred             hcccCCEEEEEEECCC-hhhHHHHHHHHHHHhcCCC--CCCCeEEEEeeCCCCCCCCCHHHHHh
Q 044598            8 YFQNTQGLIFVVDSND-RDRVVEARDELHRMLNEDE--LRDAVLLVFANKQDLPNAMNAAEITD   68 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~~~~~~~~~~   68 (110)
                      +..++.++|||+|++. +....+..+.+..++....  ...+|++|++||+|+..+.+...++.
T Consensus        72 ~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~~~~~Ik~  135 (181)
T PF09439_consen   72 YLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAKPPKKIKK  135 (181)
T ss_dssp             HHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT---HHHHHH
T ss_pred             chhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccCCHHHHHH
Confidence            6889999999999974 3446666667776665432  24699999999999987765444433

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.62  E-value=5.5e-07  Score=58.93  Aligned_cols=85  Identities=21%  Similarity=0.169  Sum_probs=53.4

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      ...++|.+++|+++..+-........+..+ .   ..+.|.++|+||+|+.+.. .+........    ..+.+++.+|+
T Consensus       109 iaANvD~vliV~s~~p~~~~~~ldr~L~~a-~---~~~i~piIVLNK~DL~~~~-~~~~~~~~~~----~~g~~Vi~vSa  179 (356)
T PRK01889        109 IAANVDTVFIVCSLNHDFNLRRIERYLALA-W---ESGAEPVIVLTKADLCEDA-EEKIAEVEAL----APGVPVLAVSA  179 (356)
T ss_pred             EEEeCCEEEEEEecCCCCChhHHHHHHHHH-H---HcCCCEEEEEEChhcCCCH-HHHHHHHHHh----CCCCcEEEEEC
Confidence            367899999999985222222222222222 1   2467779999999996531 1111111111    33568899999


Q ss_pred             ccCCCHHHHHHHHH
Q 044598           88 TSGEGLYEGLDWLS  101 (110)
Q Consensus        88 ~~~~~i~~l~~~l~  101 (110)
                      +++.|++++..++.
T Consensus       180 ~~g~gl~~L~~~L~  193 (356)
T PRK01889        180 LDGEGLDVLAAWLS  193 (356)
T ss_pred             CCCccHHHHHHHhh
Confidence            99999999988875

>TIGR00101 ureG urease accessory protein UreG

Probab=98.61  E-value=5e-07  Score=54.68  Aligned_cols=80  Identities=20%  Similarity=0.239  Sum_probs=51.2

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeE--EEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceEEEeeec
Q 044598           12 TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVL--LVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~--iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      ++.++.|+|+.+..+...   ...        .....  ++++||+|+.+..  ..+.+.+....  . +...+++++||
T Consensus       113 ~~~~i~vvD~~~~~~~~~---~~~--------~qi~~ad~~~~~k~d~~~~~~~~~~~~~~~~~~--~-~~~~~i~~~Sa  178 (199)
T TIGR00101       113 ADLTIFVIDVAAGDKIPR---KGG--------PGITRSDLLVINKIDLAPMVGADLGVMERDAKK--M-RGEKPFIFTNL  178 (199)
T ss_pred             hCcEEEEEEcchhhhhhh---hhH--------hHhhhccEEEEEhhhccccccccHHHHHHHHHH--h-CCCCCEEEEEC
Confidence            577999999875433211   000        12233  8999999997532  22222222211  1 23467899999


Q ss_pred             ccCCCHHHHHHHHHHHHH
Q 044598           88 TSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~  105 (110)
                      ++|+|++++++++.++..
T Consensus       179 ~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       179 KTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             CCCCCHHHHHHHHHhhcC
Confidence            999999999999998764

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.59  E-value=5.1e-07  Score=61.29  Aligned_cols=88  Identities=18%  Similarity=0.122  Sum_probs=57.0

Q ss_pred             cccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh--CCCc-ccCcceEE
Q 044598            9 FQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL--GLHS-LRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~--~~~~-~~~~~~~~   82 (110)
                      .+-+|.+++|+.+.+   +++.+.    +..    ....+.|++++.||+|.++..+..-..+.+  ++.- ......++
T Consensus       222 A~vtDIvVLVVAadDGVmpQT~Ea----Ikh----Ak~A~VpiVvAinKiDkp~a~pekv~~eL~~~gi~~E~~GGdVQv  293 (683)
T KOG1145|consen  222 ANVTDIVVLVVAADDGVMPQTLEA----IKH----AKSANVPIVVAINKIDKPGANPEKVKRELLSQGIVVEDLGGDVQV  293 (683)
T ss_pred             CccccEEEEEEEccCCccHhHHHH----HHH----HHhcCCCEEEEEeccCCCCCCHHHHHHHHHHcCccHHHcCCceeE
Confidence            456899999997765   223322    222    222689999999999987665432222222  1111 11345689


Q ss_pred             EeeecccCCCHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++||++|+|++.+.+.+....
T Consensus       294 ipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  294 IPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             EEeecccCCChHHHHHHHHHHH
Confidence            9999999999999988876543

>PRK13351 elongation factor G; Reviewed

Probab=98.58  E-value=1.1e-06  Score=62.04  Aligned_cols=54  Identities=17%  Similarity=0.090  Sum_probs=38.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ...+..+++.+|++++|+|+++....... ..+.... .   .++|+++++||+|+.+.
T Consensus        87 ~~~~~~~l~~aD~~ilVvd~~~~~~~~~~-~~~~~~~-~---~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         87 TGEVERSLRVLDGAVVVFDAVTGVQPQTE-TVWRQAD-R---YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHHHHHH-h---cCCCEEEEEECCCCCCC
Confidence            44678889999999999999875443322 2232221 1   46899999999998654

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.55  E-value=1.2e-06  Score=59.94  Aligned_cols=51  Identities=20%  Similarity=0.274  Sum_probs=34.5

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ...+++.+|++|+|+|+++... .....++.. ..   ..++|+++++||+|+.+.
T Consensus        96 ~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~-~~---~~~iPiiv~iNK~D~~~a  146 (526)
T PRK00741         96 TYRTLTAVDSALMVIDAAKGVE-PQTRKLMEV-CR---LRDTPIFTFINKLDRDGR  146 (526)
T ss_pred             HHHHHHHCCEEEEEEecCCCCC-HHHHHHHHH-HH---hcCCCEEEEEECCccccc
Confidence            4567899999999999975321 112223322 21   257999999999998654

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.53  E-value=5.8e-07  Score=62.16  Aligned_cols=81  Identities=19%  Similarity=0.153  Sum_probs=57.3

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCcceEEEeee
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      +.|+++.|+|+++.+..   ....-++++    .+.|++++.|++|..+..    +.+.+.+.+        +.|++++|
T Consensus        81 ~~D~ivnVvDAtnLeRn---LyltlQLlE----~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~L--------GvPVv~tv  145 (653)
T COG0370          81 KPDLIVNVVDATNLERN---LYLTLQLLE----LGIPMILALNMIDEAKKRGIRIDIEKLSKLL--------GVPVVPTV  145 (653)
T ss_pred             CCCEEEEEcccchHHHH---HHHHHHHHH----cCCCeEEEeccHhhHHhcCCcccHHHHHHHh--------CCCEEEEE
Confidence            57999999999975432   122222222    478999999999985543    344444444        44889999


Q ss_pred             cccCCCHHHHHHHHHHHHHh
Q 044598           87 ATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~~  106 (110)
                      |++|+|++++...+.+...+
T Consensus       146 A~~g~G~~~l~~~i~~~~~~  165 (653)
T COG0370         146 AKRGEGLEELKRAIIELAES  165 (653)
T ss_pred             eecCCCHHHHHHHHHHhccc
Confidence            99999999999988765443

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.51  E-value=1.1e-06  Score=52.72  Aligned_cols=96  Identities=15%  Similarity=0.262  Sum_probs=60.8

Q ss_pred             hHHHhccc---CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCccc
Q 044598            4 LWRHYFQN---TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLR   76 (110)
Q Consensus         4 ~~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~   76 (110)
                      +...|++.   -.++++++|+..+.  ...+..+.+++..   .+.|+++++||+|-.+....    ..+.+.+..... 
T Consensus        96 ~i~~YL~~R~~L~~vvlliD~r~~~--~~~D~em~~~l~~---~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~-  169 (200)
T COG0218          96 LIEEYLEKRANLKGVVLLIDARHPP--KDLDREMIEFLLE---LGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPP-  169 (200)
T ss_pred             HHHHHHhhchhheEEEEEEECCCCC--cHHHHHHHHHHHH---cCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCC-
Confidence            34456553   45788999987653  3333444455444   57999999999997654222    223333332111 


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...+ ++..|+.++.|++++...|.+.+..
T Consensus       170 ~~~~-~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         170 DDQW-VVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             ccce-EEEEecccccCHHHHHHHHHHHhhc
Confidence            1112 7788999999999999998887653

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.51  E-value=1.7e-06  Score=56.08  Aligned_cols=89  Identities=19%  Similarity=0.163  Sum_probs=54.0

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCccc--CcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLR--QRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~--~~~~~~   82 (110)
                      ...||.++++.++..........   ...+      ...-++|+||+|+.+....    .++...+.+....  ....++
T Consensus       167 ~~~aD~vlvv~~p~~gd~iq~~k---~gi~------E~aDIiVVNKaDl~~~~~a~~~~~el~~~L~l~~~~~~~w~~pV  237 (332)
T PRK09435        167 AGMVDFFLLLQLPGAGDELQGIK---KGIM------ELADLIVINKADGDNKTAARRAAAEYRSALRLLRPKDPGWQPPV  237 (332)
T ss_pred             HHhCCEEEEEecCCchHHHHHHH---hhhh------hhhheEEeehhcccchhHHHHHHHHHHHHHhcccccccCCCCCE
Confidence            45689999998744333332221   1122      1223899999998654321    2233333321111  122478


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.+||+++.|++++.+.+.++...
T Consensus       238 i~vSA~~g~GIdeL~~~I~~~~~~  261 (332)
T PRK09435        238 LTCSALEGEGIDEIWQAIEDHRAA  261 (332)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988753

>PRK12740 elongation factor G; Reviewed

Probab=98.49  E-value=2.5e-06  Score=60.03  Aligned_cols=53  Identities=15%  Similarity=0.088  Sum_probs=36.5

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ..+..+++.+|++++|+|+++...... ...+.... .   .++|+++|+||+|+...
T Consensus        75 ~~~~~~l~~aD~vllvvd~~~~~~~~~-~~~~~~~~-~---~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         75 GEVERALRVLDGAVVVVCAVGGVEPQT-ETVWRQAE-K---YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCcCHHH-HHHHHHHH-H---cCCCEEEEEECCCCCCC
Confidence            456778999999999999986433322 22232222 1   46899999999998643

>PRK12736 elongation factor Tu; Reviewed

Probab=98.49  E-value=1.4e-06  Score=57.83  Aligned_cols=92  Identities=21%  Similarity=0.226  Sum_probs=53.3

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCCH-H----HHHhhhCCCcccCcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNA-A----EITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~-~----~~~~~~~~~~~~~~~~~~   82 (110)
                      ...+|++++|+|+.+... ......+..+. .   .++| +++++||+|+.+.... +    ++...+..........++
T Consensus        96 ~~~~d~~llVvd~~~g~~-~~t~~~~~~~~-~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~i  170 (394)
T PRK12736         96 AAQMDGAILVVAATDGPM-PQTREHILLAR-Q---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPV  170 (394)
T ss_pred             HhhCCEEEEEEECCCCCc-hhHHHHHHHHH-H---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccE
Confidence            457899999999875311 12222232222 1   3567 6789999998643211 1    222222111111234689


Q ss_pred             EeeecccCC--------CHHHHHHHHHHHHH
Q 044598           83 QSTCATSGE--------GLYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~~~~--------~i~~l~~~l~~~~~  105 (110)
                      +++||++|.        +++++++.+.+.+.
T Consensus       171 i~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        171 IRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             EEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence            999999983        57788887776653

>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=98.49  E-value=8.4e-07  Score=58.71  Aligned_cols=103  Identities=25%  Similarity=0.447  Sum_probs=71.4

Q ss_pred             cchHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC-----CC------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDR----------DRVVEARDELHRMLNEDELRDAVLLVFANKQDLP-----NA------   60 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~-----~~------   60 (110)
                      |..|-+++.+++++|||++.++.          ..+.++...+..+.....+.+.|+++++||.|+-     ..      
T Consensus       250 RkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~  329 (389)
T PF00503_consen  250 RKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLFEEKLKKGPKLSKY  329 (389)
T ss_dssp             GGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHHHHHTTTSSCGGGT
T ss_pred             hhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHHHHHccCCCchHhh
Confidence            67899999999999999997642          2477778888888888777899999999999961     11      


Q ss_pred             ---------CCHHHHHh----hh-CCCcccC--cceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           61 ---------MNAAEITD----KL-GLHSLRQ--RHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        61 ---------~~~~~~~~----~~-~~~~~~~--~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                               ...+....    .+ .......  +.+.++.++|.+..++..+|+.+.+.+
T Consensus       330 fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  330 FPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             STTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence                     01111111    11 1111111  566777899999999999998887653

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 ....

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.46  E-value=1.1e-06  Score=50.75  Aligned_cols=100  Identities=7%  Similarity=0.074  Sum_probs=67.3

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHhhhCCCcccCcc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~~~~   79 (110)
                      .+.+....++-+++|++|.+.+..+++...|......... ..+| ++|++|.|.--..+   ++++...-. ....-.+
T Consensus        84 n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~Nk-tAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar-~YAk~mn  160 (205)
T KOG1673|consen   84 NMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNK-TAIP-ILVGTKYDLFIDLPPELQETISRQAR-KYAKVMN  160 (205)
T ss_pred             ccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCC-ccce-EEeccchHhhhcCCHHHHHHHHHHHH-HHHHHhC
Confidence            4555667889999999999999899999998887765432 2355 77899999632221   222211100 0011234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+.+.||+....|+..+|..+...+-
T Consensus       161 AsL~F~Sts~sINv~KIFK~vlAklF  186 (205)
T KOG1673|consen  161 ASLFFCSTSHSINVQKIFKIVLAKLF  186 (205)
T ss_pred             CcEEEeeccccccHHHHHHHHHHHHh
Confidence            46778999999999999998876653

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.43  E-value=1.3e-06  Score=58.78  Aligned_cols=86  Identities=12%  Similarity=0.142  Sum_probs=49.5

Q ss_pred             HHHhcccCCEEEEEEECCChhhH-------HHHHHHHHHHhcCCCCCCC-eEEEEeeCCCCCCC-CC-------HHHHHh
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRV-------VEARDELHRMLNEDELRDA-VLLVFANKQDLPNA-MN-------AAEITD   68 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~-~~-------~~~~~~   68 (110)
                      ....+..+|++|+|+|+.+. .+       ......+.-.. .   .++ ++++++||+|+... ..       .+++..
T Consensus       102 ~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~-~---~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~  176 (447)
T PLN00043        102 MITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAF-T---LGVKQMICCCNKMDATTPKYSKARYDEIVKEVSS  176 (447)
T ss_pred             HHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHH-H---cCCCcEEEEEEcccCCchhhhHHHHHHHHHHHHH
Confidence            45567899999999999752 12       12222222111 1   355 57889999997521 11       122222


Q ss_pred             hhCCCcccCcceEEEeeecccCCCHHH
Q 044598           69 KLGLHSLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        69 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      .+....+....++++++||.+|.|+.+
T Consensus       177 ~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        177 YLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             HHHHcCCCcccceEEEEeccccccccc
Confidence            221111222346899999999999853

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.42  E-value=7.8e-07  Score=54.07  Aligned_cols=57  Identities=25%  Similarity=0.303  Sum_probs=39.7

Q ss_pred             CCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..|.++++||+|+.+...  ..+....+..   .....+++.+||++|.|++++++++.+..
T Consensus       148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~---~~~~~~i~~~Sa~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       148 KEADLIVINKADLAEAVGFDVEKMKADAKK---INPEAEIILMSLKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             hhCCEEEEEHHHccccchhhHHHHHHHHHH---hCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            467899999999965321  2222222211   12346799999999999999999998754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.41  E-value=8.6e-07  Score=56.85  Aligned_cols=90  Identities=16%  Similarity=0.159  Sum_probs=58.1

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCcceEEEeeec
Q 044598           12 TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .|++++|+.++++=...+..+.+..+-   -..-+.++++.||+|+....    +.+++.+...=  .-..+.+++++||
T Consensus       110 MDgAlLvIaANEpcPQPQT~EHl~Ale---Iigik~iiIvQNKIDlV~~E~AlE~y~qIk~FvkG--t~Ae~aPIIPiSA  184 (415)
T COG5257         110 MDGALLVIAANEPCPQPQTREHLMALE---IIGIKNIIIVQNKIDLVSRERALENYEQIKEFVKG--TVAENAPIIPISA  184 (415)
T ss_pred             hcceEEEEecCCCCCCCchHHHHHHHh---hhccceEEEEecccceecHHHHHHHHHHHHHHhcc--cccCCCceeeehh
Confidence            689999999886422222233332221   01346799999999996432    23334333210  1123458999999


Q ss_pred             ccCCCHHHHHHHHHHHHHh
Q 044598           88 TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+.|++.+++.|.+.+..
T Consensus       185 ~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         185 QHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             hhccCHHHHHHHHHHhCCC
Confidence            9999999999999998853

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.36  E-value=9.3e-06  Score=57.43  Aligned_cols=52  Identities=17%  Similarity=0.169  Sum_probs=35.6

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+..+++.+|++++|+|+++...... ...+... ..   .++|+++++||+|+.+.
T Consensus        91 ~~~~~l~~~D~~ilVvda~~g~~~~~-~~~~~~~-~~---~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        91 EVERSLRVLDGAVAVLDAVGGVQPQS-ETVWRQA-NR---YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCChhH-HHHHHHH-HH---cCCCEEEEEECCCCCCC
Confidence            46778999999999999986433222 2222222 22   46899999999998643

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.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.35  E-value=4e-06  Score=53.53  Aligned_cols=92  Identities=17%  Similarity=0.140  Sum_probs=57.5

Q ss_pred             hcccCCEEEEEEECCChhhH--HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC---------------C--HHHHHh
Q 044598            8 YFQNTQGLIFVVDSNDRDRV--VEARDELHRMLNEDELRDAVLLVFANKQDLPNAM---------------N--AAEITD   68 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~---------------~--~~~~~~   68 (110)
                      ..+.||+++.|+|++++...  ......+...      .+.|-++|.||.|..+..               .  .-++.+
T Consensus       152 a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~y------s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~  225 (379)
T KOG1423|consen  152 AAQNADCVVVVVDASATRTPLHPRVLHMLEEY------SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQE  225 (379)
T ss_pred             HHhhCCEEEEEEeccCCcCccChHHHHHHHHH------hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHHH
Confidence            57899999999999864321  1111122222      468899999999975432               0  112222


Q ss_pred             hhCCCc-c----c----CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           69 KLGLHS-L----R----QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        69 ~~~~~~-~----~----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+.... .    .    +..-.+|.+||++|+|++++.++|..+..
T Consensus       226 ~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  226 KFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             HhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence            221111 0    0    11225899999999999999999988764

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.34  E-value=8e-06  Score=51.57  Aligned_cols=91  Identities=15%  Similarity=0.212  Sum_probs=55.6

Q ss_pred             CEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-------CHHHHHhhhCC--Ccc-----
Q 044598           13 QGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-------NAAEITDKLGL--HSL-----   75 (110)
Q Consensus        13 ~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-------~~~~~~~~~~~--~~~-----   75 (110)
                      -+++|++|...   |..|-+....--+++-.   ...|+++++||+|+.+..       +.+.+.+.+..  ..+     
T Consensus       149 tvv~YvvDt~rs~~p~tFMSNMlYAcSilyk---tklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~  225 (366)
T KOG1532|consen  149 TVVVYVVDTPRSTSPTTFMSNMLYACSILYK---TKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLT  225 (366)
T ss_pred             eEEEEEecCCcCCCchhHHHHHHHHHHHHHh---ccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhh
Confidence            36789999654   33343333333334322   468999999999997652       11122221110  000     


Q ss_pred             ---------cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           76 ---------RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        76 ---------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                               .-+.+..+.+|+.+|.|.+++|..+.+.+..
T Consensus       226 ~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdE  265 (366)
T KOG1532|consen  226 RSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDE  265 (366)
T ss_pred             hhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHH
Confidence                     0134678899999999999999998877654

>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=98.32  E-value=3.2e-06  Score=40.76  Aligned_cols=43  Identities=16%  Similarity=0.352  Sum_probs=24.1

Q ss_pred             CCEEEEEEECCChh--hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCC
Q 044598           12 TQGLIFVVDSNDRD--RVVEARDELHRMLNEDELRDAVLLVFANKQD   56 (110)
Q Consensus        12 ~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~D   56 (110)
                      .++++|++|+++.-  +.++-...+.++...  ..++|+++|.||+|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~--F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPL--FPNKPVIVVLNKID   58 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHH--TTTS-EEEEE--TT
T ss_pred             cceEEEEEcCCCCCCCCHHHHHHHHHHHHHH--cCCCCEEEEEeccC
Confidence            57899999998642  344444444444322  35899999999998

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.

>CHL00071 tufA elongation factor Tu

Probab=98.32  E-value=3.2e-06  Score=56.34  Aligned_cols=80  Identities=19%  Similarity=0.175  Sum_probs=45.3

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HH----HHHhhhCCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AA----EITDKLGLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~   81 (110)
                      -+..+|++++|+|+..... ......+..+. .   .++| ++++.||+|+.+... .+    ++...+..........+
T Consensus        95 ~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~-~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~  169 (409)
T CHL00071         95 GAAQMDGAILVVSAADGPM-PQTKEHILLAK-Q---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIP  169 (409)
T ss_pred             HHHhCCEEEEEEECCCCCc-HHHHHHHHHHH-H---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcce
Confidence            4678999999999875321 22222222221 1   3567 778999999864321 11    22222211111122468


Q ss_pred             EEeeecccCCC
Q 044598           82 IQSTCATSGEG   92 (110)
Q Consensus        82 ~~~~Sa~~~~~   92 (110)
                      ++++||.+|.+
T Consensus       170 ii~~Sa~~g~n  180 (409)
T CHL00071        170 IVSGSALLALE  180 (409)
T ss_pred             EEEcchhhccc
Confidence            99999998864

>PRK12735 elongation factor Tu; Reviewed

Probab=98.31  E-value=7.5e-06  Score=54.42  Aligned_cols=92  Identities=20%  Similarity=0.187  Sum_probs=52.8

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEE-EEeeCCCCCCCCC-HH----HHHhhhCCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLL-VFANKQDLPNAMN-AA----EITDKLGLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-iv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~   81 (110)
                      -+..+|++++|+|+.+... .+....+..+. .   .++|.+ +++||+|+.+... .+    ++...+..........+
T Consensus        95 ~~~~aD~~llVvda~~g~~-~qt~e~l~~~~-~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~  169 (396)
T PRK12735         95 GAAQMDGAILVVSAADGPM-PQTREHILLAR-Q---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTP  169 (396)
T ss_pred             hhccCCEEEEEEECCCCCc-hhHHHHHHHHH-H---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCcee
Confidence            3567899999999976321 22222332221 1   357755 5799999864221 11    22222211111112468


Q ss_pred             EEeeecccCC----------CHHHHHHHHHHHH
Q 044598           82 IQSTCATSGE----------GLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~----------~i~~l~~~l~~~~  104 (110)
                      ++++||.+|.          ++..+++.+...+
T Consensus       170 ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        170 IIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             EEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            8999999984          6778888777654

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.31  E-value=5.9e-06  Score=54.85  Aligned_cols=78  Identities=19%  Similarity=0.181  Sum_probs=42.4

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeE-EEEeeCCCCCCCCC-H----HHHHhhhCCCcccCcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVL-LVFANKQDLPNAMN-A----AEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-iiv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~   82 (110)
                      ...+|++++|+|+.+... .+....+..+..    .+.|. ++++||+|+.+... .    +++...+.........+++
T Consensus        96 ~~~~D~~ilVvda~~g~~-~qt~e~l~~~~~----~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~i  170 (394)
T TIGR00485        96 AAQMDGAILVVSATDGPM-PQTREHILLARQ----VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPI  170 (394)
T ss_pred             HhhCCEEEEEEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccE
Confidence            346799999999986321 222222322221    35665 46899999864321 1    1222222211111223689


Q ss_pred             EeeecccCC
Q 044598           83 QSTCATSGE   91 (110)
Q Consensus        83 ~~~Sa~~~~   91 (110)
                      +++||.+|.
T Consensus       171 i~vSa~~g~  179 (394)
T TIGR00485       171 IRGSALKAL  179 (394)
T ss_pred             EECcccccc
Confidence            999999875

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=98.31  E-value=1e-05  Score=55.55  Aligned_cols=50  Identities=18%  Similarity=0.244  Sum_probs=33.3

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ...+++.+|++|+|+|+++... .....++. ....   .++|+++++||+|+..
T Consensus        97 ~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~-~~~~---~~~PiivviNKiD~~~  146 (527)
T TIGR00503        97 TYRTLTAVDNCLMVIDAAKGVE-TRTRKLME-VTRL---RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             HHHHHHhCCEEEEEEECCCCCC-HHHHHHHH-HHHh---cCCCEEEEEECccccC
Confidence            3456889999999999976311 11222232 2222   4689999999999853

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.28  E-value=2.1e-06  Score=60.31  Aligned_cols=93  Identities=24%  Similarity=0.225  Sum_probs=57.9

Q ss_pred             hcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------C------------HHHH
Q 044598            8 YFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM------N------------AAEI   66 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------~------------~~~~   66 (110)
                      .-.-||.+|+|+|...   +++.+.+     .++..   ++.|+|+++||+|..-..      +            ..++
T Consensus       560 gsslC~~aIlvvdImhGlepqtiESi-----~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~~EF  631 (1064)
T KOG1144|consen  560 GSSLCDLAILVVDIMHGLEPQTIESI-----NLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQNEF  631 (1064)
T ss_pred             cccccceEEEEeehhccCCcchhHHH-----HHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHHHHH
Confidence            3456999999999864   3333332     12222   689999999999973210      0            0111


Q ss_pred             Hh-------hh---CCCc---cc----CcceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           67 TD-------KL---GLHS---LR----QRHWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        67 ~~-------~~---~~~~---~~----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ..       .|   ++..   +.    ...+.++++||.+|+|+.+++.+|.+.....+
T Consensus       632 ~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  632 KERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             HHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence            10       11   1111   11    23467899999999999999999988765543

>PRK00049 elongation factor Tu; Reviewed

Probab=98.28  E-value=5.7e-06  Score=54.99  Aligned_cols=92  Identities=20%  Similarity=0.194  Sum_probs=52.7

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEE-EEeeCCCCCCCCC-H----HHHHhhhCCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLL-VFANKQDLPNAMN-A----AEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-iv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~   81 (110)
                      -+..+|++++|+|+.+... ......+..+ ..   .+.|.+ ++.||+|+.+... .    .++...+....+.....+
T Consensus        95 ~~~~aD~~llVVDa~~g~~-~qt~~~~~~~-~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~  169 (396)
T PRK00049         95 GAAQMDGAILVVSAADGPM-PQTREHILLA-RQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTP  169 (396)
T ss_pred             hhccCCEEEEEEECCCCCc-hHHHHHHHHH-HH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCc
Confidence            4678999999999975322 2222223222 21   357875 5899999864211 1    122222211111123468


Q ss_pred             EEeeecccCC----------CHHHHHHHHHHHH
Q 044598           82 IQSTCATSGE----------GLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~----------~i~~l~~~l~~~~  104 (110)
                      ++++||.++.          ++..+++.|...+
T Consensus       170 iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~  202 (396)
T PRK00049        170 IIRGSALKALEGDDDEEWEKKILELMDAVDSYI  202 (396)
T ss_pred             EEEeecccccCCCCcccccccHHHHHHHHHhcC
Confidence            8999999875          4667777776644

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=98.27  E-value=3.8e-06  Score=53.12  Aligned_cols=53  Identities=15%  Similarity=0.080  Sum_probs=36.1

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ..+..+++.+|++++|+|+.+..... ....+.... .   .++|+++++||+|+.+.
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~-~---~~~p~ivviNK~D~~~a  131 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQAD-R---YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHH-H---cCCCEEEEEECCCCCCC
Confidence            45677899999999999997632211 122232221 1   46899999999998754

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

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.27  E-value=5.6e-06  Score=55.79  Aligned_cols=85  Identities=15%  Similarity=0.115  Sum_probs=48.2

Q ss_pred             HhcccCCEEEEEEECCChhh---H---HHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCC----CCH----HHHHhhhC
Q 044598            7 HYFQNTQGLIFVVDSNDRDR---V---VEARDELHRMLNEDELRDAV-LLVFANKQDLPNA----MNA----AEITDKLG   71 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~---~---~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~----~~~----~~~~~~~~   71 (110)
                      .-+..+|++++|+|+.+...   +   .+..+.+.-+. .   .++| ++++.||+|....    ...    +++...+.
T Consensus       104 ~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~-~---~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~  179 (446)
T PTZ00141        104 TGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAF-T---LGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLK  179 (446)
T ss_pred             HhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHH-H---cCCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHH
Confidence            34678999999999875310   0   12222222221 1   3555 6799999995321    111    22222222


Q ss_pred             CCcccCcceEEEeeecccCCCHHH
Q 044598           72 LHSLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        72 ~~~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      ...+....++++++||.+|.|+.+
T Consensus       180 ~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        180 KVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hcCCCcccceEEEeecccCCCccc
Confidence            111222357899999999999864

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.26  E-value=9.8e-06  Score=51.98  Aligned_cols=62  Identities=19%  Similarity=0.113  Sum_probs=39.4

Q ss_pred             CCCeEEEEeeCCCCCCCCCHHHHHhh----hC-C-CcccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAAEITDK----LG-L-HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~~~~~~----~~-~-~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .++|.++++||+|+.+..........    +. + ........+++.+||++++|++++++++.+...
T Consensus       171 ~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       171 MEIADIYVVNKADGEGATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             hhhccEEEEEcccccchhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            35778999999998754322111111    11 1 000112235899999999999999999988643

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.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=98.24  E-value=2.1e-06  Score=57.86  Aligned_cols=89  Identities=12%  Similarity=0.146  Sum_probs=54.1

Q ss_pred             EEEEEEECCCh--hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCC
Q 044598           14 GLIFVVDSNDR--DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGE   91 (110)
Q Consensus        14 ~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~   91 (110)
                      +|+|+.|.++.  .+.++-..++.++.  +-+.++|+|+|+||+|+-...+..+-.+.+-........++++.+|+.+.+
T Consensus       250 aVLYfmDLSe~CGySva~QvkLfhsIK--pLFaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~ee  327 (620)
T KOG1490|consen  250 AVLYFMDLSEMCGYSVAAQVKLYHSIK--PLFANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEE  327 (620)
T ss_pred             hheeeeechhhhCCCHHHHHHHHHHhH--HHhcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchh
Confidence            68999998753  34444444444442  124689999999999986554322211111000011234689999999999


Q ss_pred             CHHHHHHHHHHHH
Q 044598           92 GLYEGLDWLSNNI  104 (110)
Q Consensus        92 ~i~~l~~~l~~~~  104 (110)
                      |+.++.....+.+
T Consensus       328 gVm~Vrt~ACe~L  340 (620)
T KOG1490|consen  328 GVMDVRTTACEAL  340 (620)
T ss_pred             ceeeHHHHHHHHH
Confidence            9988776554444

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.23  E-value=7.6e-06  Score=54.55  Aligned_cols=84  Identities=15%  Similarity=0.071  Sum_probs=46.5

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhC--CCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLG--LHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~--~~~~~~~~~~~~   83 (110)
                      -+..+|++++|+|+...... +....+.-. ..  ...+++++++||+|+.+...  .+++...+.  +........+++
T Consensus       100 ~~~~aD~allVVda~~G~~~-qt~~~~~~~-~~--~~~~~iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii  175 (406)
T TIGR02034       100 GASTADLAVLLVDARKGVLE-QTRRHSYIA-SL--LGIRHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFI  175 (406)
T ss_pred             HHhhCCEEEEEEECCCCCcc-ccHHHHHHH-HH--cCCCcEEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccEE
Confidence            46789999999998753211 111111111 11  12346889999999864321  111121110  000111245789


Q ss_pred             eeecccCCCHHH
Q 044598           84 STCATSGEGLYE   95 (110)
Q Consensus        84 ~~Sa~~~~~i~~   95 (110)
                      ++||++|.|+++
T Consensus       176 piSA~~g~ni~~  187 (406)
T TIGR02034       176 PLSALKGDNVVS  187 (406)
T ss_pred             EeecccCCCCcc
Confidence            999999999885

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).

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.22  E-value=1.1e-06  Score=59.90  Aligned_cols=93  Identities=12%  Similarity=0.107  Sum_probs=63.1

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC--CCCCCeEEEEeeCCCCCCCCCH--HH----HHhhhCCCcccC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED--ELRDAVLLVFANKQDLPNAMNA--AE----ITDKLGLHSLRQ   77 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~--~~~~~~~iiv~nK~Dl~~~~~~--~~----~~~~~~~~~~~~   77 (110)
                      .+=+++||++.++++.+++.+++.....|.......  +..++|+|+|+||+|+......  +.    +...+..     
T Consensus        74 ~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~E-----  148 (625)
T KOG1707|consen   74 RKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAE-----  148 (625)
T ss_pred             HHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHH-----
Confidence            455889999999999999888887765454444332  2246999999999998544322  11    1111111     


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                       ---+++|||++..++.++|....+.+
T Consensus       149 -iEtciecSA~~~~n~~e~fYyaqKaV  174 (625)
T KOG1707|consen  149 -IETCIECSALTLANVSELFYYAQKAV  174 (625)
T ss_pred             -HHHHHhhhhhhhhhhHhhhhhhhhee
Confidence             11366899999999999997766554

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.19  E-value=1.1e-05  Score=48.73  Aligned_cols=92  Identities=10%  Similarity=0.056  Sum_probs=54.7

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC---------CHHHHHhhhC------CC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM---------NAAEITDKLG------LH   73 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~---------~~~~~~~~~~------~~   73 (110)
                      +.++|+++++.|..    +.+....+...+..   .+.|+++|+||+|+....         ..+++.+.+.      +.
T Consensus        78 ~~~~d~~l~v~~~~----~~~~d~~~~~~l~~---~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~  150 (197)
T cd04104          78 FSEYDFFIIISSTR----FSSNDVKLAKAIQC---MGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQ  150 (197)
T ss_pred             ccCcCEEEEEeCCC----CCHHHHHHHHHHHH---hCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHH
Confidence            56789999886532    33333333333333   358999999999984211         1112111110      00


Q ss_pred             cccCcceEEEeeecc--cCCCHHHHHHHHHHHHHhh
Q 044598           74 SLRQRHWYIQSTCAT--SGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~--~~~~i~~l~~~l~~~~~~~  107 (110)
                      .......+++.+|+.  .+.|+..+.+.+...++..
T Consensus       151 ~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         151 EAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             HcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence            001123478899998  6789999999999988754

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=98.17  E-value=9.3e-06  Score=51.30  Aligned_cols=53  Identities=15%  Similarity=0.166  Sum_probs=35.3

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      .+..+++.+|++++|+|+++.... ....++ .....   .++|+++++||+|+.+..
T Consensus        87 ~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~-~~~~~---~~~P~iivvNK~D~~~a~  139 (267)
T cd04169          87 DTYRTLTAVDSAVMVIDAAKGVEP-QTRKLF-EVCRL---RGIPIITFINKLDREGRD  139 (267)
T ss_pred             HHHHHHHHCCEEEEEEECCCCccH-HHHHHH-HHHHh---cCCCEEEEEECCccCCCC
Confidence            345678899999999999763221 112222 22222   478999999999986653

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.16  E-value=7.3e-06  Score=52.22  Aligned_cols=89  Identities=27%  Similarity=0.250  Sum_probs=57.7

Q ss_pred             cccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            9 FQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      ..+.|-+++|+.+.+|+- ..-    +.+++...+..+...+|++||+|+.+...... .+...  .+...+++++.+|+
T Consensus        77 v~n~d~~iiIvs~~~P~~~~~~----ldR~Lv~ae~~gi~pvIvlnK~DL~~~~~~~~-~~~~~--~y~~~gy~v~~~s~  149 (301)
T COG1162          77 VANNDQAIIVVSLVDPDFNTNL----LDRYLVLAEAGGIEPVIVLNKIDLLDDEEAAV-KELLR--EYEDIGYPVLFVSA  149 (301)
T ss_pred             ccccceEEEEEeccCCCCCHHH----HHHHHHHHHHcCCcEEEEEEccccCcchHHHH-HHHHH--HHHhCCeeEEEecC
Confidence            445778888888877642 222    22222222235777788899999976654332 11111  13456789999999


Q ss_pred             ccCCCHHHHHHHHHHHH
Q 044598           88 TSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~  104 (110)
                      +++.|++++...+...+
T Consensus       150 ~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         150 KNGDGLEELAELLAGKI  166 (301)
T ss_pred             cCcccHHHHHHHhcCCe
Confidence            99999999988876554

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.16  E-value=9.4e-06  Score=45.39  Aligned_cols=83  Identities=19%  Similarity=0.231  Sum_probs=55.9

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      .+++|++++|-.+.++.+.-..  -+.      ....+|+|-+++|.|+.+..+.+..+.++..   .. .-++|++|+.
T Consensus        62 ~~dadvi~~v~~and~~s~f~p--~f~------~~~~k~vIgvVTK~DLaed~dI~~~~~~L~e---aG-a~~IF~~s~~  129 (148)
T COG4917          62 LQDADVIIYVHAANDPESRFPP--GFL------DIGVKKVIGVVTKADLAEDADISLVKRWLRE---AG-AEPIFETSAV  129 (148)
T ss_pred             hhccceeeeeecccCccccCCc--ccc------cccccceEEEEecccccchHhHHHHHHHHHH---cC-CcceEEEecc
Confidence            4688999999988876542110  011      1235679999999999865444444444421   11 3378999999


Q ss_pred             cCCCHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNN  103 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~  103 (110)
                      +++|+++++..|...
T Consensus       130 d~~gv~~l~~~L~~~  144 (148)
T COG4917         130 DNQGVEELVDYLASL  144 (148)
T ss_pred             CcccHHHHHHHHHhh
Confidence            999999999887653

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.12  E-value=1.2e-05  Score=49.54  Aligned_cols=51  Identities=20%  Similarity=0.152  Sum_probs=35.3

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      .....+++.+|++++|+|+++...... ...+.....    .+.|+++++||+|+.
T Consensus        88 ~~~~~~l~~aD~~ilVvD~~~g~~~~t-~~~l~~~~~----~~~p~ilviNKiD~~  138 (222)
T cd01885          88 SEVTAALRLCDGALVVVDAVEGVCVQT-ETVLRQALK----ERVKPVLVINKIDRL  138 (222)
T ss_pred             HHHHHHHHhcCeeEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECCCcc
Confidence            345678999999999999986433322 223333222    357999999999975

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

>PRK12739 elongation factor G; Reviewed

Probab=98.11  E-value=3.2e-05  Score=54.79  Aligned_cols=52  Identities=17%  Similarity=0.096  Sum_probs=34.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+...++.+|++++|+|+.+.....+ ...+.... .   .++|.++++||+|+.+.
T Consensus        89 e~~~al~~~D~~ilVvDa~~g~~~qt-~~i~~~~~-~---~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         89 EVERSLRVLDGAVAVFDAVSGVEPQS-ETVWRQAD-K---YGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HHHHHHHHhCeEEEEEeCCCCCCHHH-HHHHHHHH-H---cCCCEEEEEECCCCCCC
Confidence            45667899999999999876422211 22222222 1   46899999999998643

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.11  E-value=6.5e-06  Score=55.86  Aligned_cols=83  Identities=17%  Similarity=0.121  Sum_probs=46.8

Q ss_pred             cccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhC--CCccc-CcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLG--LHSLR-QRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~--~~~~~-~~~~~~   82 (110)
                      +..+|++++|+|+.+........ ..+...+     ..+|+++++||+|+.+...  ..++...+.  +.... ....++
T Consensus       128 l~~aD~allVVDa~~G~~~qt~~~~~l~~~l-----g~~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~i  202 (474)
T PRK05124        128 ASTCDLAILLIDARKGVLDQTRRHSFIATLL-----GIKHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRF  202 (474)
T ss_pred             HhhCCEEEEEEECCCCccccchHHHHHHHHh-----CCCceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceE
Confidence            58899999999987531110000 1111111     2357899999999864221  112222110  00011 124689


Q ss_pred             EeeecccCCCHHHH
Q 044598           83 QSTCATSGEGLYEG   96 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l   96 (110)
                      +++||++|.|++++
T Consensus       203 ipvSA~~g~ni~~~  216 (474)
T PRK05124        203 VPLSALEGDNVVSQ  216 (474)
T ss_pred             EEEEeecCCCcccc
Confidence            99999999999764

>PLN03127 Elongation factor Tu; Provisional

Probab=98.09  E-value=2.4e-05  Score=52.79  Aligned_cols=92  Identities=20%  Similarity=0.248  Sum_probs=50.4

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HH----HHHhhhCCCcccCcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AA----EITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~   82 (110)
                      ...+|++++|+|+.+... .+....+..+ ..   .++| ++++.||+|+.+... .+    ++...+....+.....++
T Consensus       145 ~~~aD~allVVda~~g~~-~qt~e~l~~~-~~---~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpi  219 (447)
T PLN03127        145 AAQMDGGILVVSAPDGPM-PQTKEHILLA-RQ---VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPI  219 (447)
T ss_pred             HhhCCEEEEEEECCCCCc-hhHHHHHHHH-HH---cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceE
Confidence            456999999999875321 1222222222 21   3578 578899999864221 11    111211110111234677


Q ss_pred             Eeeecc---cCCC-------HHHHHHHHHHHHH
Q 044598           83 QSTCAT---SGEG-------LYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~---~~~~-------i~~l~~~l~~~~~  105 (110)
                      +++||.   +|.|       +..+++.+.+.+.
T Consensus       220 ip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        220 IRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             EEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            888775   4555       6778887776653

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.04  E-value=7.7e-05  Score=48.12  Aligned_cols=50  Identities=22%  Similarity=0.140  Sum_probs=36.5

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+|.+.|.||.|+.+....+.+...          ...+.+||+++.|++++.+.|.+.+
T Consensus       239 Y~p~l~v~NKiD~~~~e~~~~l~~~----------~~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         239 YKPALYVVNKIDLPGLEELERLARK----------PNSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             eeeeEEEEecccccCHHHHHHHHhc----------cceEEEecccCCCHHHHHHHHHHhh
Confidence            3589999999998653222222211          1567899999999999999998876

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.00  E-value=9.6e-06  Score=54.82  Aligned_cols=79  Identities=18%  Similarity=0.254  Sum_probs=51.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      |.+|+ .++.+|+++.++|+.+|--+..  .-+.....+.+ ..+..++++||.||..........+++.     ...++
T Consensus       166 RQLWR-VlErSDivvqIVDARnPllfr~--~dLe~Yvke~d-~~K~~~LLvNKaDLl~~~qr~aWa~YF~-----~~ni~  236 (562)
T KOG1424|consen  166 RQLWR-VLERSDIVVQIVDARNPLLFRS--PDLEDYVKEVD-PSKANVLLVNKADLLPPEQRVAWAEYFR-----QNNIP  236 (562)
T ss_pred             HHHHH-HHhhcceEEEEeecCCccccCC--hhHHHHHhccc-cccceEEEEehhhcCCHHHHHHHHHHHH-----hcCce
Confidence            45777 5899999999999988643321  12233333322 4577899999999976654444555543     23467


Q ss_pred             EEeeeccc
Q 044598           82 IQSTCATS   89 (110)
Q Consensus        82 ~~~~Sa~~   89 (110)
                      ++.-||..
T Consensus       237 ~vf~SA~~  244 (562)
T KOG1424|consen  237 VVFFSALA  244 (562)
T ss_pred             EEEEeccc
Confidence            77777765

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.00  E-value=1.5e-05  Score=55.84  Aligned_cols=84  Identities=17%  Similarity=0.120  Sum_probs=45.9

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhC-C-CcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLG-L-HSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~-~-~~~~~~~~~~~   83 (110)
                      -+..+|++++|+|+..... .+....+. +...  ...+++++++||+|+.+...  .+++...+. + ........+++
T Consensus       124 ~~~~aD~~llVvda~~g~~-~~t~e~~~-~~~~--~~~~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~ii  199 (632)
T PRK05506        124 GASTADLAIILVDARKGVL-TQTRRHSF-IASL--LGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFI  199 (632)
T ss_pred             HHHhCCEEEEEEECCCCcc-ccCHHHHH-HHHH--hCCCeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEE
Confidence            4678999999999865321 11111111 1111  12367899999999864211  111211110 0 00111234688


Q ss_pred             eeecccCCCHHH
Q 044598           84 STCATSGEGLYE   95 (110)
Q Consensus        84 ~~Sa~~~~~i~~   95 (110)
                      ++||++|.|+.+
T Consensus       200 piSA~~g~ni~~  211 (632)
T PRK05506        200 PISALKGDNVVT  211 (632)
T ss_pred             EEecccCCCccc
Confidence            999999999874

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=97.99  E-value=3.8e-05  Score=51.76  Aligned_cols=94  Identities=18%  Similarity=0.287  Sum_probs=61.7

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh------CCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL------GLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~------~~~~~~~~~~~   81 (110)
                      .+.=.|++++++|+.+- ...+.+.-+.+.++    .+.+.|+|.||+|.+.+.+.+-+.+.+      +... ....++
T Consensus        88 vl~MVDgvlLlVDA~EG-pMPQTrFVlkKAl~----~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~d-eQLdFP  161 (603)
T COG1217          88 VLSMVDGVLLLVDASEG-PMPQTRFVLKKALA----LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATD-EQLDFP  161 (603)
T ss_pred             hhhhcceEEEEEEcccC-CCCchhhhHHHHHH----cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCCh-hhCCCc
Confidence            45567999999999862 23344444555554    356678899999998877544333322      1111 134568


Q ss_pred             EEeeecccC----------CCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSG----------EGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~----------~~i~~l~~~l~~~~~~~  107 (110)
                      +++.||+.|          .+...+|+.|.++++.-
T Consensus       162 ivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P  197 (603)
T COG1217         162 IVYASARNGTASLDPEDEADDMAPLFETILDHVPAP  197 (603)
T ss_pred             EEEeeccCceeccCccccccchhHHHHHHHHhCCCC
Confidence            889998877          35778888888887643

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.95  E-value=1.3e-05  Score=51.02  Aligned_cols=56  Identities=29%  Similarity=0.301  Sum_probs=39.0

Q ss_pred             CeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           46 AVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        46 ~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..-++|.||+|+.+..  ..+.+...+.   ..+...+++++||++|+|++++.+||.+..
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr---~lnp~a~I~~vSA~tGeGld~L~~~L~~~~  288 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAR---EVNPEIEIILISATSGEGMDQWLNWLETQR  288 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHH---hhCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            4569999999996532  1222222221   113456899999999999999999998753

>cd04167 Snu114p Snu114p subfamily

Probab=97.95  E-value=3.4e-05  Score=47.08  Aligned_cols=51  Identities=14%  Similarity=0.128  Sum_probs=35.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      ..+..++..+|++++|+|+++..+... ..++.....    .+.|+++|+||+|+.
T Consensus        86 ~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~----~~~p~iiviNK~D~~  136 (213)
T cd04167          86 DEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL----EGLPIVLVINKIDRL  136 (213)
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECcccC
Confidence            456678899999999999976543322 222332221    358999999999974

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=97.88  E-value=8.5e-05  Score=50.61  Aligned_cols=78  Identities=21%  Similarity=0.199  Sum_probs=44.3

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HH----HHHhhhCCCcccCcceEE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AA----EITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~   82 (110)
                      +..+|++++|+|+.+... ....+++.... .   .++| +++++||+|+.+... .+    ++...+....+.....++
T Consensus       165 ~~~aD~ailVVda~~G~~-~qt~e~~~~~~-~---~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~  239 (478)
T PLN03126        165 AAQMDGAILVVSGADGPM-PQTKEHILLAK-Q---VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPI  239 (478)
T ss_pred             HhhCCEEEEEEECCCCCc-HHHHHHHHHHH-H---cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceE
Confidence            567899999999875322 22233333222 1   3567 778999999864221 11    222222111112235688


Q ss_pred             EeeecccCC
Q 044598           83 QSTCATSGE   91 (110)
Q Consensus        83 ~~~Sa~~~~   91 (110)
                      +++||.+|.
T Consensus       240 vp~Sa~~g~  248 (478)
T PLN03126        240 ISGSALLAL  248 (478)
T ss_pred             EEEEccccc
Confidence            999998874

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.87  E-value=6.5e-05  Score=49.75  Aligned_cols=81  Identities=22%  Similarity=0.265  Sum_probs=48.0

Q ss_pred             cccCCEEEEEEECCChh------hHHHHHH--HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhh----CCC
Q 044598            9 FQNTQGLIFVVDSNDRD------RVVEARD--ELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKL----GLH   73 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~------~~~~~~~--~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~----~~~   73 (110)
                      ..+||++|+|+|+...+      .-.+.++  .+...+     .-..++++.||+|+.+ .+.   +++....    ...
T Consensus       106 asqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tl-----Gi~~lIVavNKMD~v~-wde~rf~ei~~~v~~l~k~~  179 (428)
T COG5256         106 ASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTL-----GIKQLIVAVNKMDLVS-WDEERFEEIVSEVSKLLKMV  179 (428)
T ss_pred             hhhccEEEEEEECCCCccccccccCCchhHHHHHHHhc-----CCceEEEEEEcccccc-cCHHHHHHHHHHHHHHHHHc
Confidence            45799999999998642      0111111  222221     2356999999999875 222   2222211    111


Q ss_pred             cccCcceEEEeeecccCCCHHH
Q 044598           74 SLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      .+.....+++++||.+|.|+.+
T Consensus       180 G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         180 GYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             CCCccCCeEEecccccCCcccc
Confidence            1233457899999999999764

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=97.86  E-value=6.1e-05  Score=50.87  Aligned_cols=99  Identities=15%  Similarity=0.154  Sum_probs=55.0

Q ss_pred             HHhcccCCEEEEEEECCC--hhhHHHHHHHHHHHhcC-----CCCCCCeEEEEeeCCCCCCCCCHHHH--HhhhCCCccc
Q 044598            6 RHYFQNTQGLIFVVDSND--RDRVVEARDELHRMLNE-----DELRDAVLLVFANKQDLPNAMNAAEI--TDKLGLHSLR   76 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~~-----~~~~~~~~iiv~nK~Dl~~~~~~~~~--~~~~~~~~~~   76 (110)
                      +..++.||++++|+|+..  .++-......+...-..     ......|++++.||.|+....+.-..  ..+...  ..
T Consensus       343 ~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~--~~  420 (531)
T KOG1191|consen  343 RKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSA--EG  420 (531)
T ss_pred             HHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceecccc--cc
Confidence            345789999999999932  21111111112111000     11124789999999998655221110  000000  01


Q ss_pred             CcceE-EEeeecccCCCHHHHHHHHHHHHHh
Q 044598           77 QRHWY-IQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        77 ~~~~~-~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ....+ +.++|+++++|++.+...+...+..
T Consensus       421 ~~~~~i~~~vs~~tkeg~~~L~~all~~~~~  451 (531)
T KOG1191|consen  421 RSVFPIVVEVSCTTKEGCERLSTALLNIVER  451 (531)
T ss_pred             CcccceEEEeeechhhhHHHHHHHHHHHHHH
Confidence            11223 3459999999999999998887654

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=97.85  E-value=2e-05  Score=43.57  Aligned_cols=77  Identities=16%  Similarity=0.099  Sum_probs=48.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      +...+++.++.++.|++.+...++...  |...+.... ..+.|.++++||.|+......   ....        ...+.
T Consensus        39 ~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~-k~dl~~~~~~nk~dl~~~~~~---~~~~--------~~~~~  104 (124)
T smart00010       39 YDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGN-KSDLPILVGGNRDVLEEERQV---ATEE--------GLEFA  104 (124)
T ss_pred             ccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcC-CCCCcEEEEeechhhHhhCcC---CHHH--------HHHHH
Confidence            456678899999999999887766543  444333322 246789999999997332110   0000        11234


Q ss_pred             eeecccCCCHH
Q 044598           84 STCATSGEGLY   94 (110)
Q Consensus        84 ~~Sa~~~~~i~   94 (110)
                      ++|++++.|+.
T Consensus       105 ~~s~~~~~~~~  115 (124)
T smart00010      105 ETSAKTPEEGE  115 (124)
T ss_pred             HHhCCCcchhh
Confidence            78999999874

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.

>PRK00007 elongation factor G; Reviewed

Probab=97.84  E-value=0.00034  Score=49.80  Aligned_cols=48  Identities=15%  Similarity=0.115  Sum_probs=31.7

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ..++.+|++++|+|+.+.....+ ...+.....    .++|.++++||+|+.+
T Consensus        94 ~al~~~D~~vlVvda~~g~~~qt-~~~~~~~~~----~~~p~iv~vNK~D~~~  141 (693)
T PRK00007         94 RSLRVLDGAVAVFDAVGGVEPQS-ETVWRQADK----YKVPRIAFVNKMDRTG  141 (693)
T ss_pred             HHHHHcCEEEEEEECCCCcchhh-HHHHHHHHH----cCCCEEEEEECCCCCC
Confidence            45778999999999875322221 222322221    4688999999999864

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.81  E-value=0.00019  Score=46.35  Aligned_cols=85  Identities=19%  Similarity=0.150  Sum_probs=53.0

Q ss_pred             CCEEEEEEECCChh--hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeeccc
Q 044598           12 TQGLIFVVDSNDRD--RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATS   89 (110)
Q Consensus        12 ~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~   89 (110)
                      .++++|++|++..-  +.+.-..++.++...   -+.|+++|.||+|..+....+++...+..    ........+++..
T Consensus       248 ~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~---f~~p~v~V~nK~D~~~~e~~~~~~~~~~~----~~~~~~~~~~~~~  320 (346)
T COG1084         248 AGVILFLFDPSETCGYSLEEQISLLEEIKEL---FKAPIVVVINKIDIADEEKLEEIEASVLE----EGGEEPLKISATK  320 (346)
T ss_pred             cCeEEEEEcCccccCCCHHHHHHHHHHHHHh---cCCCeEEEEecccccchhHHHHHHHHHHh----hccccccceeeee
Confidence            57899999998532  344444555555332   34899999999998754444443333211    1111244678888


Q ss_pred             CCCHHHHHHHHHHH
Q 044598           90 GEGLYEGLDWLSNN  103 (110)
Q Consensus        90 ~~~i~~l~~~l~~~  103 (110)
                      +.+++.+...+...
T Consensus       321 ~~~~d~~~~~v~~~  334 (346)
T COG1084         321 GCGLDKLREEVRKT  334 (346)
T ss_pred             hhhHHHHHHHHHHH
Confidence            88888777766655

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=97.80  E-value=0.00022  Score=45.06  Aligned_cols=53  Identities=19%  Similarity=0.157  Sum_probs=36.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ..+..+++.+|++++|+|+++..... ....+... ..   .++|.++++||+|..+.
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~-~~~~~~~~-~~---~~~p~iivvNK~D~~~~  131 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVG-TEKLWEFA-DE---AGIPRIIFINKMDRERA  131 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHH-HHHHHHHH-HH---cCCCEEEEEECCccCCC
Confidence            34677889999999999998643322 12222222 11   46899999999998765

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

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.76  E-value=2.4e-05  Score=46.40  Aligned_cols=42  Identities=19%  Similarity=0.177  Sum_probs=27.6

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHH--hcCCCCCCCeEEEEeeCCCCCC
Q 044598           13 QGLIFVVDSNDRDRVVEARDELHRM--LNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus        13 ~~~i~v~d~~~~~~~~~~~~~~~~~--~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      |++++|+|+.++....  ...+.+.  +..   .++|+++|.||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~--~~~i~~~~~l~~---~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCR--CPQVEEAVLQAG---GNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCC--CHHHHHHHHhcc---CCCCEEEEEehhhcCC
Confidence            7899999998753211  1122222  222   3689999999999954

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

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.75  E-value=0.00029  Score=47.07  Aligned_cols=87  Identities=16%  Similarity=0.109  Sum_probs=53.7

Q ss_pred             cccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHH-HhhhCCCcccCcceEEEe
Q 044598            9 FQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEI-TDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~-~~~~~~~~~~~~~~~~~~   84 (110)
                      +...|.+++|+|+.+   ++..+.+  .+.+.+     .....++|.||+|..+....++. .+.+..  ..-...+++.
T Consensus        71 ~~~~d~alLvV~~deGl~~qtgEhL--~iLdll-----gi~~giivltk~D~~d~~r~e~~i~~Il~~--l~l~~~~i~~  141 (447)
T COG3276          71 LGGIDYALLVVAADEGLMAQTGEHL--LILDLL-----GIKNGIIVLTKADRVDEARIEQKIKQILAD--LSLANAKIFK  141 (447)
T ss_pred             hcCCceEEEEEeCccCcchhhHHHH--HHHHhc-----CCCceEEEEeccccccHHHHHHHHHHHHhh--cccccccccc
Confidence            346899999999954   2222222  111221     23446999999998654322221 222111  1123346789


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +|+.+|+|++++.+.|.+..
T Consensus       142 ~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         142 TSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             cccccCCCHHHHHHHHHHhh
Confidence            99999999999999998877

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.75  E-value=0.00023  Score=45.50  Aligned_cols=87  Identities=20%  Similarity=0.213  Sum_probs=51.2

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCc----ccCcceEEEe
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHS----LRQRHWYIQS   84 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~----~~~~~~~~~~   84 (110)
                      .-+|.+++|.-+.--+.....+.   .++      ..-=++|.||.|..++. ...++...+.+..    ......+++.
T Consensus       163 ~~aDt~~~v~~pg~GD~~Q~iK~---Gim------EiaDi~vINKaD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~  233 (323)
T COG1703         163 NMADTFLVVMIPGAGDDLQGIKA---GIM------EIADIIVINKADRKGAEKAARELRSALDLLREVWRENGWRPPVVT  233 (323)
T ss_pred             hhcceEEEEecCCCCcHHHHHHh---hhh------hhhheeeEeccChhhHHHHHHHHHHHHHhhcccccccCCCCceeE
Confidence            34677777765432222322222   122      22238999999965442 1222222232221    1233458999


Q ss_pred             eecccCCCHHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +||.+|+|++++...+.++..
T Consensus       234 t~A~~g~Gi~~L~~ai~~h~~  254 (323)
T COG1703         234 TSALEGEGIDELWDAIEDHRK  254 (323)
T ss_pred             eeeccCCCHHHHHHHHHHHHH
Confidence            999999999999999988875

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.74  E-value=3.5e-05  Score=46.27  Aligned_cols=55  Identities=25%  Similarity=0.205  Sum_probs=38.3

Q ss_pred             eEEEEeeCCCCCCCCCH--HHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           47 VLLVFANKQDLPNAMNA--AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        47 ~~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .=++|.||.|+.+....  +...+-..   .-+...+++.+|+++|+|++++..|+....
T Consensus       144 aDllVInK~DLa~~v~~dlevm~~da~---~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         144 ADLLVINKTDLAPYVGADLEVMARDAK---EVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             eeEEEEehHHhHHHhCccHHHHHHHHH---HhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            35899999999765432  32222111   113455899999999999999999988754

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.74  E-value=5.4e-05  Score=49.13  Aligned_cols=84  Identities=18%  Similarity=0.130  Sum_probs=52.4

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      .....+..+|+++.|+|+.+|.+..  ...+.++.     .++|.++|+||.|+.+....+.....+..    ..+...+
T Consensus        27 ~~~~~~~~~d~vvevvDar~P~~s~--~~~l~~~v-----~~k~~i~vlNK~DL~~~~~~~~W~~~~~~----~~~~~~~   95 (322)
T COG1161          27 QLKEVLKSVDVVVEVVDARDPLGTR--NPELERIV-----KEKPKLLVLNKADLAPKEVTKKWKKYFKK----EEGIKPI   95 (322)
T ss_pred             HHHHhcccCCEEEEEEecccccccc--CccHHHHH-----ccCCcEEEEehhhcCCHHHHHHHHHHHHh----cCCCccE
Confidence            3456788999999999999875421  12344443     34566999999999765433344443321    1133445


Q ss_pred             eeecccCCCHHHHHH
Q 044598           84 STCATSGEGLYEGLD   98 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~   98 (110)
                      .+++..+.+...+..
T Consensus        96 ~v~~~~~~~~~~i~~  110 (322)
T COG1161          96 FVSAKSRQGGKKIRK  110 (322)
T ss_pred             EEEeecccCccchHH
Confidence            677777777666653

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.63  E-value=9.4e-05  Score=45.87  Aligned_cols=106  Identities=22%  Similarity=0.403  Sum_probs=70.3

Q ss_pred             cchHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSND----------RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----------   61 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----------   61 (110)
                      |+.|-+++++...++|++..++          ++..+++...+..+...++..+.++|+..||.|+.+..          
T Consensus       213 rrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKkDlLEekI~ySHl~~YF  292 (359)
T KOG0085|consen  213 RRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKILYSHLADYF  292 (359)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechhhhhhhhhhHHHHHHhC
Confidence            4568888888887777765432          33456666777777878888899999999999984321          


Q ss_pred             -------CHHHHHhh------hCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           62 -------NAAEITDK------LGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        62 -------~~~~~~~~------~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                             ...+....      ..+.....+.+....++|.+.+|+.-+|..+.+.+...
T Consensus       293 Pe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~  351 (359)
T KOG0085|consen  293 PEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  351 (359)
T ss_pred             cccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHh
Confidence                   11111111      11211122334556788999999999999988877653

>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=97.62  E-value=0.0005  Score=42.88  Aligned_cols=87  Identities=18%  Similarity=0.119  Sum_probs=43.4

Q ss_pred             CCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---------H-----------H----
Q 044598           12 TQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---------A-----------A----   64 (110)
Q Consensus        12 ~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---------~-----------~----   64 (110)
                      .-++++++|+..   +..+-.....-...+..   .+.|.+.|.||+|+.+...         .           .    
T Consensus       123 ~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~---~~lP~vnvlsK~Dl~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~  199 (238)
T PF03029_consen  123 RLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLR---LELPHVNVLSKIDLLSKYLEFILEWFEDPDSLEDLLESDYKKLNE  199 (238)
T ss_dssp             --EEEEEE-GGG-SSHHHHHHHHHHHHHHHHH---HTSEEEEEE--GGGS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHH
T ss_pred             ceEEEEEEecccccChhhHHHHHHHHHHHHhh---CCCCEEEeeeccCcccchhHHHHHHhcChHHHHHHHHHHHHHHHH
Confidence            457899999763   33332221111111111   3699999999999965210         0           0    


Q ss_pred             HHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           65 EITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+...+.  . ......++++|+.+++|+.+++..+-+..
T Consensus       200 ~i~~~l~--~-~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  200 EIAELLD--D-FGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHCC--C-CSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHh--h-cCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            1111111  1 11223788999999999999999887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd01882 BMS1 Bms1

Probab=97.61  E-value=0.00013  Score=45.05  Aligned_cols=78  Identities=6%  Similarity=-0.044  Sum_probs=42.7

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HHHHH----hhhCCCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AAEIT----DKLGLHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~~~~----~~~~~~~~~~~~~~   81 (110)
                      ..+.+|++++|+|++.......  ..+...+..   .+.| +++|+||+|+.+... .++..    ..+...  .....+
T Consensus       100 ~ak~aDvVllviDa~~~~~~~~--~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~--~~~~~k  172 (225)
T cd01882         100 IAKVADLVLLLIDASFGFEMET--FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTE--VYQGAK  172 (225)
T ss_pred             HHHhcCEEEEEEecCcCCCHHH--HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHh--hCCCCc
Confidence            3578999999999875322211  222223322   3466 455999999854321 12222    111100  112458


Q ss_pred             EEeeecccCCC
Q 044598           82 IQSTCATSGEG   92 (110)
Q Consensus        82 ~~~~Sa~~~~~   92 (110)
                      ++.+||++...
T Consensus       173 i~~iSa~~~~~  183 (225)
T cd01882         173 LFYLSGIVHGR  183 (225)
T ss_pred             EEEEeeccCCC
Confidence            99999988743

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.

>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=97.55  E-value=4.2e-05  Score=47.90  Aligned_cols=87  Identities=17%  Similarity=0.190  Sum_probs=47.2

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCc--ccCcceEEEeee
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHS--LRQRHWYIQSTC   86 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~S   86 (110)
                      .-+|.+++|+-+..-+.....+.-+.         ...=++|.||.|...+.. ..++...+.+..  ......+++.+|
T Consensus       141 ~~aD~~v~v~~Pg~GD~iQ~~KaGim---------EiaDi~vVNKaD~~gA~~~~~~l~~~l~l~~~~~~~W~ppV~~ts  211 (266)
T PF03308_consen  141 DMADTVVLVLVPGLGDEIQAIKAGIM---------EIADIFVVNKADRPGADRTVRDLRSMLHLLREREDGWRPPVLKTS  211 (266)
T ss_dssp             TTSSEEEEEEESSTCCCCCTB-TTHH---------HH-SEEEEE--SHHHHHHHHHHHHHHHHHCSTSCTSB--EEEEEB
T ss_pred             HhcCeEEEEecCCCccHHHHHhhhhh---------hhccEEEEeCCChHHHHHHHHHHHHHHhhccccccCCCCCEEEEE
Confidence            45788888886543222211111111         233489999999644321 222333332211  123345899999


Q ss_pred             cccCCCHHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~  105 (110)
                      |.+++|++++.+.+.++..
T Consensus       212 A~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  212 ALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             TTTTBSHHHHHHHHHHHHH
T ss_pred             eCCCCCHHHHHHHHHHHHH
Confidence            9999999999999987653

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.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.0017  Score=42.74  Aligned_cols=79  Identities=18%  Similarity=0.196  Sum_probs=45.7

Q ss_pred             ccCCEEEEEEECCChhhHHHHHH--HHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhh-CCC-cccCcceEEE
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARD--ELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKL-GLH-SLRQRHWYIQ   83 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~--~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~-~~~-~~~~~~~~~~   83 (110)
                      ..||++|+++|+.. .-+++.+.  .+..++     .-+.++++.||+||.+-..  .+++...+ .+. ........++
T Consensus       108 STadlAIlLVDAR~-Gvl~QTrRHs~I~sLL-----GIrhvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~I  181 (431)
T COG2895         108 STADLAILLVDARK-GVLEQTRRHSFIASLL-----GIRHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFI  181 (431)
T ss_pred             ccccEEEEEEecch-hhHHHhHHHHHHHHHh-----CCcEEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceEE
Confidence            35899999999853 22333321  233332     2356899999999976432  12222211 110 0122334788


Q ss_pred             eeecccCCCHH
Q 044598           84 STCATSGEGLY   94 (110)
Q Consensus        84 ~~Sa~~~~~i~   94 (110)
                      ++||..|.|+-
T Consensus       182 PiSAl~GDNV~  192 (431)
T COG2895         182 PISALLGDNVV  192 (431)
T ss_pred             echhccCCccc
Confidence            99999999875

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.34  E-value=0.00041  Score=45.91  Aligned_cols=62  Identities=18%  Similarity=0.135  Sum_probs=38.9

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhh
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL   70 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~   70 (110)
                      +..++.+|++|.|+|+.+|.+-...  ...+++... ..++..|+|.||+|+.+....+....++
T Consensus       141 rkvve~sDVVleVlDARDPlgtR~~--~vE~~V~~~-~gnKkLILVLNK~DLVPrEv~e~Wl~YL  202 (435)
T KOG2484|consen  141 RKVVEASDVVLEVLDARDPLGTRCP--EVEEAVLQA-HGNKKLILVLNKIDLVPREVVEKWLVYL  202 (435)
T ss_pred             HHHHhhhheEEEeeeccCCCCCCCh--hHHHHHHhc-cCCceEEEEeehhccCCHHHHHHHHHHH
Confidence            4456789999999999988542211  122222111 1458899999999996554444444443

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.27  E-value=0.0013  Score=43.28  Aligned_cols=88  Identities=23%  Similarity=0.169  Sum_probs=48.2

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhh--CCCccc-CcceEEEe
Q 044598           12 TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKL--GLHSLR-QRHWYIQS   84 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~--~~~~~~-~~~~~~~~   84 (110)
                      .|..++|+|...-.....+..++...     ...+..++|.||+|+.....    .++.....  .+.... ....++++
T Consensus        94 iDlm~lviDv~kG~QtQtAEcLiig~-----~~c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~  168 (522)
T KOG0461|consen   94 IDLMILVIDVQKGKQTQTAECLIIGE-----LLCKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPIVE  168 (522)
T ss_pred             eeeeeEEEehhcccccccchhhhhhh-----hhccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCceeE
Confidence            47789999987532222222222211     13456888999999754321    11111111  111111 23468999


Q ss_pred             eecccC----CCHHHHHHHHHHHH
Q 044598           85 TCATSG----EGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~----~~i~~l~~~l~~~~  104 (110)
                      +||..|    +++.++.+.+...+
T Consensus       169 vsa~~G~~~~~~i~eL~e~l~s~i  192 (522)
T KOG0461|consen  169 VSAADGYFKEEMIQELKEALESRI  192 (522)
T ss_pred             EecCCCccchhHHHHHHHHHHHhh
Confidence            999999    66666666666554

>cd01899 Ygr210 Ygr210 subfamily

Probab=97.25  E-value=0.00049  Score=44.68  Aligned_cols=56  Identities=23%  Similarity=0.217  Sum_probs=39.0

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHH-HHHHHHHh
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLD-WLSNNIAN  106 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~-~l~~~~~~  106 (110)
                      .+|+++++||.|+.+..   +....+..   ......++.+||+.+.++.++.+ .+.++++.
T Consensus       214 ~KPvI~VlNK~Dl~~~~---~~~~~l~~---~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         214 SKPMVIAANKADIPDAE---NNISKLRL---KYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             CCcEEEEEEHHHccChH---HHHHHHHh---hCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            47999999999974322   22222211   11234788999999999999997 68888754

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.

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.25  E-value=0.0021  Score=42.98  Aligned_cols=55  Identities=18%  Similarity=0.315  Sum_probs=36.8

Q ss_pred             chHHHh---cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHY---FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~---~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ++|...   +..+|++|-|+|+.+|-.-  --..+.+++... .+++-++.|.||+||...
T Consensus       202 RIW~ELyKViDSSDVvvqVlDARDPmGT--rc~~ve~ylkke-~phKHli~vLNKvDLVPt  259 (572)
T KOG2423|consen  202 RIWGELYKVIDSSDVVVQVLDARDPMGT--RCKHVEEYLKKE-KPHKHLIYVLNKVDLVPT  259 (572)
T ss_pred             HHHHHHHHhhcccceeEEeeeccCCccc--ccHHHHHHHhhc-CCcceeEEEeeccccccH
Confidence            356544   4578999999999887421  112344444432 367889999999999654

>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=97.20  E-value=0.00074  Score=41.97  Aligned_cols=98  Identities=24%  Similarity=0.274  Sum_probs=53.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC--CCCCCCeEEEEeeCCCCCCCCCHHH--------HHhhhCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE--DELRDAVLLVFANKQDLPNAMNAAE--------ITDKLGLH   73 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~--~~~~~~~~iiv~nK~Dl~~~~~~~~--------~~~~~~~~   73 (110)
                      ..+..++++.++|||+|+.+.+ +.+....+...++.  ...++..+.++..|+|+.......+        +.+...  
T Consensus        69 ~~~~if~~v~~LIyV~D~qs~~-~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~--  145 (232)
T PF04670_consen   69 QREEIFSNVGVLIYVFDAQSDD-YDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELE--  145 (232)
T ss_dssp             CHHHHHCTESEEEEEEETT-ST-CHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHH--
T ss_pred             cHHHHHhccCEEEEEEEccccc-HHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhh--
Confidence            4566789999999999998433 22222222222211  1126788999999999854321111        111111  


Q ss_pred             cccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           74 SLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ......+.++.+|..+ +.+.+.+..+.+.+.
T Consensus       146 ~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~Li  176 (232)
T PF04670_consen  146 DLGIEDITFFLTSIWD-ESLYEAWSKIVQKLI  176 (232)
T ss_dssp             HTT-TSEEEEEE-TTS-THHHHHHHHHHHTTS
T ss_pred             hccccceEEEeccCcC-cHHHHHHHHHHHHHc
Confidence            0111247888999988 467777777776653

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.

>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=97.19  E-value=0.0015  Score=35.84  Aligned_cols=40  Identities=23%  Similarity=0.398  Sum_probs=26.8

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANK   54 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK   54 (110)
                      +..+|+++||+|+.++.  .+....+.+.++    .++|+++|+||
T Consensus        77 ~~~~d~ii~vv~~~~~~--~~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   77 ISKSDLIIYVVDASNPI--TEDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             HCTESEEEEEEETTSHS--HHHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HHHCCEEEEEEECCCCC--CHHHHHHHHHHh----cCCCEEEEEcC
Confidence            48999999999987632  222222322232    57999999998

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 ....

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=97.16  E-value=0.0061  Score=42.41  Aligned_cols=84  Identities=19%  Similarity=0.165  Sum_probs=51.4

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-----CHHHHHhhhCCCcccCcceEEEe
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-----NAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ..||++.+++|.+++.++.-.........   .....|.++|+.|+|+.+..     +..++...++++.      ++ .
T Consensus       494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~---~~~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~------P~-~  563 (625)
T KOG1707|consen  494 AACDVACLVYDSSNPRSFEYLAEVYNKYF---DLYKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPP------PI-H  563 (625)
T ss_pred             ceeeeEEEecccCCchHHHHHHHHHHHhh---hccCCceEEEeeccccchhhhccCCChHHHHHhcCCCC------Ce-e
Confidence            57999999999998877765443332221   12579999999999996543     2233444444321      22 3


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +|.++... .++|..|....
T Consensus       564 ~S~~~~~s-~~lf~kL~~~A  582 (625)
T KOG1707|consen  564 ISSKTLSS-NELFIKLATMA  582 (625)
T ss_pred             eccCCCCC-chHHHHHHHhh
Confidence            45553223 67777766543

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=97.05  E-value=0.0017  Score=42.23  Aligned_cols=84  Identities=23%  Similarity=0.244  Sum_probs=51.9

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe----EEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV----LLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~----~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ...+|+++.|.|.+.|.-- .-..-....+..-..+..|    ++=|.||.|..+....++             +...+.
T Consensus       255 VaeadlllHvvDiShP~ae-~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~E-------------~n~~v~  320 (410)
T KOG0410|consen  255 VAEADLLLHVVDISHPNAE-EQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEEE-------------KNLDVG  320 (410)
T ss_pred             HhhcceEEEEeecCCccHH-HHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCccc-------------cCCccc
Confidence            4579999999999987532 2223333334332322233    566778888654432111             111447


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|.|.+++.+.+-..+..
T Consensus       321 isaltgdgl~el~~a~~~kv~~  342 (410)
T KOG0410|consen  321 ISALTGDGLEELLKAEETKVAS  342 (410)
T ss_pred             cccccCccHHHHHHHHHHHhhh
Confidence            8999999999999888766543

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=96.84  E-value=0.002  Score=40.85  Aligned_cols=56  Identities=34%  Similarity=0.577  Sum_probs=41.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRD----------RVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      |..|-.++.+..++|||+.+++.+          .+.++..++..+-...++....+|+..||.|+
T Consensus       216 RrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDl  281 (379)
T KOG0099|consen  216 RRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  281 (379)
T ss_pred             hhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHH
Confidence            567888999999999999876522          34455555555544555567889999999997

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=96.83  E-value=0.0094  Score=41.46  Aligned_cols=85  Identities=24%  Similarity=0.215  Sum_probs=48.7

Q ss_pred             cccCCEEEEEEECCChhhHHHHH------HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhh-----CCCcc
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEAR------DELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKL-----GLHSL   75 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~------~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~-----~~~~~   75 (110)
                      ...||++++|+|++. ..|+.-.      .+...+++.  +.-..++++.||+|+.+=.  ..+++...+     ....+
T Consensus       276 ~sqaD~avLvvd~s~-~~FE~gfd~~gQtrEha~llr~--Lgi~qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf  352 (603)
T KOG0458|consen  276 ASQADVAVLVVDAST-GEFESGFDPGGQTREHALLLRS--LGISQLIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGF  352 (603)
T ss_pred             ccccceEEEEEECCc-chhhhccCCCCchHHHHHHHHH--cCcceEEEEeecccccCccHHHHHHHHHHHHHHHHHhcCc
Confidence            356899999999974 2232111      122222222  1245699999999986422  123333322     11112


Q ss_pred             cCcceEEEeeecccCCCHHHH
Q 044598           76 RQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      ....+.+++||+.+|+|+-..
T Consensus       353 ~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  353 KESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ccCCcceEecccccCCccccc
Confidence            334568999999999997643

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=96.75  E-value=0.008  Score=38.86  Aligned_cols=86  Identities=23%  Similarity=0.241  Sum_probs=47.1

Q ss_pred             cCCEEEEEEECCCh---hhHHHHHHHHHHHhcCCCCCCC-eEEEEeeCCCCCCCCCH-----HHHHhhhCCCcccCcceE
Q 044598           11 NTQGLIFVVDSNDR---DRVVEARDELHRMLNEDELRDA-VLLVFANKQDLPNAMNA-----AEITDKLGLHSLRQRHWY   81 (110)
Q Consensus        11 ~~~~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~~   81 (110)
                      ++|++|+|+.+++-   +..+.+  ++.+.      -+. -++++.||+|+.+....     .++.+.+....+.....|
T Consensus        98 qmDgAILVVsA~dGpmPqTrEHi--Llarq------vGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~P  169 (394)
T COG0050          98 QMDGAILVVAATDGPMPQTREHI--LLARQ------VGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTP  169 (394)
T ss_pred             hcCccEEEEEcCCCCCCcchhhh--hhhhh------cCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcc
Confidence            58999999988763   222222  11111      345 47888999999764321     223333332223334567


Q ss_pred             EEeeecccCC-C-------HHHHHHHHHHHH
Q 044598           82 IQSTCATSGE-G-------LYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~-~-------i~~l~~~l~~~~  104 (110)
                      ++..||.... |       +.++++.+-.++
T Consensus       170 ii~gSal~ale~~~~~~~~i~eLm~avd~yi  200 (394)
T COG0050         170 IIRGSALKALEGDAKWEAKIEELMDAVDSYI  200 (394)
T ss_pred             eeechhhhhhcCCcchHHHHHHHHHHHHhcC
Confidence            7777875432 2       455555555544

>smart00053 DYNc Dynamin, GTPase

Probab=96.69  E-value=0.0075  Score=37.75  Aligned_cols=54  Identities=13%  Similarity=0.132  Sum_probs=33.4

Q ss_pred             chHHHhccc-CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQN-TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~-~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+...|+++ .+.+++|+|+.......+... +.+.+.   ..+.|+++|+||.|..+.
T Consensus       153 ~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~-ia~~ld---~~~~rti~ViTK~D~~~~  207 (240)
T smart00053      153 DMIKQFISKEECLILAVTPANVDLANSDALK-LAKEVD---PQGERTIGVITKLDLMDE  207 (240)
T ss_pred             HHHHHHHhCccCeEEEEEECCCCCCchhHHH-HHHHHH---HcCCcEEEEEECCCCCCc
Confidence            466788884 558999999864211112112 222221   146899999999998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=96.58  E-value=0.006  Score=43.87  Aligned_cols=51  Identities=20%  Similarity=0.140  Sum_probs=32.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      .....++.+|++++|+|+.+...... ...+.....    .+.|.++++||+|...
T Consensus       102 ~~~~al~~aD~~llVvda~~g~~~~t-~~~~~~~~~----~~~p~ivviNKiD~~~  152 (720)
T TIGR00490       102 DVTRAMRAVDGAIVVVCAVEGVMPQT-ETVLRQALK----ENVKPVLFINKVDRLI  152 (720)
T ss_pred             HHHHHHHhcCEEEEEEecCCCCCccH-HHHHHHHHH----cCCCEEEEEEChhccc
Confidence            44567899999999999875321111 122222211    3567889999999854

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.

>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=96.53  E-value=0.013  Score=34.15  Aligned_cols=49  Identities=24%  Similarity=0.365  Sum_probs=31.7

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQ   55 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~   55 (110)
                      .++..|+..+|++|+|.++...-.-.+ ...+......   ....+++|.||.
T Consensus       120 ~~~~~~~~~~d~vi~V~~~~~~~~~~~-~~~l~~~~~~---~~~~~i~V~nk~  168 (168)
T PF00350_consen  120 EITEEYLPKADVVIFVVDANQDLTESD-MEFLKQMLDP---DKSRTIFVLNKA  168 (168)
T ss_dssp             HHHHHHHSTTEEEEEEEETTSTGGGHH-HHHHHHHHTT---TCSSEEEEEE-G
T ss_pred             HHHHHhhccCCEEEEEeccCcccchHH-HHHHHHHhcC---CCCeEEEEEcCC
Confidence            467889999999999999987433222 2333333332   234489999984

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 ....

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.52  E-value=0.018  Score=39.04  Aligned_cols=47  Identities=23%  Similarity=0.342  Sum_probs=30.0

Q ss_pred             Hhcc-cCCEEEEEE-ECC--C--hhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            7 HYFQ-NTQGLIFVV-DSN--D--RDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         7 ~~~~-~~~~~i~v~-d~~--~--~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ..++ +++..|+|. |.+  +  .+.+.+.. .++.+ ++.   .++|++++.||+|-
T Consensus       139 kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e-Lk~---~~kPfiivlN~~dp  192 (492)
T TIGR02836       139 KVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE-LKE---LNKPFIILLNSTHP  192 (492)
T ss_pred             HHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH-HHh---cCCCEEEEEECcCC
Confidence            3455 899999998 764  1  11233333 33433 333   58999999999993

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.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.47  E-value=0.0016  Score=42.18  Aligned_cols=58  Identities=14%  Similarity=0.113  Sum_probs=39.7

Q ss_pred             CeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           46 AVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        46 ~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +.++++.||+|+.....    .+++.....  .....+.+++++||--+.|++.+.+.+.+.++
T Consensus       180 khiiilQNKiDli~e~~A~eq~e~I~kFi~--~t~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  180 KHIIILQNKIDLIKESQALEQHEQIQKFIQ--GTVAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             ceEEEEechhhhhhHHHHHHHHHHHHHHHh--ccccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            56899999999965321    122222111  11224558999999999999999999988764

>PTZ00416 elongation factor 2; Provisional

Probab=96.46  E-value=0.0041  Score=45.40  Aligned_cols=48  Identities=25%  Similarity=0.302  Sum_probs=32.6

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      ...++.+|++|+|+|+.+.-.. .....+..+..    .++|.+++.||+|+.
T Consensus       110 ~~al~~~D~ailVvda~~g~~~-~t~~~~~~~~~----~~~p~iv~iNK~D~~  157 (836)
T PTZ00416        110 TAALRVTDGALVVVDCVEGVCV-QTETVLRQALQ----ERIRPVLFINKVDRA  157 (836)
T ss_pred             HHHHhcCCeEEEEEECCCCcCc-cHHHHHHHHHH----cCCCEEEEEEChhhh
Confidence            4457889999999998763221 12233333322    368999999999986

>PRK09602 translation-associated GTPase; Reviewed

Probab=96.44  E-value=0.0076  Score=40.43  Aligned_cols=53  Identities=25%  Similarity=0.240  Sum_probs=34.8

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHH-HHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYE-GLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~-l~~~l~~~~  104 (110)
                      .+|+++|+||.|.....  ..+......     ....++++||+.+.++++ +.+.+.+++
T Consensus       217 ~KPvI~VlNK~D~~~~~--~~l~~i~~~-----~~~~vvpISA~~e~~l~~~l~~~i~~~l  270 (396)
T PRK09602        217 SKPMVIAANKADLPPAE--ENIERLKEE-----KYYIVVPTSAEAELALRRAAKAGLIDYI  270 (396)
T ss_pred             CCCEEEEEEchhcccch--HHHHHHHhc-----CCCcEEEEcchhhhhHHHHHHHhHHhhC
Confidence            58999999999975321  112221111     233578999999999988 666666654

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=96.34  E-value=0.04  Score=33.17  Aligned_cols=95  Identities=12%  Similarity=0.058  Sum_probs=51.0

Q ss_pred             hcccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH--------HHhhhCCCcccCc
Q 044598            8 YFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE--------ITDKLGLHSLRQR   78 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~--------~~~~~~~~~~~~~   78 (110)
                      ...+.|++|+|+|+..... -.....++.+....  ..-.++++++|+.|.......++        +......  +..+
T Consensus        80 ~~~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~--~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~--c~~r  155 (196)
T cd01852          80 SAPGPHAFLLVVPLGRFTEEEEQAVETLQELFGE--KVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEK--CGGR  155 (196)
T ss_pred             cCCCCEEEEEEEECCCcCHHHHHHHHHHHHHhCh--HhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHH--hCCe
Confidence            3568899999999876211 11222333333221  11367899999999654322111        1111100  1111


Q ss_pred             ceEEEee--ecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQST--CATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~--Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...+-..  ++..+.++.++++.+.+.+..
T Consensus       156 ~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         156 YVAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             EEEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            1111111  366788899999999888764

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).

>cd01850 CDC_Septin CDC/Septin

Probab=96.29  E-value=0.0094  Score=38.05  Aligned_cols=44  Identities=9%  Similarity=0.207  Sum_probs=27.6

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ++|+++|+++.+.. .+...+..+.+.+.    ..+|+++|+||+|+..
T Consensus       114 rvh~~ly~i~~~~~-~l~~~D~~~lk~l~----~~v~vi~VinK~D~l~  157 (276)
T cd01850         114 RVHACLYFIEPTGH-GLKPLDIEFMKRLS----KRVNIIPVIAKADTLT  157 (276)
T ss_pred             ceEEEEEEEeCCCC-CCCHHHHHHHHHHh----ccCCEEEEEECCCcCC
Confidence            57889999987742 22222222222222    2589999999999854

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.

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=96.11  E-value=0.015  Score=37.73  Aligned_cols=58  Identities=16%  Similarity=0.140  Sum_probs=37.8

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhh
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDK   69 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~   69 (110)
                      .+..+...|++|=|=|+.-|-+-  .-..+.+++     ..+|-|||.||+||.+......+.+.
T Consensus        40 i~~~l~~~D~iiEvrDaRiPLss--rn~~~~~~~-----~~k~riiVlNK~DLad~~~~k~~iq~   97 (335)
T KOG2485|consen   40 IQNRLPLVDCIIEVRDARIPLSS--RNELFQDFL-----PPKPRIIVLNKMDLADPKEQKKIIQY   97 (335)
T ss_pred             HHhhcccccEEEEeeccccCCcc--ccHHHHHhc-----CCCceEEEEecccccCchhhhHHHHH
Confidence            35567889999999998755322  112233332     36889999999999875433333333

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.10  E-value=0.072  Score=35.90  Aligned_cols=60  Identities=22%  Similarity=0.139  Sum_probs=36.0

Q ss_pred             CCeEEEEeeCCCCCCCCC----HHHHHhhhC----CCc---------------ccCc-ceEEEeeecccCCCHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMN----AAEITDKLG----LHS---------------LRQR-HWYIQSTCATSGEGLYEGLDWL  100 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~----~~~~~~~~~----~~~---------------~~~~-~~~~~~~Sa~~~~~i~~l~~~l  100 (110)
                      ..|++++.+|+|+.+...    .+++...+.    .+.               ..++ -.|++.+|+.+|+|++-+.+ +
T Consensus       255 ~lPviVvvTK~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e-~  333 (527)
T COG5258         255 ELPVIVVVTKIDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDE-F  333 (527)
T ss_pred             cCCEEEEEEecccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHH-H
Confidence            679999999999865431    122222221    000               0112 46999999999999885544 3


Q ss_pred             HHHHH
Q 044598          101 SNNIA  105 (110)
Q Consensus       101 ~~~~~  105 (110)
                      ...++
T Consensus       334 f~~Lp  338 (527)
T COG5258         334 FLLLP  338 (527)
T ss_pred             HHhCC
Confidence            33333

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=96.09  E-value=0.015  Score=42.61  Aligned_cols=48  Identities=23%  Similarity=0.214  Sum_probs=32.2

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      ...++.+|++|+|+|+.+.-.. .....+..+..    .++|++++.||+|..
T Consensus       116 ~~al~~~D~ailVvda~~Gv~~-~t~~~~~~~~~----~~~p~i~~iNK~D~~  163 (843)
T PLN00116        116 TAALRITDGALVVVDCIEGVCV-QTETVLRQALG----ERIRPVLTVNKMDRC  163 (843)
T ss_pred             HHHHhhcCEEEEEEECCCCCcc-cHHHHHHHHHH----CCCCEEEEEECCccc
Confidence            3446789999999998753221 12223333322    468999999999986

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.00  E-value=0.015  Score=41.97  Aligned_cols=49  Identities=22%  Similarity=0.251  Sum_probs=31.7

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      ....++.+|++++|+|+...... +....+.....    .+.|.+++.||+|..
T Consensus       104 ~~~~l~~~D~avlVvda~~g~~~-~t~~~~~~~~~----~~~~~iv~iNK~D~~  152 (731)
T PRK07560        104 VTRAMRAVDGAIVVVDAVEGVMP-QTETVLRQALR----ERVKPVLFINKVDRL  152 (731)
T ss_pred             HHHHHHhcCEEEEEEECCCCCCc-cHHHHHHHHHH----cCCCeEEEEECchhh
Confidence            34567889999999998753221 22223333222    246789999999975

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=95.81  E-value=0.049  Score=37.13  Aligned_cols=60  Identities=22%  Similarity=0.335  Sum_probs=37.3

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCC
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGL   72 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~   72 (110)
                      .+..+|.+++|+|+..--.. ....++. +.   .++++|++-+.||.|.....+.   .++.+.+++
T Consensus       101 tLtAvDsAvMVIDaAKGiE~-qT~KLfe-Vc---rlR~iPI~TFiNKlDR~~rdP~ELLdEiE~~L~i  163 (528)
T COG4108         101 TLTAVDSAVMVIDAAKGIEP-QTLKLFE-VC---RLRDIPIFTFINKLDREGRDPLELLDEIEEELGI  163 (528)
T ss_pred             HHHhhheeeEEEecccCccH-HHHHHHH-HH---hhcCCceEEEeeccccccCChHHHHHHHHHHhCc
Confidence            35678999999998642111 1122222 22   2378999999999998765543   344555554

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=95.70  E-value=0.0042  Score=39.63  Aligned_cols=85  Identities=13%  Similarity=0.014  Sum_probs=46.5

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------CHHHHHh-hhCCCc-ccCcceEEEee
Q 044598           14 GLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM------NAAEITD-KLGLHS-LRQRHWYIQST   85 (110)
Q Consensus        14 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------~~~~~~~-~~~~~~-~~~~~~~~~~~   85 (110)
                      .+++++|++-+-...+  .....++.+   .+.|+.+|+||||.....      +...+.. ..++.. ......+++.+
T Consensus       222 ~~FLLvd~sv~i~~~D--~~~i~~~ge---~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~  296 (320)
T KOG2486|consen  222 RVFLLVDASVPIQPTD--NPEIAWLGE---NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYV  296 (320)
T ss_pred             eeeeeeeccCCCCCCC--hHHHHHHhh---cCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceee
Confidence            3566778765422211  112233332   479999999999964321      1111111 111111 11223356689


Q ss_pred             ecccCCCHHHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~  103 (110)
                      |+.++.|++.++-.+.+.
T Consensus       297 Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  297 SSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             ecccccCceeeeeehhhh
Confidence            999999999887766543

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=95.25  E-value=0.13  Score=36.96  Aligned_cols=52  Identities=13%  Similarity=0.318  Sum_probs=34.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      ...++..++|+++||..+.+.  +... ...+...- .   ..+.++|+.||+|.....
T Consensus       225 wid~~cldaDVfVlV~NaEnt--lt~sek~Ff~~vs-~---~KpniFIlnnkwDasase  277 (749)
T KOG0448|consen  225 WIDSFCLDADVFVLVVNAENT--LTLSEKQFFHKVS-E---EKPNIFILNNKWDASASE  277 (749)
T ss_pred             HHHHHhhcCCeEEEEecCccH--hHHHHHHHHHHhh-c---cCCcEEEEechhhhhccc
Confidence            457788999999999988654  3323 33444432 2   245588999999986553

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=95.12  E-value=0.087  Score=34.96  Aligned_cols=74  Identities=23%  Similarity=0.247  Sum_probs=39.7

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-----HHHHhhhCCCcccCcceEEEee
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA-----AEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ..|++|+|+.+++-+ ..+.++.+.-..+-   .-..++++.||.|+.+....     -++.+.+....+.....|++.-
T Consensus       140 qMDGaILVVaatDG~-MPQTrEHlLLArQV---GV~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd~~PvI~G  215 (449)
T KOG0460|consen  140 QMDGAILVVAATDGP-MPQTREHLLLARQV---GVKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGDNTPVIRG  215 (449)
T ss_pred             ccCceEEEEEcCCCC-CcchHHHHHHHHHc---CCceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCCCCCeeec
Confidence            579999999988732 22233322211111   22558999999998744321     1122322222233445677777


Q ss_pred             ecc
Q 044598           86 CAT   88 (110)
Q Consensus        86 Sa~   88 (110)
                      ||+
T Consensus       216 SAL  218 (449)
T KOG0460|consen  216 SAL  218 (449)
T ss_pred             chh
Confidence            764

>COG3596 Predicted GTPase [General function prediction only]

Probab=94.96  E-value=0.067  Score=34.28  Aligned_cols=102  Identities=19%  Similarity=0.204  Sum_probs=61.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC---------CHHHHHhhh--
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM---------NAAEITDKL--   70 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~---------~~~~~~~~~--   70 (110)
                      |.....++.+.|.+++++|+.++. +.....++..+...  ..+.+++++.|.+|.....         +...+.+..  
T Consensus       108 r~~~~d~l~~~DLvL~l~~~~dra-L~~d~~f~~dVi~~--~~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~  184 (296)
T COG3596         108 RQLYRDYLPKLDLVLWLIKADDRA-LGTDEDFLRDVIIL--GLDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEE  184 (296)
T ss_pred             HHHHHHHhhhccEEEEeccCCCcc-ccCCHHHHHHHHHh--ccCceeEEEEehhhhhccccccccccCCCCHHHHHHHHH
Confidence            345677889999999999998753 22112333443322  1348999999999974321         111111110  


Q ss_pred             --C-CCcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           71 --G-LHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        71 --~-~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                        . ....-..-.+++.+|+..+-|++.+...+.+.++.
T Consensus       185 k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         185 KAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             HHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence              0 00001122367777889999999999999988764

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

Probab=94.95  E-value=0.095  Score=32.90  Aligned_cols=48  Identities=23%  Similarity=0.276  Sum_probs=31.9

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCC-CeEEEEeeCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRD-AVLLVFANKQDLP   58 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~-~~~iiv~nK~Dl~   58 (110)
                      +...+++|.+|.|+|++- .++..+. .+.++..+   .+ +++.+|.||.|-.
T Consensus       150 Rg~~~~vD~vivVvDpS~-~sl~tae-ri~~L~~e---lg~k~i~~V~NKv~e~  198 (255)
T COG3640         150 RGTIEGVDLVIVVVDPSY-KSLRTAE-RIKELAEE---LGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cccccCCCEEEEEeCCcH-HHHHHHH-HHHHHHHH---hCCceEEEEEeeccch
Confidence            345678999999999873 3444332 23333222   34 8999999999953

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=94.75  E-value=0.2  Score=32.95  Aligned_cols=68  Identities=19%  Similarity=0.180  Sum_probs=37.0

Q ss_pred             cCCEEEEEEECCChhhHHH-HHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598           11 NTQGLIFVVDSNDRDRVVE-ARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .-|.++-|+|+..-..... ......+.+...+      +++.||+|+.++...+.+...+.   ..+...+++.+|.
T Consensus       116 ~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~AD------~ivlNK~Dlv~~~~l~~l~~~l~---~lnp~A~i~~~~~  184 (323)
T COG0523         116 RLDGVVTVVDAAHFLEGLDAIAELAEDQLAFAD------VIVLNKTDLVDAEELEALEARLR---KLNPRARIIETSY  184 (323)
T ss_pred             eeceEEEEEeHHHhhhhHHHHHHHHHHHHHhCc------EEEEecccCCCHHHHHHHHHHHH---HhCCCCeEEEccc
Confidence            3577999999875433221 2233444443322      88999999976543333333221   1234446666665

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

Probab=94.60  E-value=0.52  Score=31.50  Aligned_cols=70  Identities=14%  Similarity=0.306  Sum_probs=48.9

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS   74 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~   74 (110)
                      ++...++..+|.+++|++.+ -.++...++.+..+.+. .....+..+++||.+.....+..++...++++.
T Consensus       231 ~~t~~vL~~Sd~iviv~e~s-l~slR~ak~lld~l~~~-r~~~~~p~lv~n~~~~~~~~~~~dl~~~~~i~~  300 (366)
T COG4963         231 DWTRQVLSGSDEIVIVAEPS-LASLRNAKELLDELKRL-RPNDPKPILVLNRVGVPKRPEPSDLEEILGIES  300 (366)
T ss_pred             hHHHHHHhcCCeEEEEeccc-HHHHHHHHHHHHHHHHh-CCCCCCceEEeeecCCCCCCCHHHHHHHhCCch
Confidence            35678899999999999976 34666666666655433 334678899999999866655556666555543

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.31  E-value=0.12  Score=34.83  Aligned_cols=51  Identities=16%  Similarity=0.261  Sum_probs=32.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      .+=|.++||.+|+++|+...+--.+...-+..+ +.   ..-.+-+|.||.|..+
T Consensus       175 ~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL-kG---~EdkiRVVLNKADqVd  225 (532)
T KOG1954|consen  175 LEWFAERVDRIILLFDAHKLDISDEFKRVIDAL-KG---HEDKIRVVLNKADQVD  225 (532)
T ss_pred             HHHHHHhccEEEEEechhhccccHHHHHHHHHh-hC---CcceeEEEeccccccC
Confidence            344678999999999975432222222333333 22   3456889999999754

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=94.23  E-value=0.073  Score=37.36  Aligned_cols=95  Identities=15%  Similarity=0.250  Sum_probs=59.3

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----CCHHHHHhhhCCCcccCcceEE
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----MNAAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~   82 (110)
                      .|..-.|++|||+...+..++.........+.........|+++++++.-....    ..........    ........
T Consensus        91 Qft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~----~~~krcsy  166 (749)
T KOG0705|consen   91 QFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLS----AQMKRCSY  166 (749)
T ss_pred             hhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHH----HhcCccce
Confidence            466678999999988887777766544444432222246788888877433221    1111111111    12234567


Q ss_pred             EeeecccCCCHHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++|..|.+++.+|+.+...+.
T Consensus       167 ~et~atyGlnv~rvf~~~~~k~i  189 (749)
T KOG0705|consen  167 YETCATYGLNVERVFQEVAQKIV  189 (749)
T ss_pred             eecchhhhhhHHHHHHHHHHHHH
Confidence            79999999999999998876653

>cd03112 CobW_like The function of this protein family is unkown

Probab=94.07  E-value=0.1  Score=30.45  Aligned_cols=42  Identities=21%  Similarity=0.305  Sum_probs=22.4

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      -..+.+++++|+............+.+.++..      =+++.||+|+
T Consensus       117 ~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a------d~ivlnk~dl  158 (158)
T cd03112         117 YLLDGVITLVDAKHANQHLDQQTEAQSQIAFA------DRILLNKTDL  158 (158)
T ss_pred             eeeccEEEEEEhhHhHHHhhccHHHHHHHHHC------CEEEEecccC
Confidence            35788899999764322111112222223222      2678899985

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.

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=94.07  E-value=0.089  Score=34.73  Aligned_cols=59  Identities=12%  Similarity=0.042  Sum_probs=37.4

Q ss_pred             CCeEEEEeeCCCCCC----CCC--HHH---HHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPN----AMN--AAE---ITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~----~~~--~~~---~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++|+++|++|||...    ...  .+.   +...++ ..+...+...+++|++...|++-+...|.+.+
T Consensus       222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lR-kFCLr~GaaLiyTSvKE~KNidllyKYivhr~  289 (473)
T KOG3905|consen  222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLR-KFCLRYGAALIYTSVKETKNIDLLYKYIVHRS  289 (473)
T ss_pred             CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHH-HHHHHcCceeEEeecccccchHHHHHHHHHHh
Confidence            469999999999722    111  111   111110 00234566788999999999998888877654

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=94.02  E-value=0.27  Score=35.65  Aligned_cols=50  Identities=18%  Similarity=0.201  Sum_probs=32.6

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ...++-+|+++.|+|+.+--. .+....|.....    .++|.+++.||+|....
T Consensus        94 ~rslrvlDgavvVvdaveGV~-~QTEtv~rqa~~----~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          94 ERSLRVLDGAVVVVDAVEGVE-PQTETVWRQADK----YGVPRILFVNKMDRLGA  143 (697)
T ss_pred             HHHHHhhcceEEEEECCCCee-ecHHHHHHHHhh----cCCCeEEEEECcccccc
Confidence            345778999999999875211 111222333221    47999999999998654

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=93.55  E-value=0.11  Score=37.39  Aligned_cols=46  Identities=17%  Similarity=0.270  Sum_probs=31.1

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ..++-+|++++++|+.+--.++. ...+....+    .+.|+++|.||.|.
T Consensus       216 a~l~~sDgvVlvvDv~EGVmlnt-Er~ikhaiq----~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  216 ASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAIQ----NRLPIVVVINKVDR  261 (971)
T ss_pred             HHhhhcceEEEEEEcccCceeeH-HHHHHHHHh----ccCcEEEEEehhHH
Confidence            34778999999999875322222 223333332    36899999999995

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=93.32  E-value=0.94  Score=28.94  Aligned_cols=49  Identities=20%  Similarity=0.193  Sum_probs=29.0

Q ss_pred             cCCEEEEEEECCCh-----h--hHH----HHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598           11 NTQGLIFVVDSNDR-----D--RVV----EARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus        11 ~~~~~i~v~d~~~~-----~--~~~----~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      -.+++|+++|+.+-     .  .+.    .....+.++...- ....|+.+|+||+|+...
T Consensus        25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~l-g~~~PVYvv~Tk~D~l~G   84 (266)
T PF14331_consen   25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTL-GVRLPVYVVFTKCDLLPG   84 (266)
T ss_pred             CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHh-CCCCCeEeeeECCCcccC
Confidence            36899999986531     1  111    1122333332221 147999999999998654

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=92.87  E-value=1  Score=30.65  Aligned_cols=55  Identities=22%  Similarity=0.213  Sum_probs=33.4

Q ss_pred             CCCeEEEEeeCCCCCCCCCHH----HHHhhh---CCC------------------cccCcceEEEeeecccCCCHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAA----EITDKL---GLH------------------SLRQRHWYIQSTCATSGEGLYEGLD   98 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~----~~~~~~---~~~------------------~~~~~~~~~~~~Sa~~~~~i~~l~~   98 (110)
                      -+.|++++.+|+|+......+    ++...+   +..                  .....-.|++.+|+.+|+|++-+..
T Consensus       302 L~iPfFvlvtK~Dl~~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~  381 (591)
T KOG1143|consen  302 LNIPFFVLVTKMDLVDRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRT  381 (591)
T ss_pred             hCCCeEEEEEeeccccchhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHH
Confidence            379999999999996543211    111111   100                  0112346899999999999875443

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=92.26  E-value=3  Score=29.95  Aligned_cols=55  Identities=15%  Similarity=0.286  Sum_probs=37.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ++..+|.++-+++|+|+.-...   ...+....+++..-+..+...|+|.+|.|+.+.
T Consensus       440 ~msKayM~NPNAIILCIQDGSV---DAERSnVTDLVsq~DP~GrRTIfVLTKVDlAEk  494 (980)
T KOG0447|consen  440 SISKAYMQNPNAIILCIQDGSV---DAERSIVTDLVSQMDPHGRRTIFVLTKVDLAEK  494 (980)
T ss_pred             HHHHHHhcCCCeEEEEeccCCc---chhhhhHHHHHHhcCCCCCeeEEEEeecchhhh
Confidence            5778999999999999953322   111223334444434457889999999999654

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

Probab=91.98  E-value=1.3  Score=28.62  Aligned_cols=48  Identities=8%  Similarity=0.107  Sum_probs=33.2

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+.+||.+|+|.-++ +-.+++.+. +.++.++   .+.|..+|.||.+.-.+
T Consensus       182 sl~~aD~ai~VTEPT-p~glhD~kr-~~el~~~---f~ip~~iViNr~~~g~s  229 (284)
T COG1149         182 SLKGADLAILVTEPT-PFGLHDLKR-ALELVEH---FGIPTGIVINRYNLGDS  229 (284)
T ss_pred             hhccCCEEEEEecCC-ccchhHHHH-HHHHHHH---hCCceEEEEecCCCCch
Confidence            578999999999876 444555543 3333333   57999999999965433

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=91.93  E-value=0.26  Score=31.25  Aligned_cols=28  Identities=21%  Similarity=0.077  Sum_probs=24.6

Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...+++..||+++.|++.+++.+.+.++
T Consensus       239 ~~~pv~~gSa~~~~G~~~ll~~~~~~~p  266 (268)
T cd04170         239 LLVPVLCGSALTNIGVRELLDALVHLLP  266 (268)
T ss_pred             CEEEEEEeeCCCCcCHHHHHHHHHHhCC
Confidence            3468999999999999999999988765

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

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=91.43  E-value=0.36  Score=33.41  Aligned_cols=59  Identities=12%  Similarity=0.027  Sum_probs=37.7

Q ss_pred             CCeEEEEeeCCCCCC----CC--CHH---HHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPN----AM--NAA---EITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~----~~--~~~---~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++|++||++|+|...    ..  ..+   .+.+.++. .+...+...+++|++...+++-+...|.+.+
T Consensus       196 Gipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~-~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l  263 (472)
T PF05783_consen  196 GIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRT-FCLKYGASLIYTSVKEEKNLDLLYKYILHRL  263 (472)
T ss_pred             CcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHH-HHHhcCCeEEEeeccccccHHHHHHHHHHHh
Confidence            469999999999622    11  111   11111110 0134566788999999999998888877665

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 [].

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=91.28  E-value=1.2  Score=29.96  Aligned_cols=92  Identities=12%  Similarity=0.117  Sum_probs=43.9

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC-------CC--CCCHHH----HHhhh--CCC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL-------PN--AMNAAE----ITDKL--GLH   73 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl-------~~--~~~~~~----~~~~~--~~~   73 (110)
                      +...|.+|++.+.    .+.....++....+.   .++|+.+|.+|+|.       ..  ....++    +.+.+  .+.
T Consensus       112 ~~~yD~fiii~s~----rf~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~  184 (376)
T PF05049_consen  112 FYRYDFFIIISSE----RFTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQ  184 (376)
T ss_dssp             GGG-SEEEEEESS----S--HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHH
T ss_pred             ccccCEEEEEeCC----CCchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHH
Confidence            4567887776653    244444455444433   58999999999995       11  112222    22111  010


Q ss_pred             cccCcceEEEeeeccc--CCCHHHHHHHHHHHHHhh
Q 044598           74 SLRQRHWYIQSTCATS--GEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~--~~~i~~l~~~l~~~~~~~  107 (110)
                      ...-...++|-+|+.+  ..++..+.+.|.+.++.+
T Consensus       185 k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  185 KAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             CTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GG
T ss_pred             HcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHH
Confidence            0111234678888764  346788888888777654

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.

>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=90.37  E-value=0.49  Score=28.13  Aligned_cols=44  Identities=23%  Similarity=0.323  Sum_probs=26.2

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ..+.++.|+|+............+.+.++..+      +++.||+|+.+.
T Consensus       113 ~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~AD------vIvlnK~D~~~~  156 (178)
T PF02492_consen  113 RLDSIITVVDATNFDELENIPELLREQIAFAD------VIVLNKIDLVSD  156 (178)
T ss_dssp             SESEEEEEEEGTTHGGHTTHCHHHHHHHCT-S------EEEEE-GGGHHH
T ss_pred             cccceeEEeccccccccccchhhhhhcchhcC------EEEEeccccCCh
Confidence            35789999999664333333334444444432      889999998543

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.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=90.17  E-value=2  Score=25.36  Aligned_cols=49  Identities=12%  Similarity=0.152  Sum_probs=31.8

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ...+..||.+++++.++. .+.......+..+ +.   .+.|+.+|.||+|...
T Consensus       109 ~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l-~~---~~~~~~vV~N~~~~~~  157 (179)
T cd03110         109 IASLTGADAALLVTEPTP-SGLHDLERAVELV-RH---FGIPVGVVINKYDLND  157 (179)
T ss_pred             HHHHHcCCEEEEEecCCc-ccHHHHHHHHHHH-HH---cCCCEEEEEeCCCCCc
Confidence            345688999999998763 3444444433332 22   2467889999999643

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

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=89.75  E-value=2.4  Score=26.99  Aligned_cols=53  Identities=26%  Similarity=0.406  Sum_probs=34.2

Q ss_pred             HHhcccCCEEEEEEECCChhhHHH---HHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVE---ARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~---~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+.+++.+++|+|+|+...+-..+   ...-++.++++  .+...+++...|.|+...
T Consensus        76 d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~--SP~AkiF~l~hKmDLv~~  131 (295)
T KOG3886|consen   76 DNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN--SPEAKIFCLLHKMDLVQE  131 (295)
T ss_pred             hhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc--CCcceEEEEEeechhccc
Confidence            456778999999999875432222   22223334433  256778999999998543

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=89.57  E-value=0.55  Score=30.02  Aligned_cols=28  Identities=14%  Similarity=0.108  Sum_probs=24.7

Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .-+|++..||.++.|+..+++.+...++
T Consensus       241 ~~~PV~~gSa~~~~Gi~~lld~i~~~~p  268 (270)
T cd01886         241 KIVPVLCGSAFKNKGVQPLLDAVVDYLP  268 (270)
T ss_pred             cEEEEEeCcCCCCcCHHHHHHHHHHhcC
Confidence            4469999999999999999999988765

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

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

Probab=87.22  E-value=3.8  Score=23.25  Aligned_cols=50  Identities=16%  Similarity=0.284  Sum_probs=31.1

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ....+..||.++++++.+. .+.......+..+...  ....++.++.|+++.
T Consensus        60 ~~~~l~~aD~vviv~~~~~-~s~~~~~~~l~~l~~~--~~~~~~~lVvN~~~~  109 (139)
T cd02038          60 VLDFFLAADEVIVVTTPEP-TSITDAYALIKKLAKQ--LRVLNFRVVVNRAES  109 (139)
T ss_pred             HHHHHHhCCeEEEEcCCCh-hHHHHHHHHHHHHHHh--cCCCCEEEEEeCCCC
Confidence            3456889999999998863 3444333333333221  134567899999874

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.

>cd04169 RF3 RF3 subfamily

Probab=86.56  E-value=0.94  Score=28.92  Aligned_cols=29  Identities=21%  Similarity=-0.003  Sum_probs=25.2

Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .-+|++..||.++.|+..+++.+.+.++.
T Consensus       238 ~~~Pv~~gsa~~~~Gv~~Lld~i~~~~P~  266 (267)
T cd04169         238 ELTPVFFGSALNNFGVQELLDALVDLAPA  266 (267)
T ss_pred             CEEEEEecccccCcCHHHHHHHHHHHCCC
Confidence            34699999999999999999999987753

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.

>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=84.68  E-value=4.4  Score=21.56  Aligned_cols=21  Identities=10%  Similarity=0.104  Sum_probs=15.2

Q ss_pred             HHHhcccCCEEEEEEECCChh
Q 044598            5 WRHYFQNTQGLIFVVDSNDRD   25 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~   25 (110)
                      ++.-+.+||++|++.|..+..
T Consensus        42 l~~~i~~aD~VIv~t~~vsH~   62 (97)
T PF10087_consen   42 LPSKIKKADLVIVFTDYVSHN   62 (97)
T ss_pred             HHHhcCCCCEEEEEeCCcChH
Confidence            456677888888888876543

>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2

Probab=84.41  E-value=4.9  Score=21.93  Aligned_cols=45  Identities=9%  Similarity=0.025  Sum_probs=27.1

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ..+++||++|.++|...+.+-....  +--...    .++|++++.+....
T Consensus        57 ~~i~~~D~via~l~~~~~d~Gt~~E--lG~A~a----lgkpv~~~~~d~~~  101 (113)
T PF05014_consen   57 EGIRECDIVIANLDGFRPDSGTAFE--LGYAYA----LGKPVILLTEDDRP  101 (113)
T ss_dssp             HHHHHSSEEEEEECSSS--HHHHHH--HHHHHH----TTSEEEEEECCCCT
T ss_pred             HHHHHCCEEEEECCCCCCCCcHHHH--HHHHHH----CCCEEEEEEcCCcc
Confidence            3467899999999985443322221  111111    47899999877653

4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=84.07  E-value=3.3  Score=27.54  Aligned_cols=21  Identities=38%  Similarity=0.479  Sum_probs=13.6

Q ss_pred             EEEeeCCCCCCCCCHHHHHhh
Q 044598           49 LVFANKQDLPNAMNAAEITDK   69 (110)
Q Consensus        49 iiv~nK~Dl~~~~~~~~~~~~   69 (110)
                      +|++||+|+.+....+.+...
T Consensus       177 ~IvlnK~Dl~~~~~l~~~~~~  197 (341)
T TIGR02475       177 LVILNKADLLDAAGLARVRAE  197 (341)
T ss_pred             EEEEeccccCCHHHHHHHHHH
Confidence            889999998655433333333

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=83.71  E-value=2.8  Score=28.28  Aligned_cols=41  Identities=12%  Similarity=0.018  Sum_probs=24.6

Q ss_pred             CCCeEEEEeeCCCCCCCCC---HHHHHhhhCCCcccCcceEEEeeeccc
Q 044598           44 RDAVLLVFANKQDLPNAMN---AAEITDKLGLHSLRQRHWYIQSTCATS   89 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~   89 (110)
                      ..+|+++++||.|......   ...+.+..     .....+++++||.-
T Consensus       205 t~KP~lyvaN~~e~~~~~~n~~~~~i~~~~-----~~~~~~vV~~sA~~  248 (372)
T COG0012         205 TAKPMLYVANVSEDDLANLNEYVKRLKELA-----AKENAEVVPVSAAI  248 (372)
T ss_pred             hcCCeEEEEECCcccccchhHHHHHHHHHh-----hhcCCcEEEeeHHH
Confidence            3689999999999765432   22222221     12234677888753

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=83.57  E-value=0.39  Score=32.67  Aligned_cols=53  Identities=19%  Similarity=0.188  Sum_probs=31.7

Q ss_pred             CCeEEEEeeCCCCCCCCCH----HHHHhh----hCCCccc-CcceEEEeeecccCCCHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNA----AEITDK----LGLHSLR-QRHWYIQSTCATSGEGLYEGL   97 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~----~~~~~~----~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~   97 (110)
                      -.-.+++.||+|.+.....    .+..+.    +....++ .....++++|..+|.++.+..
T Consensus       217 v~~lVv~vNKMddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  217 VKHLIVLINKMDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             cceEEEEEEeccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            3568999999998665421    122221    1111111 234568899999999987654

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=83.31  E-value=3.6  Score=26.73  Aligned_cols=51  Identities=14%  Similarity=-0.053  Sum_probs=33.8

Q ss_pred             CCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..+|.+.+.||+|-..   .+++.-.       .+....+++||.++=|++++++-+.+.+
T Consensus       230 ~yVp~iyvLNkIdsIS---iEELdii-------~~iphavpISA~~~wn~d~lL~~mweyL  280 (358)
T KOG1487|consen  230 IYVPCIYVLNKIDSIS---IEELDII-------YTIPHAVPISAHTGWNFDKLLEKMWEYL  280 (358)
T ss_pred             eeeeeeeeecccceee---eecccee-------eeccceeecccccccchHHHHHHHhhcc
Confidence            3589999999999532   2221111       1112345789999999999988887765

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=83.31  E-value=9.2  Score=29.91  Aligned_cols=49  Identities=16%  Similarity=0.186  Sum_probs=30.1

Q ss_pred             cCCEEEEEEECCCh-----hhH----HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598           11 NTQGLIFVVDSNDR-----DRV----VEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus        11 ~~~~~i~v~d~~~~-----~~~----~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      -.+++|+++|..+-     ...    ......+.++...-. ...|+.+++||+|+...
T Consensus       201 plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg-~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       201 PLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLG-ARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             CCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecchhhcC
Confidence            48999999997542     111    122233333332212 47999999999998644

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>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=81.94  E-value=6.2  Score=21.29  Aligned_cols=47  Identities=11%  Similarity=0.123  Sum_probs=26.3

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCC-CCeEEEEeeC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-DAVLLVFANK   54 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~nK   54 (110)
                      ...+..||.++++++++. .+.......+..+.+. ... ...+.+|+|+
T Consensus        59 ~~~l~~aD~vlvvv~~~~-~s~~~~~~~~~~l~~~-~~~~~~~~~lVvNr  106 (106)
T cd03111          59 LAALDQADRVFLVTQQDL-PSIRNAKRLLELLRVL-DYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHcCeEEEEecCCh-HHHHHHHHHHHHHHHc-CCCCcCceEEEecC
Confidence            446778899999988763 3444444433333222 212 3456677765

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.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=81.42  E-value=12  Score=25.84  Aligned_cols=57  Identities=19%  Similarity=0.056  Sum_probs=34.0

Q ss_pred             CCCeEEEEeeCCCCCCCCCHHH-HHhh---hCCCc---------------------ccCcceEEEeeecccCCCHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAAE-ITDK---LGLHS---------------------LRQRHWYIQSTCATSGEGLYEGLD   98 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~~-~~~~---~~~~~---------------------~~~~~~~~~~~Sa~~~~~i~~l~~   98 (110)
                      .+.|+++|.+|+|+..+.-.++ ++..   +.-+.                     ...+-+++|.+|-.+|.|++-+..
T Consensus       272 L~VPVfvVVTKIDMCPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkm  351 (641)
T KOG0463|consen  272 LHVPVFVVVTKIDMCPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKM  351 (641)
T ss_pred             hcCcEEEEEEeeccCcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHH
Confidence            3689999999999865432222 1111   11000                     011346899999999999885544


Q ss_pred             HH
Q 044598           99 WL  100 (110)
Q Consensus        99 ~l  100 (110)
                      .+
T Consensus       352 FL  353 (641)
T KOG0463|consen  352 FL  353 (641)
T ss_pred             HH
Confidence            43

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=81.23  E-value=10  Score=27.10  Aligned_cols=57  Identities=18%  Similarity=0.066  Sum_probs=34.9

Q ss_pred             CCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE--eeecccCCCHHHHHHHHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ--STCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~--~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+.|++++.||.|.......+.+.+.+.     ..++++.  ..=++-|+|-.++-+.+.+.+.
T Consensus       371 FGvPvVVAINKFd~DTe~Ei~~I~~~c~-----e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        371 FGVPVVVAINKFVTDTDAEIAALKELCE-----ELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             cCCCEEEEEeCCCCCCHHHHHHHHHHHH-----HcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            5899999999999754322333334331     2223333  3346777887777777776655

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=81.06  E-value=9.8  Score=24.72  Aligned_cols=50  Identities=14%  Similarity=-0.023  Sum_probs=34.5

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..+.+.|.||+|..   +.+++...-+.      + ..+.+|+.-+.|++.+++.+.+.+
T Consensus       238 Y~~ClYvYnKID~v---s~eevdrlAr~------P-nsvViSC~m~lnld~lle~iWe~l  287 (364)
T KOG1486|consen  238 YIKCLYVYNKIDQV---SIEEVDRLARQ------P-NSVVISCNMKLNLDRLLERIWEEL  287 (364)
T ss_pred             EEEEEEEeecccee---cHHHHHHHhcC------C-CcEEEEeccccCHHHHHHHHHHHh
Confidence            36889999999953   44444332221      2 233678989999999999988876

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=80.47  E-value=4  Score=30.28  Aligned_cols=46  Identities=15%  Similarity=0.112  Sum_probs=28.5

Q ss_pred             hHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ...+..+-||+++.++|..+   .++..-.+.-        +..+...++|.||+|.
T Consensus        88 evssas~l~d~alvlvdvvegv~~qt~~vlrq~--------~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   88 EVSSASRLSDGALVLVDVVEGVCSQTYAVLRQA--------WIEGLKPILVINKIDR  136 (887)
T ss_pred             hhhhhhhhcCCcEEEEeeccccchhHHHHHHHH--------HHccCceEEEEehhhh
Confidence            34455667899999999864   2222222211        1134567999999993

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	110
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		8e-60
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		3e-52
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		3e-52
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		4e-52
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		4e-52
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		6e-52
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		2e-46
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		6e-46
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		1e-45
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		3e-45
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		4e-45
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		1e-44
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		1e-43
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		2e-43
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		6e-41
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		2e-40
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		3e-40
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		3e-40
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		3e-40
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		3e-40
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		3e-40
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		4e-40
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		6e-39
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		2e-29
2x77_A	189	Crystal Structure Of Leishmania Major Adp Ribosylat		2e-28
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		2e-27
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		3e-27
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		1e-26
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		2e-25
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		3e-25
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		3e-25
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		3e-25
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		4e-25
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		4e-25
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		4e-25
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		4e-25
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		6e-25
4goj_A	189	The Crystal Structure Of Full Length Arl3gppnhp In		2e-21
1fzq_A	181	Crystal Structure Of Murine Arl3-Gdp Length = 181		2e-21
3bh7_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		3e-21
3bh6_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		3e-21
1upt_A	171	Structure Of A Complex Of The Golgin-245 Grip Domai		9e-21
2h57_A	190	Crystal Structure Of Human Adp-Ribosylation Factor-		3e-20
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		5e-13
4bas_A	199	Structure Of The Arl6 Bbs3 Small Gtpase From Trypan		5e-13
1m2o_B	190	Crystal Structure Of The Sec23-Sar1 Complex Length		1e-12
2qtv_B	167	Structure Of Sec23-Sar1 Complexed With The Active F		1e-12
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		4e-12
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		6e-12
2fmx_A	195	An Open Conformation Of Switch I Revealed By Sar1-g		5e-09
2fa9_A	189	The Crystal Structure Of Sar1[h79g]-gdp Provides In		5e-09
1f6b_A	198	Crystal Structure Of Sar1-Gdp Complex Length = 198		6e-09
2gao_A	208	Crystal Structure Of Human Sar1a In Complex With Gd		2e-08

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score =  224 bits (572), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 106/107 (99%), Positives = 107/107 (100%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
Sbjct: 77  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 136
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA+K
Sbjct: 137 MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIASK 183

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score =  199 bits (507), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 134 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 180

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score =  199 bits (506), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 73  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 133 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 179

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score =  199 bits (505), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 59  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 118
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 119 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 165

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score =  199 bits (505), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score =  198 bits (504), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 222 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 281
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 282 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 328

>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 =  180 bits (457), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 81/107 (75%), Positives = 97/107 (90%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IR LWRHY++NT+G+IFV+DSNDR R+ EAR+ + RMLNEDELR+AV LVFANKQDLP A
Sbjct: 74  IRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPEA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M+AAEIT+KLGLHS+R R W+IQSTCATSGEGLYEGL+WLSNN+ N+
Sbjct: 134 MSAAEITEKLGLHSIRNRPWFIQSTCATSGEGLYEGLEWLSNNLKNQ 180

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score =  178 bits (452), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 80/107 (74%), Positives = 93/107 (86%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV E+ DEL +ML EDELRDAVLLVFANKQD+PNA
Sbjct: 86  IRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA 145
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M  +E+TDKLGL  LR R WY+Q+TCAT G GLY+GLDWLS+ ++ +
Sbjct: 146 MPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSKR 192

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score =  177 bits (450), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 80/107 (74%), Positives = 92/107 (85%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLW+HYFQNTQGLIFVVDSNDR+R+ E  DEL +ML  DELRDAVLL+FANKQDLPNA
Sbjct: 74  IRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKMLLVDELRDAVLLLFANKQDLPNA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M  +E+TDKLGL SLR R WY+Q+TCAT G GLYEGLDWLSN ++ +
Sbjct: 134 MAISEMTDKLGLQSLRNRTWYVQATCATQGTGLYEGLDWLSNELSKR 180

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score =  176 bits (446), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 79/108 (73%), Positives = 95/108 (87%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IR LWRHY++NT+G+IFVVDSNDR R+ EAR+ + RMLNEDELR+A  LVFANKQDLP A
Sbjct: 74  IRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPEA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           M+AAEIT+KLGLHS+R R W+IQ+TCATSGEGLYEGL+WLSN++ N  
Sbjct: 134 MSAAEITEKLGLHSIRNRPWFIQATCATSGEGLYEGLEWLSNSLKNST 181

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score =  176 bits (445), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 79/108 (73%), Positives = 95/108 (87%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IR LWRHY++NT+G+IFVVDSNDR R+ EAR+ + RMLNEDELR+A  LVFANKQDLP A
Sbjct: 57  IRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPEA 116
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           M+AAEIT+KLGLHS+R R W+IQ+TCATSGEGLYEGL+WLSN++ N  
Sbjct: 117 MSAAEITEKLGLHSIRNRPWFIQATCATSGEGLYEGLEWLSNSLKNST 164

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score =  174 bits (441), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 75/106 (70%), Positives = 98/106 (92%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+ NT GLIFVVDSNDR+R+ +AR+ELHRM+NE+EL+DA++LVFANKQDLPNA
Sbjct: 74  IRPLWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDLPNA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN 106
           M+AAE+T+KL L+++R+R+W+IQSTCAT G+GLYEG DWL+ ++ N
Sbjct: 134 MSAAEVTEKLHLNTIRERNWFIQSTCATRGDGLYEGFDWLTTHLNN 179

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score =  171 bits (432), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 78/108 (72%), Positives = 92/108 (85%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IR LWRHY+ NT+G+IFVVDSNDR R+ EAR+ + RMLNEDEL +A  LVFANKQDLP A
Sbjct: 74  IRSLWRHYYCNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELCNAAWLVFANKQDLPEA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           M+AAEIT+KLGLHS+R R W+IQ+TCATSGEGLYEGL+WLSN + N  
Sbjct: 134 MSAAEITEKLGLHSIRNRPWFIQATCATSGEGLYEGLEWLSNCLKNST 181

>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 =  170 bits (431), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 72/104 (69%), Positives = 94/104 (90%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+QNTQ +IFVVDSNDRDR+ EAR+EL +MLNEDE+R+A+LLVFANK DLP A
Sbjct: 74  IRPLWRHYYQNTQAIIFVVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           M+ +E+T+KLGL +++ R WY Q++CAT+G+GLYEGLDWL++N+
Sbjct: 134 MSISEVTEKLGLQTIKNRKWYCQTSCATNGDGLYEGLDWLADNL 177

>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 =  162 bits (409), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 70/109 (64%), Positives = 90/109 (82%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 379 IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 438
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVG 109
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N  +K+ 
Sbjct: 439 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYKSKLA 487

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score =  160 bits (404), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 70  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 129
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 130 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 172

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 69  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 128
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 129 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 171

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 70  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 129
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 130 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 172

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 59  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 118
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 119 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 161

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 60  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 119
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 120 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 162

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 57  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 116
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 117 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 159

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score =  159 bits (402), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+A
Sbjct: 57  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA 116
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           M   EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 117 MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 159

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score =  155 bits (392), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 68/103 (66%), Positives = 85/103 (82%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E RDA++L+FANKQDLP+A
Sbjct: 57  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLPDA 116
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
               EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N
Sbjct: 117 XKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 159

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score =  124 bits (310), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 57/104 (54%), Positives = 75/104 (72%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ +T  +IFVVDS D+DR+  A  ELH ML E+EL+DA LLVFANKQD P A
Sbjct: 75  IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA 134
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           ++A+E++ +L L  L+ R W I ++ A  GEG+ EGLDWL + I
Sbjct: 135 LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 178

>pdb|2X77|A Chain A, Crystal Structure Of Leishmania Major Adp Ribosylation Factor-Like 1. Length = 189

Iteration: 1
 Score =  120 bits (301), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 53/100 (53%), Positives = 76/100 (76%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RP WR YF +T  +I+VVDS DRDR+  A+ EL+ +L+EDELR ++LL+FANKQDLP+A
Sbjct: 79  VRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA 138
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
            + AEI ++LG+ S+  R W I  + + +G+GL EG+DWL
Sbjct: 139 ASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWL 178

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score =  117 bits (292), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 53/106 (50%), Positives = 73/106 (68%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ NT  +I+VVDS DRDR+  ++ EL  ML E+ELR A+L+VFANKQD+  A
Sbjct: 61  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 120
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN 106
           M ++E+ + LGL +L+ R W I  T AT G GL E ++WL   + +
Sbjct: 121 MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS 166

>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 =  116 bits (291), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 53/107 (49%), Positives = 73/107 (68%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ NT  +I+VVDS DRDR+  ++ EL  ML E+ELR A+L+VFANKQD+  A
Sbjct: 59  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 118
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M  +E+ + LGL +L+ R W I  T AT G GL E ++WL   + ++
Sbjct: 119 MTPSEMANALGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 165

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score =  114 bits (286), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 50/105 (47%), Positives = 74/105 (70%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   ++EL+RML  ++LR A +L+FANKQD+   
Sbjct: 73  LRSSWNTYYSNTEFIILVVDSIDRERLAITKEELYRMLAHEDLRKAAVLIFANKQDMKGC 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA 105
           M AAEI+  L L S++   W+IQS CA +GEGL +GL+W+++ I 
Sbjct: 133 MTAAEISKYLTLSSIKDHPWHIQSCCALTGEGLCQGLEWMTSRIG 177

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score =  110 bits (275), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/108 (48%), Positives = 74/108 (68%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++V
Sbjct: 135 LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score =  110 bits (274), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 52/108 (48%), Positives = 74/108 (68%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 58  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 117
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++V
Sbjct: 118 LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 165

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score =  109 bits (273), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 52/108 (48%), Positives = 74/108 (68%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++V
Sbjct: 135 LSXNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score =  109 bits (273), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 51/108 (47%), Positives = 75/108 (69%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 73  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           +++  I + L L S+R  HW IQ   A +GE L  G+DWL ++I++++
Sbjct: 133 LSSNAIREVLELDSIRSHHWCIQGCSAVTGENLLPGIDWLLDDISSRI 180

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score =  109 bits (273), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 48/100 (48%), Positives = 70/100 (70%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 138
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+
Sbjct: 139 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWM 178

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score =  109 bits (272), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 48/100 (48%), Positives = 70/100 (70%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+
Sbjct: 133 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWM 172

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score =  109 bits (272), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 48/100 (48%), Positives = 70/100 (70%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 137
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+
Sbjct: 138 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWM 177

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score =  109 bits (272), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 48/100 (48%), Positives = 70/100 (70%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+
Sbjct: 133 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWM 172

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score =  108 bits (271), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 52/108 (48%), Positives = 73/108 (67%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R  + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRXQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++V
Sbjct: 135 LSXNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In Complex With Unc119a Length = 189

Iteration: 1
 Score = 97.1 bits (240), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 52/107 (48%), Positives = 71/107 (66%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A
Sbjct: 74  IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA 133
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+  K
Sbjct: 134 APASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 180

>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp Length = 181

Iteration: 1
 Score = 97.1 bits (240), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 52/107 (48%), Positives = 71/107 (66%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A
Sbjct: 73  IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA 132
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+  K
Sbjct: 133 APASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 179

>pdb|3BH7|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gdp-Alf4 Length = 164

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/104 (49%), Positives = 70/104 (67%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A
Sbjct: 61  IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA 120
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
             A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+
Sbjct: 121 APASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 164

>pdb|3BH6|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gppnhp Length = 164

Iteration: 1
 Score = 96.3 bits (238), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/104 (49%), Positives = 70/104 (67%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A
Sbjct: 61  IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA 120
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
             A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+
Sbjct: 121 APASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 164

>pdb|1UPT|A Chain A, Structure Of A Complex Of The Golgin-245 Grip Domain With Arl1 Length = 171

Iteration: 1
 Score = 95.1 bits (235), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 51/107 (47%), Positives = 69/107 (64%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ NT  +I+VVDS DRDR+  ++ EL   L E+ELR A+L+VFANKQD   A
Sbjct: 64  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAXLEEEELRKAILVVFANKQDXEQA 123
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             ++E  + LGL +L+ R W I  T AT G GL E  +WL   + ++
Sbjct: 124 XTSSEXANSLGLPALKDRKWQIFKTSATKGTGLDEAXEWLVETLKSR 170

>pdb|2H57|A Chain A, Crystal Structure Of Human Adp-Ribosylation Factor-Like 6 Length = 190

Iteration: 1
 Score = 93.2 bits (230), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 44/105 (41%), Positives = 71/105 (67%), Gaps = 2/105 (1%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL--RDAVLLVFANKQDLPN 59
           R LW HY++  Q +IFV+DS+DR R+V A++EL  +LN  ++  R   +L FANK DL +
Sbjct: 81  RNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD 140
Query: 60  AMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           A+ + +++  L L +++ + W+I ++ A  GEGL EG+DWL + I
Sbjct: 141 AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQI 185

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 59/99 (59%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W  Y +    +++++D+ DR+++  +R+ELH +L++ +L+   +LV  NK+DLPNA+
Sbjct: 81  RSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNAL 140
Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           +  ++ +K+ L +++ R     S      + +   L WL
Sbjct: 141 DEKQLIEKMNLSAIQDREICCYSISCKEKDNIDITLQWL 179

>pdb|4BAS|A Chain A, Structure Of The Arl6 Bbs3 Small Gtpase From Trypanosoma Brucei With Bound Nucleotide Analogue Gppnp Length = 199

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 59/117 (50%), Gaps = 8/117 (6%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-------LLVFAN 53
            R LW  Y+ N   +IFVVDS+D  R+   + E+  ML  +++R  +        L FAN
Sbjct: 76  FRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFAN 135
Query: 54  KQDLPNAMNAAEITDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIANKVG 109
           K D   A  AAE+ + L L +L   H + I ++    G G++EG  WL    + + G
Sbjct: 136 KMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQSG 192

>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex Length = 190

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 54/110 (49%), Gaps = 7/110 (6%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R LW+ YF    G++F+VD+ D +R  EAR EL  + N  EL+D   ++  NK D PNA+
Sbjct: 81  RRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV 140
Query: 62  NAAEITDKLGLHSLR-------QRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           + AE+   LGL +         QR   +         G  E   WLS  I
Sbjct: 141 SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQYI 190

>pdb|2QTV|B Chain B, Structure Of Sec23-Sar1 Complexed With The Active Fragment Of Sec31 Length = 167

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 38/107 (35%), Positives = 53/107 (49%), Gaps = 7/107 (6%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R LW+ YF    G++F+VD+ D +R  EAR EL  + N  EL+D   ++  NK D PNA+
Sbjct: 59  RRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV 118
Query: 62  NAAEITDKLGLHSLR-------QRHWYIQSTCATSGEGLYEGLDWLS 101
           + AE+   LGL +         QR   +         G  E   WLS
Sbjct: 119 SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS 165

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 66.2 bits (160), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 27/99 (27%), Positives = 58/99 (58%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W  Y +    ++++VD+ D++++  +++ELH +L++ +L+   +LV  NK+DLP A+
Sbjct: 81  RSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL 140
Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           +  E+ +K+ L +++ R     S      + +   L WL
Sbjct: 141 DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWL 179

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 65.9 bits (159), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 27/100 (27%), Positives = 58/100 (58%)
Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +W  Y +    ++++VD+ D++++  +++ELH +L++ +L+   +LV  NK+DLP A
Sbjct: 89  FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA 148
Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 100
           ++  E+ +K+ L +++ R     S      + +   L WL
Sbjct: 149 LDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWL 188

>pdb|2FMX|A Chain A, An Open Conformation Of Switch I Revealed By Sar1-gdp Crystal Structure At Low Mg(2+) Length = 195

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 27/115 (23%), Positives = 56/115 (48%), Gaps = 12/115 (10%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W++Y     G++F+VD  D +R++E+++EL  ++ ++ + +  +L+  NK D P A+
Sbjct: 80  RRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI 139
Query: 62  NAAEITDKLGLHS------------LRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +   + +  GL+             L  R   +        +G  EG  W++  I
Sbjct: 140 SEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 194

>pdb|2FA9|A Chain A, The Crystal Structure Of Sar1[h79g]-gdp Provides Insight Into The Coat-controlled Gtp Hydrolysis In The Disassembly Of Cop Ii Length = 189

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 27/115 (23%), Positives = 56/115 (48%), Gaps = 12/115 (10%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W++Y     G++F+VD  D +R++E+++EL  ++ ++ + +  +L+  NK D P A+
Sbjct: 74  RRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI 133
Query: 62  NAAEITDKLGLHS------------LRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +   + +  GL+             L  R   +        +G  EG  W++  I
Sbjct: 134 SEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 188

>pdb|1F6B|A Chain A, Crystal Structure Of Sar1-Gdp Complex Length = 198

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 27/115 (23%), Positives = 56/115 (48%), Gaps = 12/115 (10%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W++Y     G++F+VD  D +R++E+++EL  ++ ++ + +  +L+  NK D P A+
Sbjct: 83  RRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI 142
Query: 62  NAAEITDKLGLHS------------LRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +   + +  GL+             L  R   +        +G  EG  W++  I
Sbjct: 143 SEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 197

>pdb|2GAO|A Chain A, Crystal Structure Of Human Sar1a In Complex With Gdp Length = 208

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 56/115 (48%), Gaps = 12/115 (10%)
Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +W++Y     G++F+VD  D  R+VE++ EL+ ++ ++ + +  +L+  NK D  +A+
Sbjct: 93  RRVWKNYLPAINGIVFLVDCADHSRLVESKVELNALMTDETISNVPILILGNKIDRTDAI 152
Query: 62  NAAEITDKLGLHS------------LRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +  ++ +  GL+             L  R   +        +G  EG  WLS  I
Sbjct: 153 SEEKLREIFGLYGQTTGKGNVTLKELNARPMEVFMCSVLKRQGYGEGFRWLSQYI 207

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	110
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	8e-74
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-71
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	3e-71
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	7e-71
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	8e-71
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	9e-71
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	1e-70
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	4e-70
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	6e-70
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	4e-69
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	5e-69
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	6e-69
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	1e-68
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	1e-68
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-65
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	9e-54
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	1e-48
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	3e-47
2fh5_B	214	SR-beta, signal recognition particle receptor beta	4e-44
1nrj_B	218	SR-beta, signal recognition particle receptor beta	3e-35
2ged_A	193	SR-beta, signal recognition particle receptor beta	4e-33
3llu_A	196	RAS-related GTP-binding protein C; structural geno	4e-19
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	6e-14
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	7e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>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 =  215 bits (551), Expect = 8e-74
 Identities = 27/107 (25%), Positives = 61/107 (57%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +W  Y +    ++++VD+ D++++  +++ELH +L++ +L+   +LV  NK+DLP A
Sbjct: 80  FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA 139

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           ++  E+ +K+ L +++ R     S      + +   L WL  +  ++
Sbjct: 140 LDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKSR 186

>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 =  215 bits (549), Expect = 1e-71
 Identities = 94/107 (87%), Positives = 101/107 (94%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 222 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 281

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 282 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 328

>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 =  208 bits (533), Expect = 3e-71
 Identities = 53/107 (49%), Positives = 74/107 (69%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ NT  +I+VVDS DRDR+  ++ EL  ML E+ELR A+L+VFANKQD+  A
Sbjct: 64  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 123

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M ++E+ + LGL +L+ R W I  T AT G GL E ++WL   + ++
Sbjct: 124 MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 170

>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 =  208 bits (531), Expect = 7e-71
 Identities = 52/107 (48%), Positives = 71/107 (66%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A
Sbjct: 73  IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA 132

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
             A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+  K
Sbjct: 133 APASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 179

>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 =  207 bits (530), Expect = 8e-71
 Identities = 94/107 (87%), Positives = 101/107 (94%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNA
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           MNAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN + N+
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score =  208 bits (531), Expect = 9e-71
 Identities = 53/107 (49%), Positives = 78/107 (72%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +RP WR YF +T  +I+VVDS DRDR+  A+ EL+ +L+EDELR ++LL+FANKQDLP+A
Sbjct: 79  VRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA 138

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
            + AEI ++LG+ S+  R W I  + + +G+GL EG+DWL   +  +
Sbjct: 139 ASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ 185

>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 =  207 bits (530), Expect = 1e-70
 Identities = 52/108 (48%), Positives = 74/108 (68%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++V
Sbjct: 135 LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score =  206 bits (527), Expect = 4e-70
 Identities = 80/107 (74%), Positives = 93/107 (86%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRPLWRHYFQNTQGLIFVVDSNDR+RV E+ DEL +ML EDELRDAVLLVFANKQD+PNA
Sbjct: 86  IRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA 145

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           M  +E+TDKLGL  LR R WY+Q+TCAT G GLY+GLDWLS+ ++ +
Sbjct: 146 MPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSKR 192

>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 =  206 bits (526), Expect = 6e-70
 Identities = 48/108 (44%), Positives = 74/108 (68%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+ + +  ++
Sbjct: 133 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRL 180

>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 =  203 bits (519), Expect = 5e-69
 Identities = 57/107 (53%), Positives = 76/107 (71%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ +T  +IFVVDS D+DR+  A  ELH ML E+EL+DA LLVFANKQD P A
Sbjct: 75  IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA 134

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           ++A+E++ +L L  L+ R W I ++ A  GEG+ EGLDWL + I  +
Sbjct: 135 LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>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 =  203 bits (519), Expect = 6e-69
 Identities = 48/104 (46%), Positives = 72/104 (69%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 137

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           M  AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+ + +
Sbjct: 138 MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 181

>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 =  203 bits (518), Expect = 1e-68
 Identities = 39/111 (35%), Positives = 54/111 (48%), Gaps = 7/111 (6%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R LW+ YF    G++F+VD+ D +R  EAR EL  + N  EL+D   ++  NK D PNA
Sbjct: 80  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 139

Query: 61  MNAAEITDKLGLHSLR-------QRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           ++ AE+   LGL +         QR   +         G  E   WLS  I
Sbjct: 140 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQYI 190

>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 =  202 bits (517), Expect = 1e-68
 Identities = 44/109 (40%), Positives = 71/109 (65%), Gaps = 2/109 (1%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL--RDAVLLVFANKQDLP 58
            R LW HY++  Q +IFV+DS+DR R+V A++EL  +LN  ++  R   +L FANK DL 
Sbjct: 80  YRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLR 139

Query: 59  NAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           +A+ + +++  L L +++ + W+I ++ A  GEGL EG+DWL + I   
Sbjct: 140 DAVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTV 188

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score =  195 bits (498), Expect = 1e-65
 Identities = 27/116 (23%), Positives = 55/116 (47%), Gaps = 12/116 (10%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +W++Y     G++F+VD  D +R++E+++EL  ++ ++ + +  +L+  NK D P A
Sbjct: 82  ARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA 141

Query: 61  MNAAEITDKLG------------LHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           ++   + +  G            L  L  R   +        +G  EG  W++  I
Sbjct: 142 ISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 197

>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} Length = 227

 Score =  166 bits (422), Expect = 9e-54
 Identities = 20/111 (18%), Positives = 42/111 (37%), Gaps = 5/111 (4%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRV--VEARDELHRMLNEDE--LRDAVLLVFANKQD 56
           + P  +   +   G I+V ++    R    +    +  M +         +L++    Q 
Sbjct: 115 VIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQG 174

Query: 57  LPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
               M    +  +L L+ L    W +Q T A +  G   G++W+   + +K
Sbjct: 175 DVKRMPCFYLAHELHLNLL-NHPWLVQDTEAETLTGFLNGIEWILEEVESK 224

>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} Length = 312

 Score =  156 bits (394), Expect = 1e-48
 Identities = 20/111 (18%), Positives = 42/111 (37%), Gaps = 5/111 (4%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRV--VEARDELHRMLNED--ELRDAVLLVFANKQD 56
           + P  +   +   G I+V ++    R    +    +  M +         +L++    Q 
Sbjct: 200 VIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQG 259

Query: 57  LPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
               M    +  +L L+ L    W +Q T A +  G   G++W+   + +K
Sbjct: 260 DVKRMPCFYLAHELHLNLL-NHPWLVQDTEAETLTGFLNGIEWILEEVESK 309

>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 =  149 bits (377), Expect = 3e-47
 Identities = 23/113 (20%), Positives = 47/113 (41%), Gaps = 10/113 (8%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE-----DELRDAVLLVFANKQ 55
                +   +   G++FV DS   +R+    + +  M          L D  +++  NK+
Sbjct: 87  YNASRKLILRGVDGIVFVADSAP-NRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKR 145

Query: 56  DLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           DLP+A+    +   +         + +    AT G+G++E L  +S  +  +V
Sbjct: 146 DLPDALPVEMVRAVVDPEG----KFPVLEAVATEGKGVFETLKEVSRLVLARV 194

>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 =  141 bits (358), Expect = 4e-44
 Identities = 24/107 (22%), Positives = 44/107 (41%), Gaps = 6/107 (5%)

Query: 1   IRP-LWRHYFQNTQGLIFVVDSNDRDRVV-EARDELHRMLNEDEL--RDAVLLVFANKQD 56
           +R  L   +  + + ++FVVDS    R V +  + L+++L +         LL+  NKQD
Sbjct: 67  LRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQD 126

Query: 57  LPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNN 103
           +  A +A  I  +L       R    +S   ++ +        L   
Sbjct: 127 IAMAKSAKLIQQQLEKELNTLRVT--RSAAPSTLDSSSTAPAQLGKK 171

>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 =  119 bits (299), Expect = 3e-35
 Identities = 23/111 (20%), Positives = 42/111 (37%), Gaps = 10/111 (9%)

Query: 1   IRPLWRHYFQN----TQGLIFVVDS-NDRDRVVEARDELHRMLNEDELRDAV---LLVFA 52
           +R     Y +      +GLIF+VDS  D  ++    + L  +L+  E        +L+  
Sbjct: 68  LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 127

Query: 53  NKQDLPNAMNAAEITDKLG--LHSLRQRHWYIQSTCATSGEGLYEGLDWLS 101
           NK +L  A   ++I D L   +  + +R     +             + L 
Sbjct: 128 NKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLD 178

>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 =  112 bits (283), Expect = 4e-33
 Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 10/88 (11%)

Query: 1   IRPLWRHYFQN----TQGLIFVVDS-NDRDRVVEARDELHRMLNEDELRDAV---LLVFA 52
           +R     Y +      +GLIF+VDS  D  ++    + L  +L+  E        +L+  
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 53  NKQDLPNAMNAAEITDKLG--LHSLRQR 78
           NK +L  A   ++I D L   +  + +R
Sbjct: 164 NKSELFTARPPSKIKDALESEIQKVIER 191

>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 = 76.9 bits (189), Expect = 4e-19
 Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 12/88 (13%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE--DELRDAVLLVFANKQDLPNAMN 62
           +   F+ T  LI+V+D+ D     EA   LH  +++      D    VF +K D      
Sbjct: 89  YEMIFRGTGALIYVIDAQDDYM--EALTRLHITVSKAYKVNPDMNFEVFIHKVDG----- 141

Query: 63  AAEITDKLGLHSLRQRHWYIQSTCATSG 90
              ++D   + + R  H       A +G
Sbjct: 142 ---LSDDHKIETQRDIHQRANDDLADAG 166

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 64.6 bits (157), Expect = 6e-14
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 3/72 (4%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR--DAVLLVFANKQDLP 58
                 H FQ  Q LI V D    +  ++  +   + L +      DA + V  +K DL 
Sbjct: 70  FTKQKDHIFQMVQVLIHVFDVESTEV-LKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLV 128

Query: 59  NAMNAAEITDKL 70
                 E+   +
Sbjct: 129 QLDKREELFQIM 140

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 47.7 bits (113), Expect = 7e-08
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE--DELRDAVLLVFANKQDL 57
               F++   L++V+DS D      A   L  ++           + V  +K D 
Sbjct: 66  SERLFKSVGALVYVIDSQDEYI--NAITNLAMIIEYAYKVNPSINIEVLIHKVDG 118

>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 = 37.5 bits (86), Expect = 4e-04
 Identities = 25/124 (20%), Positives = 40/124 (32%), Gaps = 21/124 (16%)

Query: 1   IRPLWRHYFQNTQGLIFVVD--SNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP 58
           +  L +  +Q         D  SN + R+   + EL R+L      +  LLV  N Q+  
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-LLVLLNVQN-A 256

Query: 59  NAMNA-------------AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA 105
            A NA              ++TD L   +    H  +     T      E    L   + 
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLS--AATTTHISLDHHSMTLTPD--EVKSLLLKYLD 312

Query: 106 NKVG 109
            +  
Sbjct: 313 CRPQ 316

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	110
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.89
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.87
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.87
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.87
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.87
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.86
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.86
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.86
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.85
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.85
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.85
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.85
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.85
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.85
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.84
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.83
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.83
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.83
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.8
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.8
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.78
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.77
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.77
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.77
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.76
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.76
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.76
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.76
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.76
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.76
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.76
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.76
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.75
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.75
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.75
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.75
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.75
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.75
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.75
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.75
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.75
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.75
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.74
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.74
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.74
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.74
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.74
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.74
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.74
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.74
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.74
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.73
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.73
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.73
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.73
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.73
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.73
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.73
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.73
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.72
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.72
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.72
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.72
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.72
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.72
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.72
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.72
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.72
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.72
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.71
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.71
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.71
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.71
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.71
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.71
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.71
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.71
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.71
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.7
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.7
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.7
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.7
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.7
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.7
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.7
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.7
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.69
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.69
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.68
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.68
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.67
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.67
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.67
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.67
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.66
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.66
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.66
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.66
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.66
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.65
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.64
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.64
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.64
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.62
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.62
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.58
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.58
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.36
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.57
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.56
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.56
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.54
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.53
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.51
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.5
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.48
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.48
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.47
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.47
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.47
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.46
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.45
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.45
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.41
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.39
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.38
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.38
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.37
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.36
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.36
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.36
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.35
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.35
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.34
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.34
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.33
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.31
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.31
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.31
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.31
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.31
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.3
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.29
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.28
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.26
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.26
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.25
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.24
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.23
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.23
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.21
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.2
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.19
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.19
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.19
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.16
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.13
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.12
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.12
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.12
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.09
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.07
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.02
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.0
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.98
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.98
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.98
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.97
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.96
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.91
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.9
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.89
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.88
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.85
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.82
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.81
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.8
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.8
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.74
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.73
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.73
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.72
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.72
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.7
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.7
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.69
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.69
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.66
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.64
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.63
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.61
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.59
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.58
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.57
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.49
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.47
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.45
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.43
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.43
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.29
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.25
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.03
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.03
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.02
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	97.96
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.94
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	97.89
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.87
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.64
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.4
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.29
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	97.12
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	96.82
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	95.83
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.76
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	91.31
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	89.65
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	88.56
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	86.82
3u7r_A	190	NADPH-dependent FMN reductase; alpha/beta twisted	85.3
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	83.78
3end_A	307	Light-independent protochlorophyllide reductase ir	83.51
2l82_A	162	Designed protein OR32; structural genomics, northe	81.58
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	80.55
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	80.27

>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=99.89  E-value=6.5e-23  Score=122.15  Aligned_cols=105  Identities=22%  Similarity=0.378  Sum_probs=84.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHH---HHHhcCCC-CCCCeEEEEeeCC-CCCCCCCHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDEL---HRMLNEDE-LRDAVLLVFANKQ-DLPNAMNAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~iiv~nK~-Dl~~~~~~~~~~~~~~~~~~   75 (110)
                      +|++|++||+++|++|||+|+++.+..+ ...++   ..++.+.. +.+.|++|++||. |++++.+..++.+.+++...
T Consensus       115 lRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e~L~L~~l  193 (227)
T 3l82_B          115 VIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLNLL  193 (227)
T ss_dssp             --CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHHHTTGGGG
T ss_pred             HHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHHHcCCcCC
Confidence            5899999999999999999999865433 44444   44454432 4689999999995 78888888899988888766


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       .+.|.+..|||.+|+|+.+.++||.+.+.++
T Consensus       194 -~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k  224 (227)
T 3l82_B          194 -NHPWLVQDTEAETLTGFLNGIEWILEEVESK  224 (227)
T ss_dssp             -CSCEEEEEEETTTCTTHHHHHHHHTTTTTTC
T ss_pred             -CCCEEEEEeECCCCcCHHHHHHHHHHHHHhh
Confidence             5899999999999999999999999887654

>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=99.87  E-value=3.8e-21  Score=110.95  Aligned_cols=107  Identities=88%  Similarity=1.383  Sum_probs=85.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..+.......+.|+++|+||+|+.+....+++...++........+
T Consensus        57 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  136 (164)
T 1r8s_A           57 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNW  136 (164)
T ss_dssp             GHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCE
T ss_pred             hHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCCHHHHHHHhCcccccCccE
Confidence            35678899999999999999999988888888888877654446799999999999977655566665555433444567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.++
T Consensus       137 ~~~~~Sa~~~~gi~~l~~~l~~~i~~~  163 (164)
T 1r8s_A          137 YIQATCATSGDGLYEGLDWLSNQLRNQ  163 (164)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHC---
T ss_pred             EEEEcccCCCcCHHHHHHHHHHHHhhc
Confidence            899999999999999999999987654

>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=99.87  E-value=2.6e-21  Score=113.78  Aligned_cols=107  Identities=49%  Similarity=0.860  Sum_probs=84.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+++|..|++++|++++|+|++++.++.....|+..++......+.|+++|+||+|+.+....+++.+.++........+
T Consensus        73 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  152 (181)
T 1fzq_A           73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVW  152 (181)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCE
T ss_pred             HHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCce
Confidence            35678999999999999999999888888888888776554446799999999999987666556655554433334567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.++
T Consensus       153 ~~~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (181)
T 1fzq_A          153 QIQSCSALTGEGVQDGMNWVCKNVNAK  179 (181)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHTC---
T ss_pred             EEEEccCCCCCCHHHHHHHHHHHHHhc
Confidence            899999999999999999999887654

>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=99.87  E-value=6.7e-21  Score=113.00  Aligned_cols=106  Identities=75%  Similarity=1.288  Sum_probs=86.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++...++........+
T Consensus        86 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  165 (192)
T 2b6h_A           86 IRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTW  165 (192)
T ss_dssp             -CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCE
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCce
Confidence            45788999999999999999999988888888888877654446799999999999977655566666655443445667


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++||++|.|++++++++.+.+.+
T Consensus       166 ~~~~~SA~~g~gi~~l~~~l~~~i~~  191 (192)
T 2b6h_A          166 YVQATCATQGTGLYDGLDWLSHELSK  191 (192)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHTTT
T ss_pred             EEEECcCCCcCCHHHHHHHHHHHHhc
Confidence            89999999999999999999988754

>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=99.87  E-value=1.2e-20  Score=109.42  Aligned_cols=107  Identities=50%  Similarity=0.898  Sum_probs=86.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++...++.......++
T Consensus        64 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  143 (171)
T 1upt_A           64 IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKW  143 (171)
T ss_dssp             GGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCE
T ss_pred             hhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCce
Confidence            35688999999999999999999888888888888877654446799999999999977655556655554433445667


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.++
T Consensus       144 ~~~~~Sa~~~~gi~~l~~~l~~~i~~~  170 (171)
T 1upt_A          144 QIFKTSATKGTGLDEAMEWLVETLKSR  170 (171)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEEECcCCCCcCHHHHHHHHHHHHhhc
Confidence            899999999999999999999988653

>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=99.86  E-value=1.6e-20  Score=110.47  Aligned_cols=106  Identities=48%  Similarity=0.901  Sum_probs=86.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++.+.++........++
T Consensus        76 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  155 (186)
T 1ksh_A           76 RSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWR  155 (186)
T ss_dssp             HTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEE
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHHHHHHhChhhccCCceE
Confidence            46788999999999999999999888888888888776544467999999999999876666666555544333345678


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++++++.+.+.++
T Consensus       156 ~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          156 IQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999988764

>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=99.86  E-value=2.1e-20  Score=109.55  Aligned_cols=107  Identities=53%  Similarity=0.932  Sum_probs=87.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..+.......+.|+++|+||+|+.+....+++...++........+
T Consensus        75 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~  154 (183)
T 1moz_A           75 IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSW  154 (183)
T ss_dssp             CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCE
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCce
Confidence            45688999999999999999998888888888888877654346799999999999977666666666665444445667


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.++
T Consensus       155 ~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          155 SIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             EEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             EEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence            899999999999999999999988654

>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=99.86  E-value=2.4e-20  Score=109.95  Aligned_cols=106  Identities=45%  Similarity=0.832  Sum_probs=85.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+....+++...++.......++
T Consensus        73 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  152 (187)
T 1zj6_A           73 LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQW  152 (187)
T ss_dssp             -CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCE
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCc
Confidence            45788999999999999999999888888888888877653345799999999999987656666665554432344567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++||++|.|++++++++.+.+..
T Consensus       153 ~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          153 HIQACCALTGEGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHCC
T ss_pred             EEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            89999999999999999999988753

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.86  E-value=2.1e-20  Score=110.28  Aligned_cols=107  Identities=50%  Similarity=0.944  Sum_probs=87.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++...++........+
T Consensus        79 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  158 (189)
T 2x77_A           79 VRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTW  158 (189)
T ss_dssp             SCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCE
T ss_pred             HHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCHHHHHHHhChhhccCCce
Confidence            35678889999999999999999888888888888877654446899999999999977655566665554433445567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.++
T Consensus       159 ~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          159 TIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             EEEEccCCCccCHHHHHHHHHHHHHhc
Confidence            899999999999999999999988654

>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=99.85  E-value=3.4e-20  Score=110.47  Aligned_cols=104  Identities=26%  Similarity=0.634  Sum_probs=83.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS------   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~------   74 (110)
                      ++.+|..|++++|++++|+|++++.++.....|+..++......+.|+++|+||+|+.+....+++.+.+....      
T Consensus        82 ~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  161 (198)
T 1f6b_A           82 ARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKG  161 (198)
T ss_dssp             -CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSS
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccccCCHHHHHHHhCccccccccc
Confidence            46789999999999999999999888988888888887654446799999999999987666666666554221      


Q ss_pred             ---c---cCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           75 ---L---RQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        75 ---~---~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                         .   ....++++++||++|+|++++++++.+.+
T Consensus       162 ~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          162 SVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             CCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             ccccccccCceEEEEEEECCCCCCHHHHHHHHHHhc
Confidence               0   12457899999999999999999998654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.85  E-value=1e-20  Score=112.24  Aligned_cols=108  Identities=33%  Similarity=0.621  Sum_probs=86.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCC-------CCCeEEEEeeCCCCCCCCCHHHHHhhhCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL-------RDAVLLVFANKQDLPNAMNAAEITDKLGLH   73 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~   73 (110)
                      |+.+|..|++++|++|+|+|++++.++.....|+..++.....       .+.|+++|+||+|+.+....+++...++..
T Consensus        76 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~  155 (199)
T 4bas_A           76 FRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLT  155 (199)
T ss_dssp             GGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHH
T ss_pred             HHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcch
Confidence            4678899999999999999999998898888888887654221       278999999999998776656665555432


Q ss_pred             cc-cCcceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           74 SL-RQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        74 ~~-~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      .. ....++++++||++|.|+++++++|.+.+..+.
T Consensus       156 ~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          156 TLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             HHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             hhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            22 345678999999999999999999999887653

>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=99.85  E-value=2.8e-20  Score=109.21  Aligned_cols=103  Identities=47%  Similarity=0.857  Sum_probs=83.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..+.......+.|+++|+||+|+.+....+++...++........+
T Consensus        78 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  157 (181)
T 2h17_A           78 LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQW  157 (181)
T ss_dssp             GTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCE
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCCHHHHHHHhCcccccCCce
Confidence            35678899999999999999999888888888888877653346799999999999977666666666554433345567


Q ss_pred             EEEeeecccCCCHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      +++++||++|.|+++++++|.+.
T Consensus       158 ~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          158 HIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHTC
T ss_pred             EEEEccCCCCcCHHHHHHHHHhh
Confidence            89999999999999999999764

>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=99.85  E-value=2.9e-20  Score=109.76  Aligned_cols=106  Identities=25%  Similarity=0.615  Sum_probs=84.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.+|..+++++|++++|+|++++.++.....++..++......+.|+++|+||+|+.+....+++...++........++
T Consensus        81 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  160 (188)
T 1zd9_A           81 RSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREIC  160 (188)
T ss_dssp             HTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEE
T ss_pred             HHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCCHHHHHHHhChhhhccCCee
Confidence            56788999999999999999998888888888888776533467999999999999776555555555443333345678


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++++++.+.+..+
T Consensus       161 ~~~~SA~~g~gv~~l~~~l~~~~~~~  186 (188)
T 1zd9_A          161 CYSISCKEKDNIDITLQWLIQHSKSR  186 (188)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHTCC--
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999877543

>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=99.85  E-value=7.3e-20  Score=108.09  Aligned_cols=106  Identities=42%  Similarity=0.798  Sum_probs=84.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCC--CCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDEL--RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.+|..+++++|++++|+|++++.++.....++..+......  .+.|+++|+||+|+.+....+++...+........
T Consensus        80 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  159 (190)
T 2h57_A           80 YRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDK  159 (190)
T ss_dssp             TGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSS
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCC
Confidence            4678899999999999999999988888888888887765443  57899999999999876666666655543333345


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++++++||++|.|++++++++.+.+.+
T Consensus       160 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          160 PWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             ceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            6789999999999999999999988753

>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=99.85  E-value=4e-20  Score=109.45  Aligned_cols=103  Identities=37%  Similarity=0.640  Sum_probs=82.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS------   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~------   74 (110)
                      ++.+|..|++++|++++|+|++++.++.....|+..++......+.|+++|+||+|+.+....+++.+.++...      
T Consensus        80 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  159 (190)
T 1m2o_B           80 ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQR  159 (190)
T ss_dssp             GTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTCSSCCC---
T ss_pred             HHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCCCCHHHHHHHhCCcccccccc
Confidence            35678899999999999999999988988888888877654446799999999999987666666666554321      


Q ss_pred             -ccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           75 -LRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        75 -~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                       .....++++++||++|+|++++++++.+.
T Consensus       160 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          160 IEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence             11345789999999999999999999764

>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=99.84  E-value=2.4e-21  Score=120.27  Aligned_cols=105  Identities=23%  Similarity=0.389  Sum_probs=85.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHH---HHhcCCC-CCCCeEEEEeeC-CCCCCCCCHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELH---RMLNEDE-LRDAVLLVFANK-QDLPNAMNAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~---~~~~~~~-~~~~~~iiv~nK-~Dl~~~~~~~~~~~~~~~~~~   75 (110)
                      +|++|++||+++|++|||+|+++.+..+ ...++.   .++.+.. +.+.|++|++|| .|++++.+..++.+.+++...
T Consensus       200 lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~e~L~L~~l  278 (312)
T 3l2o_B          200 VIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLNLL  278 (312)
T ss_dssp             CCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHHHHTTGGGG
T ss_pred             HHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHHHHcCCccC
Confidence            5899999999999999999999876543 333332   4444322 368999999996 699888888899998888766


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       .+.|.+..|||.+|+|+.+.++||.+.+.++
T Consensus       279 -~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          279 -NHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             -CSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             -CCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence             5799999999999999999999999988654

>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=99.83  E-value=2.5e-20  Score=112.59  Aligned_cols=100  Identities=16%  Similarity=0.278  Sum_probs=78.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.|+++++++++|+|.+++.++.....|+..+..... .+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        75 ~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~-~~~piilVgNK~Dl~~~r~V~~~e~~~~a-----~~~  148 (216)
T 4dkx_A           75 FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERG-SDVIIMLVGNKTDLADKRQVSIEEGERKA-----KEL  148 (216)
T ss_dssp             CGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcC-CCCeEEEEeeccchHhcCcccHHHHhhHH-----HHh
Confidence            578899999999999999999999999999888887754432 57999999999999653  2334332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++++|||++|.||+++|+.|++.+..
T Consensus       149 ~~~~~e~SAktg~nV~e~F~~i~~~i~~  176 (216)
T 4dkx_A          149 NVMFIETSAKAGYNVKQLFRRVAAALPG  176 (216)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHHC--
T ss_pred             CCeeEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            4578999999999999999999988753

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.83  E-value=1.9e-19  Score=114.65  Aligned_cols=107  Identities=88%  Similarity=1.383  Sum_probs=89.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.++..+++++|++|+|+|++++.++.....++..++......++|+++|+||+|+.+....+++...++........+
T Consensus       222 ~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  301 (329)
T 3o47_A          222 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNW  301 (329)
T ss_dssp             -CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTCTTCCSSCE
T ss_pred             HHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHHHHHHhchhhhhcCCC
Confidence            46788999999999999999999888988888888877665556899999999999987766667777666555556678


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|+++++++|.+.+.++
T Consensus       302 ~~~~vSAk~g~gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          302 YIQATCATSGDGLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHTC-
T ss_pred             EEEEEECCCCcCHHHHHHHHHHHHHhc
Confidence            999999999999999999999988654

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.80  E-value=1.1e-18  Score=103.10  Aligned_cols=101  Identities=23%  Similarity=0.370  Sum_probs=78.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCC------hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND------RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~   74 (110)
                      |+.+|..+++++|++|+|+|+++      ..++.....|+..+.  ....+.|+++|+||+|+.+....+++.....   
T Consensus        87 ~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~--~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~---  161 (198)
T 3t1o_A           87 YNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG--LTLDDVPIVIQVNKRDLPDALPVEMVRAVVD---  161 (198)
T ss_dssp             CSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT--CCTTSSCEEEEEECTTSTTCCCHHHHHHHHC---
T ss_pred             HHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc--cccCCCCEEEEEEchhcccccCHHHHHHHHH---
Confidence            46789999999999999999984      344555555665542  2235799999999999987766666655542   


Q ss_pred             ccCcce-EEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           75 LRQRHW-YIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        75 ~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                        ..+. +++++||++|.|++++++++.+.+.++.
T Consensus       162 --~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          162 --PEGKFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             --TTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             --hcCCceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence              2344 7899999999999999999999887654

>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=99.80  E-value=1.6e-18  Score=100.09  Aligned_cols=102  Identities=15%  Similarity=0.086  Sum_probs=69.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++.+|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  136 (166)
T 3q72_A           62 GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACA-----VVF  136 (166)
T ss_dssp             -----------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHH-----HHT
T ss_pred             chhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHH-----HHh
Confidence            3567889999999999999999998888888888877655444679999999999996543  222222211     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||++|.|++++++++.+.+..+
T Consensus       137 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          137 DCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             TCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             CCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            45889999999999999999999988654

>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=99.78  E-value=3e-18  Score=102.18  Aligned_cols=102  Identities=17%  Similarity=0.236  Sum_probs=78.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..|++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        91 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~-----~~~  164 (201)
T 2hup_A           91 FRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYA-GSNIVQLLIGNKSDLSELREVSLAEAQSLA-----EHY  164 (201)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCccccccccCHHHHHHHH-----HHc
Confidence            35678999999999999999999888887777777665432 257999999999999642  2333333321     122


Q ss_pred             ce-EEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HW-YIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++ +++++||++|.|++++++++.+.+..+.
T Consensus       165 ~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          165 DILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             TCSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            34 7899999999999999999999887654

>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=99.77  E-value=4.1e-18  Score=99.86  Aligned_cols=101  Identities=15%  Similarity=0.201  Sum_probs=69.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        70 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  143 (183)
T 2fu5_C           70 FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHA-SADVEKMILGNKCDVNDKRQVSKERGEKLA-----LDY  143 (183)
T ss_dssp             ----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEEC--CCSCCCSCHHHHHHHH-----HHH
T ss_pred             hhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECccCCccCcCCHHHHHHHH-----HHc
Confidence            35677889999999999999999888888777777665432 2478999999999996532  333333221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||++|.|+++++.++.+.+..+
T Consensus       144 ~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~  172 (183)
T 2fu5_C          144 GIKFMETSAKANINVENAFFTLARDIKAK  172 (183)
T ss_dssp             TCEEEECCC---CCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            45789999999999999999999888654

>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=99.77  E-value=3e-18  Score=100.45  Aligned_cols=102  Identities=14%  Similarity=0.162  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        79 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  153 (183)
T 3kkq_A           79 FSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMA-----TKY  153 (183)
T ss_dssp             GCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHH-----HHh
Confidence            356788999999999999999998888887777776654333357899999999998653  2333332221     112


Q ss_pred             ceEEEeeecc-cCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCAT-SGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~-~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||+ +|.|++++|+++.+.+.++
T Consensus       154 ~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~q  183 (183)
T 3kkq_A          154 NIPYIETSAKDPPLNVDKTFHDLVRVIRQQ  183 (183)
T ss_dssp             TCCEEEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             CCeEEEeccCCCCCCHHHHHHHHHHHHhhC
Confidence            3568899999 9999999999999987653

>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=99.77  E-value=3.5e-18  Score=98.49  Aligned_cols=101  Identities=18%  Similarity=0.250  Sum_probs=77.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  139 (168)
T 1u8z_A           65 YAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRA-----DQW  139 (168)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHH-----HHc
Confidence            356788999999999999999998888887777776655433347999999999998543  2333333221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|.|++++++++.+.+.+
T Consensus       140 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          140 NVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999999998764

>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=99.76  E-value=1.2e-17  Score=96.96  Aligned_cols=101  Identities=14%  Similarity=0.078  Sum_probs=74.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++.+|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...+
T Consensus        68 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~-----~~~~  142 (175)
T 2nzj_A           68 SWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACA-----VVFD  142 (175)
T ss_dssp             CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHH-----HHHT
T ss_pred             hhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHH-----HHcC
Confidence            346678899999999999999998888877777766544333579999999999996542  233322211     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||++|.|++++++++.+.+..+
T Consensus       143 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  170 (175)
T 2nzj_A          143 CKFIETSATLQHNVAELFEGVVRQLRLR  170 (175)
T ss_dssp             SEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            5789999999999999999999988654

>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=99.76  E-value=5.8e-18  Score=97.95  Aligned_cols=99  Identities=18%  Similarity=0.175  Sum_probs=75.5

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...+.+
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~  142 (169)
T 3q85_A           68 LQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLA-----GTLSCK  142 (169)
T ss_dssp             --CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHTTCE
T ss_pred             hhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHH-----HHcCCc
Confidence            677789999999999999999888888888887765544357999999999998632  2333332221     123458


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++++++.+.+..+
T Consensus       143 ~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          143 HIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             EEEecCccCCCHHHHHHHHHHHHHhc
Confidence            89999999999999999999988654

>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=99.76  E-value=1.2e-17  Score=98.59  Aligned_cols=102  Identities=24%  Similarity=0.292  Sum_probs=78.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      |+.++..+++++|++|+|+|++++.++.....|+..+.......+.|+++|+||+|+.... ..++.....     ...+
T Consensus        77 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~  151 (195)
T 1x3s_A           77 FRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFA-----RKHS  151 (195)
T ss_dssp             GCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHH-----HHTT
T ss_pred             hhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccccCHHHHHHHH-----HHcC
Confidence            3567889999999999999999988888777777777554333579999999999995432 233332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||+++.|++++++++.+.+...
T Consensus       152 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (195)
T 1x3s_A          152 MLFIEASAKTCDGVQCAFEELVEKIIQT  179 (195)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             CEEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            5789999999999999999999988654

>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=99.76  E-value=7.1e-18  Score=99.67  Aligned_cols=102  Identities=15%  Similarity=0.231  Sum_probs=77.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        85 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  158 (191)
T 3dz8_A           85 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYS-WDNAQVILVGNKCDMEEERVVPTEKGQLLA-----EQL  158 (191)
T ss_dssp             CHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             HHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHH-----HHc
Confidence            45678999999999999999999888887777776664432 2579999999999985432  223222211     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++++++.+.+..+.
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          159 GFDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            457899999999999999999999987664

>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=99.76  E-value=8.1e-18  Score=99.42  Aligned_cols=102  Identities=20%  Similarity=0.275  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        83 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  156 (191)
T 2a5j_A           83 FRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHS-SSNMVIMLIGNKSDLESRRDVKREEGEAFA-----REH  156 (191)
T ss_dssp             TSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccCCccccCHHHHHHHH-----HHc
Confidence            45678899999999999999999888887777777665432 257999999999998542  2333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++++++.+.+.++.
T Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          157 GLIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            457899999999999999999998887653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.76  E-value=1.3e-17  Score=98.64  Aligned_cols=102  Identities=16%  Similarity=0.238  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        78 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  151 (196)
T 3tkl_A           78 FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFA-----DSL  151 (196)
T ss_dssp             GCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHH-----HHT
T ss_pred             hhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            356789999999999999999998888877777766544322 478999999999986543  222222211     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +.+++++||++|.|++++|+++.+.+.++.
T Consensus       152 ~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  181 (196)
T 3tkl_A          152 GIPFLETSAKNATNVEQSFMTMAAEIKKRM  181 (196)
T ss_dssp             TCCEEEECTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CCcEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            347889999999999999999999987664

>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=99.76  E-value=8.2e-18  Score=98.79  Aligned_cols=102  Identities=17%  Similarity=0.270  Sum_probs=77.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      ++.++..|++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.. ..+......     ...+
T Consensus        65 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~-----~~~~  139 (189)
T 4dsu_A           65 YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLA-----RSYG  139 (189)
T ss_dssp             -CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHHHHHHH-----HHHT
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHHHHHHH-----HHcC
Confidence            4568899999999999999999988888877777776654344579999999999996543 223322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||++|.|++++++++.+.+...
T Consensus       140 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  167 (189)
T 4dsu_A          140 IPFIETSAKTRQGVDDAFYTLVREIRKH  167 (189)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            4688999999999999999999988643

>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=99.76  E-value=1.4e-17  Score=98.99  Aligned_cols=99  Identities=18%  Similarity=0.167  Sum_probs=76.2

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++..|++++|++|+|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...+.+
T Consensus        89 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a-----~~~~~~  163 (195)
T 3cbq_A           89 LRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLA-----GTLSCK  163 (195)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHH-----HHTTCE
T ss_pred             hHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHH-----HHhCCE
Confidence            6788899999999999999998888888888776544332479999999999996532  333332221     112357


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++|+++.+.+..+
T Consensus       164 ~~e~Sa~~~~~v~~lf~~l~~~i~~~  189 (195)
T 3cbq_A          164 HIETSAALHHNTRELFEGAVRQIRLR  189 (195)
T ss_dssp             EEEEBTTTTBSHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHh
Confidence            89999999999999999999988654

>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=99.75  E-value=6.2e-18  Score=98.92  Aligned_cols=103  Identities=11%  Similarity=0.030  Sum_probs=76.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  141 (181)
T 3t5g_A           67 YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALA-----ESW  141 (181)
T ss_dssp             TCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHH-----HHT
T ss_pred             hhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHH-----HHh
Confidence            3567889999999999999999998888888777776554333578999999999985433  333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +.+++++||++|.|++++++++.+.+....
T Consensus       142 ~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  171 (181)
T 3t5g_A          142 NAAFLESSAKENQTAVDVFRRIILEAEKMD  171 (181)
T ss_dssp             TCEEEECCTTSHHHHHHHHHHHHHHHHTC-
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            457899999999999999999999887543

>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=99.75  E-value=9e-18  Score=98.40  Aligned_cols=102  Identities=18%  Similarity=0.259  Sum_probs=78.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++.+|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        79 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  153 (187)
T 2a9k_A           79 YAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRA-----EQW  153 (187)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             cHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHH-----HHc
Confidence            356789999999999999999998888887777777655433347999999999998543  2333333322     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||+++.|++++++++.+.+..+
T Consensus       154 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  182 (187)
T 2a9k_A          154 NVNYVETSAKTRANVDKVFFDLMREIRAR  182 (187)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEeCCCCCCCHHHHHHHHHHHHHHh
Confidence            45789999999999999999999988653

>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=99.75  E-value=1.3e-17  Score=100.33  Aligned_cols=100  Identities=16%  Similarity=0.143  Sum_probs=73.8

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~   80 (110)
                      .+++.|++.++++|+|+|.+++.++.....|+..+.......+.|+++|+||+|+.+.  ...++....     ....++
T Consensus       103 ~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~-----a~~~~~  177 (211)
T 2g3y_A          103 WLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRAC-----AVVFDC  177 (211)
T ss_dssp             HHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHH-----HHHHTC
T ss_pred             hHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHH-----HHHcCC
Confidence            3567788999999999999999899888777766654322347999999999998642  222221111     011235


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|+|++++|+++.+.+..+
T Consensus       178 ~~~e~SAk~g~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          178 KFIETSAAVQHNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            789999999999999999999987543

>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=99.75  E-value=1.1e-17  Score=98.60  Aligned_cols=101  Identities=16%  Similarity=0.305  Sum_probs=76.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++|+|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...+
T Consensus        84 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  158 (195)
T 3bc1_A           84 RSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELA-----EKYG  158 (195)
T ss_dssp             HHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHHT
T ss_pred             HHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHH-----HHcC
Confidence            45788899999999999999998888877777776655433357899999999998642  2333332221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||++|.|+++++++|.+.+.++
T Consensus       159 ~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  186 (195)
T 3bc1_A          159 IPYFETSAANGTNISHAIEMLLDLIMKR  186 (195)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4688999999999999999999988654

>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=99.75  E-value=6.1e-19  Score=101.93  Aligned_cols=100  Identities=18%  Similarity=0.263  Sum_probs=75.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC-----CCHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-----MNAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-----~~~~~~~~~~~~~~~   75 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.     ...++.....     
T Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~-----  138 (170)
T 1ek0_A           65 FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQA-SKDIIIALVGNKIDXLQEGGERKVAREEGEKLA-----  138 (170)
T ss_dssp             GGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHH-----
T ss_pred             hhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCCccccccccCCCHHHHHHHH-----
Confidence            35678899999999999999999888888777777665442 257999999999998543     1222222211     


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...+++++++||++|.|++++++++.+.+.+
T Consensus       139 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (170)
T 1ek0_A          139 EEKGLLFFETSAKTGENVNDVFLGIGEKIPL  169 (170)
T ss_dssp             HHHTCEEEECCTTTCTTHHHHHHHHHTTSCC
T ss_pred             HHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            1234588999999999999999999887643

>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=99.75  E-value=1.9e-17  Score=98.52  Aligned_cols=101  Identities=18%  Similarity=0.252  Sum_probs=77.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        75 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  149 (206)
T 2bov_A           75 YAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRA-----EQW  149 (206)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHH-----HHh
Confidence            356788999999999999999998888888777777665433357999999999998653  2333333221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.+++++||++|.|+++++.++.+.+..
T Consensus       150 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~  177 (206)
T 2bov_A          150 NVNYVETSAKTRANVDKVFFDLMREIRA  177 (206)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999999999988764

>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=99.75  E-value=1.2e-17  Score=97.39  Aligned_cols=102  Identities=18%  Similarity=0.235  Sum_probs=77.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..++......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        70 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  144 (181)
T 2fn4_A           70 FGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFG-----ASH  144 (181)
T ss_dssp             TSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             hHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            3567889999999999999999988888887777776544333578999999999986432  233322221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||++|.|++++++++.+.+.+.
T Consensus       145 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  173 (181)
T 2fn4_A          145 HVAYFEASAKLRLNVDEAFEQLVRAVRKY  173 (181)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCeEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            45889999999999999999999988654

>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=99.75  E-value=2.4e-17  Score=96.23  Aligned_cols=100  Identities=16%  Similarity=0.239  Sum_probs=76.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~-----~~~  147 (181)
T 2efe_B           74 YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQG-NPNMVMALAGNKSDLLDARKVTAEDAQTYA-----QEN  147 (181)
T ss_dssp             GGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHH-----HHT
T ss_pred             hhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCcccccccCCHHHHHHHH-----HHc
Confidence            35678899999999999999999888888777777765442 2579999999999996432  333333321     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|.|++++++++.+.+..
T Consensus       148 ~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          148 GLFFMETSAKTATNVKEIFYEIARRLPR  175 (181)
T ss_dssp             TCEEEECCSSSCTTHHHHHHHHHHTCC-
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999999987754

>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=99.75  E-value=3.2e-17  Score=97.78  Aligned_cols=101  Identities=16%  Similarity=0.214  Sum_probs=76.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        70 ~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  143 (206)
T 2bcg_Y           70 FRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYA-TSTVLKLLVGNKCDLKDKRVVEYDVAKEFA-----DAN  143 (206)
T ss_dssp             TTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHH-----HHT
T ss_pred             HHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHH-----HHc
Confidence            45678899999999999999999888888777776664432 2478999999999996532  233332221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||++|.|+++++.++.+.+...
T Consensus       144 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  172 (206)
T 2bcg_Y          144 KMPFLETSALDSTNVEDAFLTMARQIKES  172 (206)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            35788999999999999999999988654

>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=99.75  E-value=9.9e-18  Score=100.72  Aligned_cols=101  Identities=17%  Similarity=0.325  Sum_probs=76.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++|+|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...+
T Consensus        98 ~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~-----~~~~  172 (217)
T 2f7s_A           98 RSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELA-----DKYG  172 (217)
T ss_dssp             HHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHTT
T ss_pred             HhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHH-----HHCC
Confidence            457889999999999999999988888777777665443322579999999999986432  233332221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||+++.|++++++++.+.+.++
T Consensus       173 ~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  200 (217)
T 2f7s_A          173 IPYFETSAATGQNVEKAVETLLDLIMKR  200 (217)
T ss_dssp             CCEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4788999999999999999999988654

>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=99.74  E-value=1.1e-17  Score=96.73  Aligned_cols=102  Identities=19%  Similarity=0.273  Sum_probs=76.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+.+.. ..++.....     ...+
T Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~~  138 (170)
T 1g16_A           65 FRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAN-DEAQLLLVGNKSDMETRVVTADQGEALA-----KELG  138 (170)
T ss_dssp             TSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCTTCCSCHHHHHHHH-----HHHT
T ss_pred             hhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECccCCcCccCHHHHHHHH-----HHcC
Confidence            356788899999999999999998888777777766654322 478999999999995432 223322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|++++++++.+.+.++.
T Consensus       139 ~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  167 (170)
T 1g16_A          139 IPFIESSAKNDDNVNEIFFTLAKLIQEKI  167 (170)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            47889999999999999999999887654

>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=99.74  E-value=1.2e-17  Score=96.26  Aligned_cols=101  Identities=17%  Similarity=0.189  Sum_probs=75.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ..++......    ...
T Consensus        64 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~  139 (167)
T 1c1y_A           64 FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR----QWC  139 (167)
T ss_dssp             STTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH----HTT
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHH----Hcc
Confidence            3568899999999999999999988887777777666543223579999999999986432  2333322211    012


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++||++|.|++++++++.+.+.
T Consensus       140 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          140 NCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             SCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            458899999999999999999998764

>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=99.74  E-value=3.2e-17  Score=96.88  Aligned_cols=102  Identities=18%  Similarity=0.224  Sum_probs=77.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        87 ~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  160 (193)
T 2oil_A           87 YRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHA-EATIVVMLVGNKSDLSQAREVPTEEARMFA-----ENN  160 (193)
T ss_dssp             TCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECCCcccccccCHHHHHHHH-----HHc
Confidence            45688999999999999999999888877777777765432 2579999999999986432  233332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++++++.+.+.++.
T Consensus       161 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          161 GLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            458899999999999999999999887653

>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=99.74  E-value=2.4e-17  Score=97.16  Aligned_cols=102  Identities=15%  Similarity=0.234  Sum_probs=76.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        84 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  157 (189)
T 2gf9_A           84 YRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYS-WDNAQVILVGNKCDLEDERVVPAEDGRRLA-----DDL  157 (189)
T ss_dssp             SCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             HhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccccccCCCHHHHHHHH-----HHc
Confidence            45678899999999999999999888877777776654432 2478999999999986432  223322221     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++++++.+.+.+++
T Consensus       158 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          158 GFEFFEASAKENINVKQVFERLVDVICEKM  187 (189)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            357899999999999999999999987654

>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=99.74  E-value=3.4e-17  Score=95.31  Aligned_cols=100  Identities=19%  Similarity=0.274  Sum_probs=75.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        77 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  150 (179)
T 1z0f_A           77 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN-PNTVIILIGNKADLEAQRDVTYEEAKQFA-----EEN  150 (179)
T ss_dssp             TCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            356788999999999999999998888777777766544322 47899999999998543  2233333321     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|.|++++++++.+.+.+
T Consensus       151 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          151 GLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            4588999999999999999999987753

>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=99.74  E-value=1.6e-17  Score=95.91  Aligned_cols=99  Identities=17%  Similarity=0.246  Sum_probs=75.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        68 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  141 (170)
T 1r2q_A           68 YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQA-SPNIVIALSGNKADLANKRAVDFQEAQSYA-----DDN  141 (170)
T ss_dssp             GGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCccccccCHHHHHHHH-----HHc
Confidence            35678899999999999999999888888777777765432 257899999999998543  2233333221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++++||++|.|+++++++|.+.+.
T Consensus       142 ~~~~~~~Sa~~g~gi~~l~~~i~~~~~  168 (170)
T 1r2q_A          142 SLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            458899999999999999999988764

>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=99.74  E-value=2.2e-17  Score=96.84  Aligned_cols=101  Identities=22%  Similarity=0.313  Sum_probs=76.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+...  ....+.....     ...+
T Consensus        73 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  146 (186)
T 2bme_A           73 RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS-QNIVIILCGNKKDLDADREVTFLEASRFA-----QENE  146 (186)
T ss_dssp             HHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTT
T ss_pred             HHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHH-----HHcC
Confidence            45788999999999999999998888777777766543322 57899999999998542  2333332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|++++++++.+.+.+++
T Consensus       147 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  175 (186)
T 2bme_A          147 LMFLETSALTGENVEEAFVQCARKILNKI  175 (186)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CEEEEecCCCCCCHHHHHHHHHHHHHHHh
Confidence            58899999999999999999998886543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.74  E-value=9.5e-18  Score=99.86  Aligned_cols=102  Identities=12%  Similarity=0.054  Sum_probs=76.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        85 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  159 (201)
T 3oes_A           85 YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLA-----ESW  159 (201)
T ss_dssp             TCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHH-----HHh
Confidence            3567889999999999999999998888888888877655444578999999999986432  222222211     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||++|.|++++|+++.+.+...
T Consensus       160 ~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  188 (201)
T 3oes_A          160 GATFMESSARENQLTQGIFTKVIQEIARV  188 (201)
T ss_dssp             TCEEEECCTTCHHHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            45789999999999999999999988654

>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=99.74  E-value=1.5e-17  Score=99.30  Aligned_cols=102  Identities=14%  Similarity=0.197  Sum_probs=75.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        88 ~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~-----~~~  161 (201)
T 2ew1_A           88 FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYA-SNKVITVLVGNKIDLAERREVSQQRAEEFS-----EAQ  161 (201)
T ss_dssp             GHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCSSCHHHHHHHH-----HHH
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHH-----HHc
Confidence            35578899999999999999999888877777776654332 246899999999998642  2233332221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|+++++.++.+.+..+.
T Consensus       162 ~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          162 DMYYLETSAKESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            357889999999999999999998886543

>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=99.74  E-value=3.7e-17  Score=97.25  Aligned_cols=100  Identities=15%  Similarity=0.235  Sum_probs=75.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...+
T Consensus        71 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  144 (203)
T 1zbd_A           71 RTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYS-WDNAQVLLVGNKCDMEDERVVSSERGRQLA-----DHLG  144 (203)
T ss_dssp             HHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CSSCEEEEEEECTTCTTSCCSCHHHHHHHH-----HHHT
T ss_pred             cchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccCcccccCHHHHHHHH-----HHCC
Confidence            4578899999999999999999888887777776654332 2478999999999996532  223322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||++|.|+++++++|.+.+..+
T Consensus       145 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  172 (203)
T 1zbd_A          145 FEFFEASAKDNINVKQTFERLVDVICEK  172 (203)
T ss_dssp             CEEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4789999999999999999999887654

>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=99.73  E-value=5.9e-17  Score=95.43  Aligned_cols=97  Identities=9%  Similarity=0.150  Sum_probs=73.4

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC----CCCHHHHHhhhCCCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN----AMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      |++++|++++|+|++++.++.....|+..+.......+.|+++|+||+|+..    ....++......    .....+++
T Consensus        82 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~~~  157 (184)
T 3ihw_A           82 FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLST----DLKRCTYY  157 (184)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHH----HTTTCEEE
T ss_pred             eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHH----HcCCCeEE
Confidence            7889999999999999999988888888776554335789999999999842    223333332211    01125789


Q ss_pred             eeecccCCCHHHHHHHHHHHHHhhc
Q 044598           84 STCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++||++|.|++++|+++.+.+..+.
T Consensus       158 e~Sa~~~~gv~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          158 ETCATYGLNVERVFQDVAQKVVALR  182 (184)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             EecCCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999887653

>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=99.73  E-value=3.1e-17  Score=96.99  Aligned_cols=101  Identities=15%  Similarity=0.199  Sum_probs=76.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC--CCCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN--AMNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+  ....++.....     ...
T Consensus        85 ~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~-----~~~  158 (192)
T 2fg5_A           85 FHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHG-PENIVMAIAGNKCDLSDIREVPLKDAKEYA-----ESI  158 (192)
T ss_dssp             GGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HTT
T ss_pred             hHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            35678899999999999999999888888777777664432 24789999999999864  22334433332     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||++|.|++++++++.+.+...
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          159 GAIVVETSAKNAINIEELFQGISRQIPPL  187 (192)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHTCC--
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            46899999999999999999999877543

>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=99.73  E-value=3.1e-17  Score=95.73  Aligned_cols=101  Identities=13%  Similarity=0.247  Sum_probs=71.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.+|..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        73 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  146 (180)
T 2g6b_A           73 FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLA-----KEY  146 (180)
T ss_dssp             ------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHH-----HHH
T ss_pred             HHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECcccCcccccCHHHHHHHH-----HHc
Confidence            356788899999999999999998888777777766554322 578999999999996532  223322221     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||++|.|++++++++.+.+.++
T Consensus       147 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (180)
T 2g6b_A          147 GLPFMETSAKTGLNVDLAFTAIAKELKRR  175 (180)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHC-
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            34788999999999999999999988653

>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=99.73  E-value=2.7e-17  Score=97.90  Aligned_cols=101  Identities=22%  Similarity=0.293  Sum_probs=76.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++|+|+|++++.++.....|+..+..... .+.|+++|+||+|+.+.  ....+.....     ...+
T Consensus        88 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  161 (200)
T 2o52_A           88 RSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLAS-PNIVVILCGNKKDLDPEREVTFLEASRFA-----QENE  161 (200)
T ss_dssp             SCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTC-TTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTT
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCCcccccccCHHHHHHHH-----HHcC
Confidence            45688899999999999999998888877777776644322 57999999999998543  2233332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|+++++.++.+.+..++
T Consensus       162 ~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  190 (200)
T 2o52_A          162 LMFLETSALTGENVEEAFLKCARTILNKI  190 (200)
T ss_dssp             CEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            58899999999999999999999886543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.73  E-value=1.2e-16  Score=94.57  Aligned_cols=100  Identities=15%  Similarity=0.260  Sum_probs=76.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-CCCHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN-AMNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~   79 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+...   .+.|+++|+||+|... ....+++....     ...+
T Consensus       106 ~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~---~~~piilv~NK~D~~~~~~~~~~~~~~~-----~~~~  177 (208)
T 3clv_A          106 YASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKIS---SNYIIILVANKIDKNKFQVDILEVQKYA-----QDNN  177 (208)
T ss_dssp             CTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH---SCCEEEEEEECTTCC-CCSCHHHHHHHH-----HHTT
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhh---CCCcEEEEEECCCcccccCCHHHHHHHH-----HHcC
Confidence            3567889999999999999999988888777777776543   2499999999999432 22334443332     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|++++++++.+.+.+++
T Consensus       178 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          178 LLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            58999999999999999999999887654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.73  E-value=3.9e-17  Score=93.80  Aligned_cols=101  Identities=16%  Similarity=0.242  Sum_probs=75.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      ++.++..+++.+|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.. ..++.....     ...+
T Consensus        64 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~  138 (166)
T 2ce2_X           64 YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLA-----RSYG  138 (166)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHH-----HHHT
T ss_pred             hhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcccCHHHHHHHH-----HHcC
Confidence            3567888999999999999999988887777777665443222479999999999986532 233322221     1123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++++||++|.|++++++++.+.+.+
T Consensus       139 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X          139 IPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             CCEEEECTTTCTTHHHHHHHHHHHHHT
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            478899999999999999999988754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.73  E-value=6.6e-17  Score=95.65  Aligned_cols=101  Identities=17%  Similarity=0.164  Sum_probs=75.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|..+++++|++|+|+|++++.++.....|+..+... ...+.|+++|+||+|+.+..  ..++......    ....
T Consensus        89 ~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~-~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~----~~~~  163 (192)
T 2il1_A           89 NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKY-ASEDAELLLVGNKLDCETDREITRQQGEKFAQ----QITG  163 (192)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH----TSTT
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-cCCCCcEEEEEECcccccccccCHHHHHHHHH----hcCC
Confidence            457889999999999999999988887776665554332 22479999999999986432  2333322211    0124


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+++++||++|.|++++++++.+.+.++
T Consensus       164 ~~~~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          164 MRFCEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            5889999999999999999999988765

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.73  E-value=2.6e-17  Score=98.03  Aligned_cols=101  Identities=14%  Similarity=0.139  Sum_probs=67.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCC--CCCCeEEEEeeCCCCCC-C--CCHHHHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDE--LRDAVLLVFANKQDLPN-A--MNAAEITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~-~--~~~~~~~~~~~~~~~~   76 (110)
                      +.+|..+++++|++|+|+|++++.++.....|+..+.....  ..+.|+++|+||+|+.+ .  ...++.....     .
T Consensus        87 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~-----~  161 (208)
T 2yc2_C           87 KEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWA-----T  161 (208)
T ss_dssp             HHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHH-----H
T ss_pred             HHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHH-----H
Confidence            45678899999999999999998888888777777654322  24789999999999965 2  2333333322     1


Q ss_pred             CcceEEEeeeccc-CCCHHHHHHHHHHHHHhh
Q 044598           77 QRHWYIQSTCATS-GEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        77 ~~~~~~~~~Sa~~-~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+++++++||++ |.|++++++++.+.+.+.
T Consensus       162 ~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~  193 (208)
T 2yc2_C          162 TNTLDFFDVSANPPGKDADAPFLSIATTFYRN  193 (208)
T ss_dssp             HTTCEEEECCC-------CHHHHHHHHHHHHH
T ss_pred             HcCCEEEEeccCCCCcCHHHHHHHHHHHHHHH
Confidence            2235899999999 999999999999887643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.72  E-value=4.8e-17  Score=94.84  Aligned_cols=100  Identities=19%  Similarity=0.279  Sum_probs=75.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+...  ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  143 (181)
T 3tw8_B           71 FRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQN--CDDVCRILVGNKNDDPERKVVETEDAYKFA-----GQM  143 (181)
T ss_dssp             CSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH--CTTSEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECCCCchhcccCHHHHHHHH-----HHc
Confidence            3567888999999999999999988888877777766543  2479999999999986532  222222211     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.+++++||++|.|++++++++.+.+...
T Consensus       144 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  172 (181)
T 3tw8_B          144 GIQLFETSAKENVNVEEMFNCITELVLRA  172 (181)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            34788999999999999999999987653

>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=99.72  E-value=2.6e-17  Score=97.57  Aligned_cols=100  Identities=17%  Similarity=0.181  Sum_probs=75.7

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..+++.+|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...++
T Consensus        90 ~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~-----~~~~~  164 (196)
T 2atv_A           90 IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLA-----TELAC  164 (196)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHTS
T ss_pred             cchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHH-----HHhCC
Confidence            4688899999999999999998888877777666554322357899999999998653  2233322221     12245


Q ss_pred             EEEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|. |++++++++.+.+.++
T Consensus       165 ~~~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          165 AFYECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             EEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             eEEEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            88999999999 9999999999988754

>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=99.72  E-value=2e-17  Score=95.69  Aligned_cols=99  Identities=19%  Similarity=0.212  Sum_probs=71.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...+
T Consensus        69 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  142 (170)
T 1z08_A           69 HALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYA-----ESVG  142 (170)
T ss_dssp             ----CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTT
T ss_pred             hhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECcccccccccCHHHHHHHH-----HHcC
Confidence            4577889999999999999999888887777766653321 146899999999998643  2333333221     1224


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|.|++++++++.+.+.+
T Consensus       143 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          143 AKHYHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             CEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHHHhh
Confidence            578999999999999999999988754

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.72  E-value=3.5e-17  Score=98.87  Aligned_cols=102  Identities=19%  Similarity=0.257  Sum_probs=74.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..+++++|++|+|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        75 ~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  148 (223)
T 3cpj_B           75 YRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENA-DDNVAVGLIGNKSDLAHLRAVPTEESKTFA-----QEN  148 (223)
T ss_dssp             TTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHC-C--CEEEEEECCGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccccCHHHHHHHH-----HHc
Confidence            45678899999999999999999888888777777665432 247899999999998642  2333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++++++.+.+..+.
T Consensus       149 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  178 (223)
T 3cpj_B          149 QLLFTETSALNSENVDKAFEELINTIYQKV  178 (223)
T ss_dssp             TCEEEECCCC-CCCHHHHHHHHHHHHTTCC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            458899999999999999999999886543

>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=99.72  E-value=1e-17  Score=107.49  Aligned_cols=107  Identities=24%  Similarity=0.389  Sum_probs=81.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND----------RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN-----------   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-----------   59 (110)
                      ||++|.+||++++++|||+|.++          ..++.++..|+..+.......+.|+++++||+|+..           
T Consensus       206 ~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~  285 (353)
T 1cip_A          206 ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTIC  285 (353)
T ss_dssp             GGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGT
T ss_pred             hhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhccccchhhc
Confidence            57899999999999999999998          456888888998888765567899999999999831           


Q ss_pred             ------CCCHHHHHhhh-----CCCcc-cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           60 ------AMNAAEITDKL-----GLHSL-RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        60 ------~~~~~~~~~~~-----~~~~~-~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                            ..+.++.....     .+... ....+.+++|||+++.|+.++|.++.+.+...
T Consensus       286 fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          286 YPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             CTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence                  12333332222     11111 13567899999999999999999999887643

>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=99.72  E-value=8.1e-17  Score=93.04  Aligned_cols=99  Identities=18%  Similarity=0.203  Sum_probs=74.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+... ..+..|+++|+||+|+.+..  ..++.....     ...
T Consensus        68 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~-----~~~  141 (170)
T 1z0j_A           68 FRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQH-GPPSIVVAIAGNKCDLTDVREVMERDAKDYA-----DSI  141 (170)
T ss_dssp             GGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH-SCTTSEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCcEEEEEECCccccccccCHHHHHHHH-----HHc
Confidence            3567888999999999999999988887777776665443 23578999999999986432  233322221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +.+++++||++|.|++++++++.+.+.
T Consensus       142 ~~~~~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          142 HAIFVETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            458899999999999999999988764

>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=99.72  E-value=2.9e-17  Score=97.15  Aligned_cols=100  Identities=13%  Similarity=0.092  Sum_probs=72.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCC----CCHHHHHhhhCCCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNA----MNAAEITDKLGLHSL   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~   75 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+.    ...++.....     
T Consensus        84 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~-----  156 (194)
T 3reg_A           84 YDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY--IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLC-----  156 (194)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CTTSEEEEEEECGGGCCTTTTCCCHHHHHHHH-----
T ss_pred             HHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccCCCCcccHHHHHHHH-----
Confidence            3567889999999999999999998888763 444443322  257999999999998642    2233332221     


Q ss_pred             cCcceE-EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWY-IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~-~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ...+.. ++++||++|.|++++++++.+.+..+
T Consensus       157 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          157 QKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             HhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            111223 88999999999999999999988654

>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=99.72  E-value=2.8e-17  Score=97.71  Aligned_cols=101  Identities=14%  Similarity=0.259  Sum_probs=72.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC--------CCCHHHHHhhhCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN--------AMNAAEITDKLGL   72 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~--------~~~~~~~~~~~~~   72 (110)
                      |+.++..+++++|++|+|+|++++.++.....|+..+... ...+.|+++|+||+|+.+        ....++....   
T Consensus        90 ~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~-~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~---  165 (199)
T 2p5s_A           90 FRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDA-AHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKL---  165 (199)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH-C---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHH---
T ss_pred             hhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHh-cCCCCCEEEEEECcccccccccccccccCHHHHHHH---
Confidence            3567889999999999999999988887777766655332 124689999999999842        1122222211   


Q ss_pred             CcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           73 HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        73 ~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                        ....+++++++||++|.|+++++.++.+.+.++
T Consensus       166 --~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~~~  198 (199)
T 2p5s_A          166 --AMTYGALFCETSAKDGSNIVEAVLHLAREVKKR  198 (199)
T ss_dssp             --HHHHTCEEEECCTTTCTTHHHHHHHHHHHHTC-
T ss_pred             --HHHcCCeEEEeeCCCCCCHHHHHHHHHHHHHhh
Confidence              112345789999999999999999999987643

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.72  E-value=2.2e-17  Score=99.60  Aligned_cols=101  Identities=15%  Similarity=0.177  Sum_probs=77.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      |+.++..+++++|++++|+|++++.++.....|+..+....  .+.|+++|+||+|+.+.....+....     ....+.
T Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~-----~~~~~~  149 (221)
T 3gj0_A           77 FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDIKDRKVKAKSIVF-----HRKKNL  149 (221)
T ss_dssp             TSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS--TTCCEEEEEECTTSSSCSSCGGGCCH-----HHHHTC
T ss_pred             HhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECCccccccccHHHHHH-----HHHcCC
Confidence            45678899999999999999999888887777777765432  47899999999999654322111111     122345


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++||++|.|+++++.++.+.+....
T Consensus       150 ~~~~~Sa~~~~gi~~l~~~l~~~l~~~~  177 (221)
T 3gj0_A          150 QYYDISAKSNYNFEKPFLWLARKLIGDP  177 (221)
T ss_dssp             EEEECBGGGTBTTTHHHHHHHHHHHTCT
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhCc
Confidence            8899999999999999999999886543

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.72  E-value=1.2e-16  Score=94.74  Aligned_cols=100  Identities=16%  Similarity=0.134  Sum_probs=72.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..|++.+|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+...  ...++....     ....+
T Consensus        71 ~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~-----a~~~~  145 (192)
T 2cjw_A           71 EWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAX-----AVVFD  145 (192)
T ss_dssp             CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHH-----HHHTT
T ss_pred             hhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHH-----HHHhC
Confidence            45678889999999999999999888887777665543222247899999999998532  222221111     01123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+++++||++|.|++++|.++.+.+..
T Consensus       146 ~~~~e~SA~~g~~v~~lf~~l~~~~~~  172 (192)
T 2cjw_A          146 XKFIETSAAVQHNVKELFEGIVRQVRL  172 (192)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CceEEeccccCCCHHHHHHHHHHHHHh
Confidence            478899999999999999999988754

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.71  E-value=9.3e-17  Score=93.53  Aligned_cols=102  Identities=14%  Similarity=0.184  Sum_probs=73.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC-CCCCCe-EEEEeeCCCCCCC--CCHHHHHhhhCCCccc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED-ELRDAV-LLVFANKQDLPNA--MNAAEITDKLGLHSLR   76 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~   76 (110)
                      ++.+|..+++++|++++|+|++++.++.....|+..+.... ...+.| +++|+||+|+.+.  ...++.....     .
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~-----~  143 (178)
T 2hxs_A           69 GGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC-----Q  143 (178)
T ss_dssp             TCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHH-----H
T ss_pred             ccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHH-----H
Confidence            45688999999999999999999888877766666553311 011344 8999999998643  2233332221     1


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+++++++||++|.|++++++++.+.+.+.
T Consensus       144 ~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          144 ENGFSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             HHTCEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             HcCCcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            2245789999999999999999999988654

>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=99.71  E-value=3.1e-17  Score=94.62  Aligned_cols=99  Identities=15%  Similarity=0.229  Sum_probs=75.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+....  .+.|+++|+||+|+.+.  ...++.....     ...
T Consensus        67 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  139 (168)
T 1z2a_A           67 FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLA-----KRL  139 (168)
T ss_dssp             TTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHH-----HHH
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccCcccccCHHHHHHHH-----HHc
Confidence            35678899999999999999999888877777776664432  47899999999998642  2333332221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.+++++||++|.|++++++++.+.+.+
T Consensus       140 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          140 KLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             TCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            4588999999999999999999988764

>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=99.71  E-value=1.8e-17  Score=95.41  Aligned_cols=101  Identities=15%  Similarity=0.175  Sum_probs=75.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....++..+.......+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        64 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  138 (167)
T 1kao_A           64 FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALA-----EEW  138 (167)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHH-----HHh
Confidence            3567889999999999999999988888777777766554333579999999999985432  222222211     112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|.|++++++++.+.+.+
T Consensus       139 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          139 GCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             TSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            3478899999999999999999988753

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.71  E-value=1.2e-16  Score=96.01  Aligned_cols=101  Identities=16%  Similarity=0.161  Sum_probs=75.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++|+|+|+++..++.....|+..+.... ..+.|+++|+||+|+.+..  ..+......     ...
T Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  147 (218)
T 4djt_A           74 KAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVV-GNEAPIVVCANKIDIKNRQKISKKLVMEVL-----KGK  147 (218)
T ss_dssp             TSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSSSCEEEEEECTTCC----CCHHHHHHHT-----TTC
T ss_pred             hchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHH-----HHc
Confidence            35678889999999999999999888877776666554332 1358999999999986542  233332221     234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++++||++|.|+++++.++.+.+...
T Consensus       148 ~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~  176 (218)
T 4djt_A          148 NYEYFEISAKTAHNFGLPFLHLARIFTGR  176 (218)
T ss_dssp             CCEEEEEBTTTTBTTTHHHHHHHHHHHCC
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHHHHhcc
Confidence            56899999999999999999999988654

>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=99.71  E-value=1.1e-16  Score=94.54  Aligned_cols=98  Identities=10%  Similarity=0.044  Sum_probs=71.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~   65 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+..              ..++
T Consensus        79 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  156 (194)
T 2atx_A           79 YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY--APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQ  156 (194)
T ss_dssp             STTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHH
T ss_pred             hhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhcccccchhhcccccCcccCHHH
Confidence            4567889999999999999999988888776 455554432  2478999999999996531              1122


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .....     ...+. +++++||++|.|++++++++.+.+.
T Consensus       157 ~~~~~-----~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          157 GQKLA-----KEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             HHHHH-----HHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHH-----HHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            11110     01122 6889999999999999999998775

>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=99.71  E-value=5.5e-17  Score=97.05  Aligned_cols=100  Identities=19%  Similarity=0.267  Sum_probs=74.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   80 (110)
                      +.+|..+++++|++++|+|++++.++.....|+..+..... .+.|+++|+||+|+.... ..++.....     ...++
T Consensus        83 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~  156 (213)
T 3cph_A           83 RTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHAN-DEAQLLLVGNKSDMETRVVTADQGEALA-----KELGI  156 (213)
T ss_dssp             TCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTT-TCSEEEEEEECTTCSSCCSCHHHHHHHH-----HHHTC
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCCCcccccCHHHHHHHH-----HHcCC
Confidence            45788899999999999999998888777777766544322 468999999999994332 222222211     11234


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|+++++.++.+.+.++
T Consensus       157 ~~~~~Sa~~~~gi~~l~~~l~~~~~~~  183 (213)
T 3cph_A          157 PFIESSAKNDDNVNEIFFTLAKLIQEK  183 (213)
T ss_dssp             CEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            688999999999999999999988654

>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=99.71  E-value=3.1e-17  Score=98.70  Aligned_cols=100  Identities=13%  Similarity=0.079  Sum_probs=74.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHH-HHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVE-ARDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.++..|++++|++|+|+|++++.++.. ...|+..+...  ..+.|+++|+||+|+.+.              ...++
T Consensus        88 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  165 (214)
T 3q3j_B           88 YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY--CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQ  165 (214)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHH--CTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHH
T ss_pred             HHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccchhhhhhhcccccCccCHHH
Confidence            45688999999999999999999888887 45666655433  257999999999998642              22222


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCCC-HHHHHHHHHHHHHhh
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGEG-LYEGLDWLSNNIANK  107 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-i~~l~~~l~~~~~~~  107 (110)
                      .....     ...++ +++++||++|.| ++++|+++.+.+..+
T Consensus       166 ~~~~~-----~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          166 GCAIA-----KQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             HHHHH-----HHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHH-----HHcCCCEEEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            22211     12244 789999999998 999999999988654

>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=99.71  E-value=1.2e-16  Score=93.03  Aligned_cols=102  Identities=10%  Similarity=0.165  Sum_probs=75.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC---CCCCCCeEEEEeeCCCCCCC-CCHHHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE---DELRDAVLLVFANKQDLPNA-MNAAEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~---~~~~~~~~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~~~   77 (110)
                      +.++..+++++|++++|+|++++.++.....|+..+...   ....+.|+++|+||+|+... ...++......    ..
T Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~----~~  145 (177)
T 1wms_A           70 RSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DN  145 (177)
T ss_dssp             HHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HT
T ss_pred             hhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccccCHHHHHHHHH----hc
Confidence            457888999999999999999988877766666655432   11256899999999998632 23334333221    02


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ...+++++||++|.|++++++++.+.+.++
T Consensus       146 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (177)
T 1wms_A          146 GDYPYFETSAKDATNVAAAFEEAVRRVLAT  175 (177)
T ss_dssp             TCCCEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            345789999999999999999999988653

>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=99.71  E-value=9e-17  Score=93.74  Aligned_cols=103  Identities=9%  Similarity=0.121  Sum_probs=71.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC---CCCCCeEEEEeeCCCCCCC---CCHHHHHhhhCCCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED---ELRDAVLLVFANKQDLPNA---MNAAEITDKLGLHS   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~~~~iiv~nK~Dl~~~---~~~~~~~~~~~~~~   74 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+....   ...+.|+++|+||+|+...   ...++......   
T Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~---  147 (182)
T 1ky3_A           71 FQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK---  147 (182)
T ss_dssp             ------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH---
T ss_pred             hhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHH---
Confidence            35678889999999999999999888877777766654321   2257899999999998532   12333322211   


Q ss_pred             ccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           75 LRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        75 ~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       .....+++++||++|.|++++++++.+.+.++
T Consensus       148 -~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          148 -SLGDIPLFLTSAKNAINVDTAFEEIARSALQQ  179 (182)
T ss_dssp             -HTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             -hcCCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence             02345788999999999999999999988755

>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=99.70  E-value=3e-17  Score=105.64  Aligned_cols=106  Identities=22%  Similarity=0.363  Sum_probs=77.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND----------RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN-----------   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-----------   59 (110)
                      +|++|.+|+++++++|||+|.++          ..++.++..++..+.......+.|+++++||+|+..           
T Consensus       214 ~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~  293 (362)
T 1zcb_A          214 ERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDY  293 (362)
T ss_dssp             ----CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGT
T ss_pred             hhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhc
Confidence            57899999999999999999998          668888888998887765557899999999999841           


Q ss_pred             ------C-CCHHHHHhhh-----CCCccc-CcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           60 ------A-MNAAEITDKL-----GLHSLR-QRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        60 ------~-~~~~~~~~~~-----~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                            . .+.++....+     .+.... .+++.+++|||++++|++++|.++.+.+..
T Consensus       294 fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~  353 (362)
T 1zcb_A          294 FLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH  353 (362)
T ss_dssp             CTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             CccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHH
Confidence                  1 2333333221     221111 346788999999999999999999888754

>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=99.70  E-value=1.2e-16  Score=94.10  Aligned_cols=101  Identities=15%  Similarity=0.240  Sum_probs=69.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   80 (110)
                      +.++..+++.+|++++|+|++++.++.....|+..+.......+.|+++|+||+|+.+.. ..++.....     ...++
T Consensus        83 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~  157 (190)
T 3con_A           83 SAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELA-----KSYGI  157 (190)
T ss_dssp             -------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHH-----HHHTC
T ss_pred             HHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcccCCHHHHHHHH-----HHcCC
Confidence            567888999999999999999988887777666655433222478999999999986532 333333221     11234


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++||++|.|++++++++.+.+.+.
T Consensus       158 ~~~~~Sa~~~~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          158 PFIETSAKTRQGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            688999999999999999999988654

>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=99.70  E-value=6.6e-16  Score=90.02  Aligned_cols=97  Identities=11%  Similarity=0.120  Sum_probs=69.8

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHH---HHHhcCCCCCCCeEEEEeeCCCCCC----CCCHHHHHhhhCCCcccCc
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDEL---HRMLNEDELRDAVLLVFANKQDLPN----AMNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~---~~~~~~~~~~~~~~iiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~   78 (110)
                      ..|++++|++++|+|++++.++.....|+   ...... ...+.|+++|+||+|+.+    ....++......    ...
T Consensus        67 ~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~----~~~  141 (178)
T 2iwr_A           67 AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGE-GRGGLALALVGTQDRISASSPRVVGDARARALXA----DMK  141 (178)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCS-SSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHH----HHS
T ss_pred             hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEECccccccccCcCCHHHHHHHHH----hhc
Confidence            46789999999999999998888877654   333222 225789999999999832    223333332211    012


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..+++++||++|.|++++|+++.+.+.+.
T Consensus       142 ~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  170 (178)
T 2iwr_A          142 RCSYYETXATYGLNVDRVFQEVAQKVVTL  170 (178)
T ss_dssp             SEEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeccccCCHHHHHHHHHHHHHHH
Confidence            46899999999999999999999887653

>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=99.70  E-value=5.8e-17  Score=95.51  Aligned_cols=99  Identities=15%  Similarity=0.168  Sum_probs=71.8

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..|++++|++|+|+|++++.++.....|+..+.......+.|+++|+||+|+.+..  ..++.....     ...++
T Consensus        85 ~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~  159 (189)
T 1z06_A           85 SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFA-----DTHSM  159 (189)
T ss_dssp             TTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHTTC
T ss_pred             hhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHH-----HHcCC
Confidence            57889999999999999999988888777777776554333579999999999985432  233322221     12234


Q ss_pred             EEEeeecccC---CCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSG---EGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~---~~i~~l~~~l~~~~~~  106 (110)
                      +++++||+++   .|+++++.+|.+.+.+
T Consensus       160 ~~~~~Sa~~~~~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          160 PLFETSAKNPNDNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             CEEECCSSSGGGGSCHHHHHHHHC-----
T ss_pred             EEEEEeCCcCCcccCHHHHHHHHHHHHhh
Confidence            7889999999   9999999999887643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.70  E-value=7e-18  Score=100.31  Aligned_cols=103  Identities=17%  Similarity=0.236  Sum_probs=68.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+...  .++....     ....
T Consensus        95 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~-----~~~~  168 (199)
T 3l0i_B           95 FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTTKKVVDYTTAKEF-----ADSL  168 (199)
T ss_dssp             CCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC--CCSEEEEC-CCSSCC--CCCCSCC-CHH-----HHTT
T ss_pred             HHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-cCCCCEEEEEECccCCccccCCHHHHHHH-----HHHc
Confidence            35677889999999999999999888888877777765432 24799999999999864321  1111111     1122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhcC
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKVG  109 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  109 (110)
                      +.+++++||++|.|+++++++|.+.+.+++|
T Consensus       169 ~~~~~~vSA~~g~gv~~l~~~l~~~l~~~~g  199 (199)
T 3l0i_B          169 GIPFLETSAKNATNVEQSFMTMAAEIKKRMG  199 (199)
T ss_dssp             TCCBCCCCC---HHHHHHHHHHTTTTTTTC-
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcC
Confidence            3467899999999999999999998887764

>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=99.70  E-value=9.2e-17  Score=95.68  Aligned_cols=102  Identities=13%  Similarity=0.134  Sum_probs=74.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC---CCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED---ELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~   77 (110)
                      +.++..+++++|++|+|+|++++.++.....|+..+....   ...+.|+++|+||+|+.... ..++......    ..
T Consensus        71 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~----~~  146 (207)
T 1vg8_A           71 QSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCY----SK  146 (207)
T ss_dssp             SCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHH----HT
T ss_pred             HHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccCHHHHHHHHH----hc
Confidence            4577889999999999999999888877766666554321   12468999999999996432 2333332211    12


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ...+++++||++|.|++++++++.+.+..+
T Consensus       147 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  176 (207)
T 1vg8_A          147 NNIPYFETSAKEAINVEQAFQTIARNALKQ  176 (207)
T ss_dssp             TSCCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            345789999999999999999999887643

>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=99.70  E-value=6.3e-17  Score=94.19  Aligned_cols=100  Identities=16%  Similarity=0.252  Sum_probs=74.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        76 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~  149 (179)
T 2y8e_A           76 FRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTER-GSDVIIMLVGNKTDLSDKRQVSTEEGERKA-----KEL  149 (179)
T ss_dssp             GGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHH-TTSSEEEEEEECGGGGGGCCSCHHHHHHHH-----HHH
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCcccccCcCCHHHHHHHH-----HHc
Confidence            35678899999999999999999888877777776664432 2478999999999985432  223322221     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.+++++||++|.|++++++++.+.+.+
T Consensus       150 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          150 NVMFIETSAKAGYNVKQLFRRVAAALPG  177 (179)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHTCC-
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            4588999999999999999999987654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.70  E-value=1.8e-16  Score=94.21  Aligned_cols=100  Identities=10%  Similarity=0.019  Sum_probs=73.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.+|..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+.              ...++
T Consensus        81 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  158 (201)
T 2q3h_A           81 FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH--CPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEA  158 (201)
T ss_dssp             CSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHH
T ss_pred             HHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHH
Confidence            4567889999999999999999988888775 465554432  147999999999998542              11222


Q ss_pred             HHhhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           66 ITDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        66 ~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .....     ...+ .+++++||++|.|++++++++.+.+.+.
T Consensus       159 ~~~~~-----~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          159 AKLLA-----EEIKAASYIECSALTQKNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             HHHHH-----HHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHH-----HhcCCcEEEEEecCCCCCHHHHHHHHHHHHhcc
Confidence            11111     1112 3789999999999999999999887643

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.69  E-value=2.2e-16  Score=94.02  Aligned_cols=98  Identities=13%  Similarity=0.105  Sum_probs=69.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--------------HHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN--------------AAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--------------~~~   65 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+...              .++
T Consensus        86 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  163 (201)
T 2gco_A           86 YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF--CPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEE  163 (201)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHH
T ss_pred             HHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHH
Confidence            3567888999999999999999988887774 444433222  24789999999999965421              111


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ....     ....+. +++++||++|.|++++++++.+.+.
T Consensus       164 ~~~~-----~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          164 GRDM-----ANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             HHHH-----HHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHH-----HHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            1111     011122 7899999999999999999998764

>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=99.69  E-value=1.8e-17  Score=102.19  Aligned_cols=91  Identities=12%  Similarity=0.060  Sum_probs=64.5

Q ss_pred             cCCEEEEEEECCCh--hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598           11 NTQGLIFVVDSNDR--DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus        11 ~~~~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      +||++|+|+|++++  .+++....|+..+.......+.|+++|+||+|+......++......    ....++++++||+
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~----~~~~~~~~e~SAk  237 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFAL----SKKNLQVVETSAR  237 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHHHHHHHHHH----TSSSCCEEECBTT
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHHHHHHHHHH----hcCCCeEEEEECC
Confidence            79999999999987  78888777777665431124689999999999854321222222110    1124578999999


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 044598           89 SGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~~  105 (110)
                      +|.|++++|+++.+.+.
T Consensus       238 ~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          238 SNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             TTBSHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHhc
Confidence            99999999999998764

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.68  E-value=1.8e-16  Score=95.27  Aligned_cols=100  Identities=9%  Similarity=0.023  Sum_probs=64.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--------------HHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMN--------------AAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--------------~~~   65 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.....              .++
T Consensus        95 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  172 (214)
T 2j1l_A           95 YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF--CKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHR  172 (214)
T ss_dssp             ----------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHH--CSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHH
T ss_pred             hhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhhccchhhhhhcccccCcccHHH
Confidence            3567888999999999999999988888775 455544322  24789999999999865321              111


Q ss_pred             HHhhhCCCcccCcce-EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           66 ITDKLGLHSLRQRHW-YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        66 ~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .....     ...+. +++++||++|.|++++++++.+.+.+.
T Consensus       173 ~~~~~-----~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          173 GQEMA-----RSVGAVAYLECSARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             HHHHH-----HHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC
T ss_pred             HHHHH-----HhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            11110     11233 789999999999999999999988654

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.68  E-value=1e-16  Score=93.70  Aligned_cols=98  Identities=8%  Similarity=0.014  Sum_probs=71.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC------------CHHHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM------------NAAEIT   67 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~------------~~~~~~   67 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+..            ..++..
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~  146 (182)
T 3bwd_D           69 YNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY--APGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGE  146 (182)
T ss_dssp             TTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CTTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHH
T ss_pred             hhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEechhhhcCcccccccccCCCCCHHHHH
Confidence            4567889999999999999999988887776 455444322  1478999999999985432            111111


Q ss_pred             hhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           68 DKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        68 ~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...     ...+ .+++++||++|.|++++++++.+.+.
T Consensus       147 ~~~-----~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          147 ELK-----KLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHH-----HHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHH-----HHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            110     1122 37899999999999999999998764

>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=99.67  E-value=1.3e-16  Score=94.49  Aligned_cols=101  Identities=13%  Similarity=0.110  Sum_probs=72.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC-CCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED-ELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|++++.++.....++..+.... ...+.|+++|+||+|+.+.. ..++.....     ...
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~  143 (199)
T 2gf0_A           69 FPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAVA-----QEW  143 (199)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCHHHHHHHH-----HHh
Confidence            35678899999999999999999888776665554433211 12468999999999996532 222222211     122


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++++||++|.|++++++++.+.+..
T Consensus       144 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          144 KCAFMETSAKMNYNVKELFQELLTLETR  171 (199)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHCSS
T ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            3578999999999999999999987754

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.67  E-value=8.9e-17  Score=96.25  Aligned_cols=100  Identities=6%  Similarity=0.016  Sum_probs=71.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----------CHHHHHhh
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM----------NAAEITDK   69 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----------~~~~~~~~   69 (110)
                      |+.+|..+++++|++|+|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+..          ..++....
T Consensus        70 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~  147 (212)
T 2j0v_A           70 YSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF--APNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEEL  147 (212)
T ss_dssp             CCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CTTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHH
T ss_pred             HHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHH
Confidence            4568889999999999999999988888775 455554332  1478999999999985431          12222111


Q ss_pred             hCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           70 LGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        70 ~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .     ...+ .+++++||++|.|++++++++.+.+...
T Consensus       148 ~-----~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          148 R-----KQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             H-----HHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             H-----HHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            1     1112 3789999999999999999999887643

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=5e-16  Score=92.80  Aligned_cols=105  Identities=12%  Similarity=0.144  Sum_probs=71.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc-----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS-----   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----   74 (110)
                      ++.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+.....+.........     
T Consensus        86 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  163 (207)
T 2fv8_A           86 YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHF--CPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDD  163 (207)
T ss_dssp             CTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHH
T ss_pred             HHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHH
Confidence            3567888999999999999999988887773 444443322  24789999999999864321111000000000     


Q ss_pred             ----ccCcc-eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           75 ----LRQRH-WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        75 ----~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                          ....+ .+++++||++|.|++++++++.+.+.+.
T Consensus       164 ~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          164 GRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             HHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHSC
T ss_pred             HHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence                00112 2789999999999999999999987643

>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=99.67  E-value=1.1e-16  Score=95.62  Aligned_cols=102  Identities=12%  Similarity=0.079  Sum_probs=70.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc-----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS-----   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----   74 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+... . .+.|+++|+||+|+.+.....+.........     
T Consensus        91 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  168 (204)
T 4gzl_A           91 YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-C-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ  168 (204)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-C-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHH
T ss_pred             hHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-C-CCCCEEEEEechhhccchhhhhhhhccccccccHHH
Confidence            3567888999999999999999998888776 454444322 1 5799999999999865321111111000000     


Q ss_pred             ----cc-CcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           75 ----LR-QRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        75 ----~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                          .. ....+++++||++|.|++++++++.+.+
T Consensus       169 ~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          169 GLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             HHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence                00 1123689999999999999999998764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.66  E-value=3.2e-16  Score=91.78  Aligned_cols=98  Identities=10%  Similarity=0.031  Sum_probs=71.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHHH
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAEI   66 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~~   66 (110)
                      +.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+..              ..++.
T Consensus        67 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  144 (186)
T 1mh1_A           67 DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG  144 (186)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHH
T ss_pred             HHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHh--CCCCCEEEEeEcccccccchhhhhhcccccccCCHHHH
Confidence            567888999999999999999988887776 455444332  1378999999999985431              11111


Q ss_pred             HhhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           67 TDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        67 ~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ...     ....+ .+++++||++|.|++++++++.+.+..
T Consensus       145 ~~~-----~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          145 LAM-----AKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             HHH-----HHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             HHH-----HHhcCCcEEEEecCCCccCHHHHHHHHHHHHhc
Confidence            111     01122 388999999999999999999988754

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.66  E-value=2.3e-16  Score=92.62  Aligned_cols=99  Identities=9%  Similarity=0.062  Sum_probs=71.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.++..+++++|++++|+|++++.++... ..|+..+...  ..+.|+++|+||+|+.+.              ...++
T Consensus        68 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  145 (184)
T 1m7b_A           68 YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQ  145 (184)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHH
T ss_pred             hhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHH--CCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHH
Confidence            356788899999999999999998888777 4455444322  247999999999998632              12222


Q ss_pred             HHhhhCCCcccCc-ceEEEeeecc-cCCCHHHHHHHHHHHHHh
Q 044598           66 ITDKLGLHSLRQR-HWYIQSTCAT-SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        66 ~~~~~~~~~~~~~-~~~~~~~Sa~-~~~~i~~l~~~l~~~~~~  106 (110)
                      .....     ... ..+++++||+ ++.|++++|+++.+.+.+
T Consensus       146 ~~~~~-----~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          146 GANMA-----KQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             HHHHH-----HHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHH-----HHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            22111     011 2478999998 689999999999988764

>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=99.66  E-value=3.1e-16  Score=92.46  Aligned_cols=96  Identities=14%  Similarity=0.095  Sum_probs=72.0

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCC--CCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED--ELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~--~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ..|++++|++++|+|.+++.++.....|+..+....  ...+.|+++|+||+|+.+.  ...++.....     ...+++
T Consensus        86 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~  160 (187)
T 3c5c_A           86 ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALA-----GRFGCL  160 (187)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHH-----HHHTCE
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHH-----HHcCCc
Confidence            568999999999999999988888877777665431  1147899999999998543  2333332221     122357


Q ss_pred             EEeeec-ccCCCHHHHHHHHHHHHHh
Q 044598           82 IQSTCA-TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        82 ~~~~Sa-~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++|| ++|.|++++|+++.+.+.+
T Consensus       161 ~~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          161 FFEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             EEECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             EEEEeecCccccHHHHHHHHHHHHhh
Confidence            899999 8999999999999988754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.66  E-value=1.5e-16  Score=91.98  Aligned_cols=101  Identities=15%  Similarity=0.143  Sum_probs=72.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~   77 (110)
                      ++.++..+++++|++++|+|++++.++.....++..+... ....+.|+++|+||+|+.+..  ...+.....     ..
T Consensus        64 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~-----~~  138 (172)
T 2erx_A           64 FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALA-----RT  138 (172)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHH-----HH
T ss_pred             hHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHH-----HH
Confidence            3567888999999999999999988777666666554332 122478999999999985432  222222111     12


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+.+++++||++|.|++++++++.+.+.+
T Consensus       139 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A          139 WKCAFMETSAKLNHNVKELFQELLNLEKR  167 (172)
T ss_dssp             HTCEEEECBTTTTBSHHHHHHHHHHTCCS
T ss_pred             hCCeEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            24578999999999999999999987754

>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=99.66  E-value=2.2e-16  Score=100.26  Aligned_cols=107  Identities=21%  Similarity=0.380  Sum_probs=80.5

Q ss_pred             CcchHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSN----------DRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN-----------   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-----------   59 (110)
                      ||++|.+||++++++|+|+|.+          +.+++.++..++..+.......+.|+++++||+|+.+           
T Consensus       180 ~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~  259 (327)
T 3ohm_A          180 ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDY  259 (327)
T ss_dssp             HHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGT
T ss_pred             HHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhh
Confidence            4789999999999999999654          5567888888999888776667899999999999832           


Q ss_pred             -------CCCHHHHHhh----h-CCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           60 -------AMNAAEITDK----L-GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        60 -------~~~~~~~~~~----~-~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                             ..+.++....    + .......+++.+++|||+++.||+.+|..+.+.+.+.
T Consensus       260 fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          260 FPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             CTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             chhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence                   1122222222    1 1211224567888999999999999999999988643

>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=99.65  E-value=2.2e-15  Score=90.25  Aligned_cols=100  Identities=23%  Similarity=0.304  Sum_probs=66.1

Q ss_pred             hHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHhcC--CCCCCCeEEEEeeCCCCCCCCCHHHHHhhh----C-----
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNE--DELRDAVLLVFANKQDLPNAMNAAEITDKL----G-----   71 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~--~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~----~-----   71 (110)
                      ++..|++++|++++|+|+++.. ++.....++...+..  ....+.|+++|+||+|+.+....+.....+    .     
T Consensus        71 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~  150 (214)
T 2fh5_B           71 LLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVT  150 (214)
T ss_dssp             HHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhcc
Confidence            7888999999999999998743 344444555544322  112468999999999997654432221111    0     


Q ss_pred             ----------------C-C----ccc----CcceEEEeeecccC------CCHHHHHHHHHHH
Q 044598           72 ----------------L-H----SLR----QRHWYIQSTCATSG------EGLYEGLDWLSNN  103 (110)
Q Consensus        72 ----------------~-~----~~~----~~~~~~~~~Sa~~~------~~i~~l~~~l~~~  103 (110)
                                      . .    .+.    +...++++|||++|      .|++++|++|.+.
T Consensus       151 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          151 RSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             CC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             chhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                            0 0    000    11678999999999      9999999999875

>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=99.64  E-value=8.7e-17  Score=103.21  Aligned_cols=106  Identities=16%  Similarity=0.292  Sum_probs=77.3

Q ss_pred             CcchHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----CC----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSN----------DRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----MN----   62 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----~~----   62 (110)
                      ||++|.+||++++++|+|+|.+          +..++.++..|+..+.......+.|+++|+||+|+...    .+    
T Consensus       196 ~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~  275 (354)
T 2xtz_A          196 ERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVC  275 (354)
T ss_dssp             GGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGS
T ss_pred             hhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchhhhhccccccccc
Confidence            5789999999999999999987          66788888889988876655568999999999997321    00    


Q ss_pred             ---------------HHHHHhhhCC-----------CcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           63 ---------------AAEITDKLGL-----------HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        63 ---------------~~~~~~~~~~-----------~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                                     .++.......           .......+.+++|||++++||+++|.++.+.+..
T Consensus       276 ~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~~I~~  345 (354)
T 2xtz_A          276 EWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDETLRR  345 (354)
T ss_dssp             GGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHHHHHHH
Confidence                           1111111000           0000234567899999999999999999887754

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.64  E-value=5.2e-16  Score=92.84  Aligned_cols=99  Identities=9%  Similarity=0.062  Sum_probs=71.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--------------CCHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDELRDAVLLVFANKQDLPNA--------------MNAAE   65 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--------------~~~~~   65 (110)
                      |+.++..+++++|++|+|+|++++.++... ..|+..+...  ..+.|+++|+||+|+.+.              ...++
T Consensus        89 ~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  166 (205)
T 1gwn_A           89 YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQ  166 (205)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH--CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHH
T ss_pred             hhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH--CCCCCEEEEEechhhccchhhhhhhcccccCCCCHHH
Confidence            356788899999999999999998888777 4555544332  247999999999998632              12222


Q ss_pred             HHhhhCCCcccCc-ceEEEeeecc-cCCCHHHHHHHHHHHHHh
Q 044598           66 ITDKLGLHSLRQR-HWYIQSTCAT-SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        66 ~~~~~~~~~~~~~-~~~~~~~Sa~-~~~~i~~l~~~l~~~~~~  106 (110)
                      .....     ... ..+++++||+ ++.|++++|+++.+.+.+
T Consensus       167 ~~~~~-----~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          167 GANMA-----KQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             HHHHH-----HHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-----HHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            21111     011 2478999999 689999999999988765

>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=99.64  E-value=2.3e-16  Score=99.37  Aligned_cols=96  Identities=18%  Similarity=0.158  Sum_probs=68.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   79 (110)
                      |+.+|+.|++++|++|+|+|++++. ++.....|+..+..    .++|+++|+||+|+.+....++.......  .... 
T Consensus        74 ~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~----~~~piilv~NK~DL~~~~~v~~~~~~~~~--~~~~-  146 (301)
T 1u0l_A           74 KNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK----NELETVMVINKMDLYDEDDLRKVRELEEI--YSGL-  146 (301)
T ss_dssp             SCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHH--HTTT-
T ss_pred             cceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH----CCCCEEEEEeHHHcCCchhHHHHHHHHHH--Hhhh-
Confidence            5678999999999999999999876 56666667665432    47899999999999643211112211110  1112 


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      ++++++||++|.|++++|..+...
T Consensus       147 ~~~~~~SAktg~gv~~lf~~l~ge  170 (301)
T 1u0l_A          147 YPIVKTSAKTGMGIEELKEYLKGK  170 (301)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHSSS
T ss_pred             CcEEEEECCCCcCHHHHHHHhcCC
Confidence            578999999999999999887543

>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=99.62  E-value=4.1e-16  Score=101.35  Aligned_cols=106  Identities=25%  Similarity=0.344  Sum_probs=78.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC-----C-C--
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND----------RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-----M-N--   62 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-----~-~--   62 (110)
                      ||++|.+||++++++|+|+|.++          ..++.++..|+..+.......+.|+++|+||+|+...     . +  
T Consensus       230 ~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~  309 (402)
T 1azs_C          230 ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIE  309 (402)
T ss_dssp             GGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHHHHHHHHCSSCGG
T ss_pred             hhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhhhhhhcccccchh
Confidence            57899999999999999999998          7789999999998877655568999999999997321     0 0  


Q ss_pred             ------------------------HHHHHhh----h-CC---CcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           63 ------------------------AAEITDK----L-GL---HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        63 ------------------------~~~~~~~----~-~~---~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                                              .++....    + ..   .......+.+++|||+++.||+++|.++.+.+..
T Consensus       310 ~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF~~v~~~I~~  385 (402)
T 1azs_C          310 DYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  385 (402)
T ss_dssp             GTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             hccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHHHHHHHHHHH
Confidence                                    1111111    0 00   0001135678899999999999999998887754

>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=99.62  E-value=8.2e-16  Score=91.19  Aligned_cols=96  Identities=20%  Similarity=0.283  Sum_probs=66.1

Q ss_pred             HHhcccCCEEEEEEECCCh--hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHH----hhhCCCcc
Q 044598            6 RHYFQNTQGLIFVVDSNDR--DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEIT----DKLGLHSL   75 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~----~~~~~~~~   75 (110)
                      ..|++++|++|+|+|+++.  +++.....|+......  ..+.|+++|+||+|+.+...    ...+.    ..+.....
T Consensus        90 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~  167 (196)
T 3llu_A           90 EMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV--NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGL  167 (196)
T ss_dssp             HHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhc--CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhh
Confidence            7899999999999999985  4555555666654322  25799999999999854210    11111    11110001


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ...+.+++++||++ .|++++|+.+.+.+
T Consensus       168 ~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          168 EKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             TTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             hcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            14567899999999 99999999998865

>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=99.58  E-value=2e-15  Score=96.29  Aligned_cols=106  Identities=24%  Similarity=0.329  Sum_probs=79.0

Q ss_pred             CcchHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSN----------DRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----------   60 (110)
                      ||++|.+||++++++|+|+|.+          +..++.++..|+..+.......+.|+++++||+|+...          
T Consensus       174 ~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~~l~~~  253 (340)
T 4fid_A          174 ERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKVPLNTI  253 (340)
T ss_dssp             HHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHSCGGGT
T ss_pred             ccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcchHHHh
Confidence            4789999999999999999998          56778888889988887766678999999999998321          


Q ss_pred             -------CCHHHHH----hhh-------CCCcccC-----------cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           61 -------MNAAEIT----DKL-------GLHSLRQ-----------RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        61 -------~~~~~~~----~~~-------~~~~~~~-----------~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                             .+.++..    ..+       .+.....           +.+.++++||+++.|+..+|..+.+.+..
T Consensus       254 fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          254 FPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             CTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence                   1122221    111       1100111           45788999999999999999999888754

>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=99.58  E-value=1.1e-14  Score=92.17  Aligned_cols=98  Identities=10%  Similarity=0.037  Sum_probs=70.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHHH
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAEI   66 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~~   66 (110)
                      +.++..+++++|++++|+|++++.++.... .|+..+....  .+.|+++|+||+|+.+..              ..++.
T Consensus       217 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  294 (332)
T 2wkq_A          217 DRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG  294 (332)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHH
T ss_pred             hHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhC--CCCcEEEEEEchhcccccchhhhccccccccccHHHH
Confidence            467888999999999999999988887765 3444443221  379999999999985431              11111


Q ss_pred             HhhhCCCcccCcc-eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           67 TDKLGLHSLRQRH-WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        67 ~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ....     ...+ .+++++||++|.|++++++++.+.+..
T Consensus       295 ~~~~-----~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          295 LAMA-----KEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             HHHH-----HHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHH-----HHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            1110     1122 378999999999999999999988754

>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=99.36  E-value=1.4e-16  Score=94.90  Aligned_cols=102  Identities=14%  Similarity=0.108  Sum_probs=68.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH---------HHHhhh
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAA---------EITDKL   70 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~---------~~~~~~   70 (110)
                      |+.++..+++++|++++|+|++++.++.... .|+..+...  ..+.|+++|+||+|+.+.....         .+....
T Consensus        91 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~--~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~  168 (204)
T 3th5_A           91 YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ  168 (204)
Confidence            3467788999999999999999888777765 444433221  1378999999999996432110         000000


Q ss_pred             CCCcccCcce-EEEeeecccCCCHHHHHHHHHHHH
Q 044598           71 GLHSLRQRHW-YIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        71 ~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ........+. +++++||++|.|++++++++.+.+
T Consensus       169 ~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          169 GLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            0000112233 788999999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.57  E-value=2.9e-14  Score=82.87  Aligned_cols=100  Identities=19%  Similarity=0.152  Sum_probs=66.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc-cc-C-
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS-LR-Q-   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~-~-   77 (110)
                      |+.++..+++.+|++++|+|++++.... ....+.... .   .+.|+++|+||+|+.+. ..+++...+.... .. . 
T Consensus        68 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~-~~~~l~~~~-~---~~~p~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~  141 (178)
T 2lkc_A           68 FTTMRARGAQVTDIVILVVAADDGVMPQ-TVEAINHAK-A---ANVPIIVAINKMDKPEA-NPDRVMQELMEYNLVPEEW  141 (178)
T ss_dssp             SSCSCCSSCCCCCEEEEEEETTCCCCHH-HHHHHHHHG-G---GSCCEEEEEETTTSSCS-CHHHHHHHHTTTTCCBTTT
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHH-h---CCCCEEEEEECccCCcC-CHHHHHHHHHhcCcChhHc
Confidence            3456777899999999999988732221 222333322 1   46899999999999764 2233333222111 11 1 


Q ss_pred             -cceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           78 -RHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        78 -~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                       ...+++++||++|.|++++++++.+.+..
T Consensus       142 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  171 (178)
T 2lkc_A          142 GGDTIFCKLSAKTKEGLDHLLEMILLVSEM  171 (178)
T ss_dssp             TSSEEEEECCSSSSHHHHHHHHHHHHHHHH
T ss_pred             CCcccEEEEecCCCCCHHHHHHHHHHhhhh
Confidence             23689999999999999999999988754

>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=99.56  E-value=1.5e-15  Score=89.20  Aligned_cols=104  Identities=13%  Similarity=0.049  Sum_probs=71.1

Q ss_pred             cchHHHhcccCCEEEEEEECCCh-hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH----HHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDR-DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA----EITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~----~~~~~~~~~~~~   76 (110)
                      +.+++.|+++++++++|+|.+++ .++.....|+..+....  .+.|+++|+||+|+.+.....    +....+....-.
T Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  147 (184)
T 2zej_A           70 YSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA--SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGF  147 (184)
T ss_dssp             HTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHC--TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTS
T ss_pred             HHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhC--CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCC
Confidence            45778899999999999999876 46777777777664331  478999999999986432111    111222110000


Q ss_pred             CcceEEEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           77 QRHWYIQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      ....+++++||+++. |++++++.+.+.+.+.
T Consensus       148 ~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          148 PAIRDYHFVNATEESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             CEEEEEEECCTTSCCHHHHHHHHHHHHHHHCC
T ss_pred             cchhheEEEecccCchhHHHHHHHHHHHHhcc
Confidence            112248899999997 9999999998887653

>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=99.56  E-value=6.6e-15  Score=86.88  Aligned_cols=95  Identities=13%  Similarity=0.126  Sum_probs=65.9

Q ss_pred             cchHHHhcccC---CEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCc
Q 044598            2 RPLWRHYFQNT---QGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHS   74 (110)
Q Consensus         2 ~~~~~~~~~~~---~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~   74 (110)
                      +.++..|++.+   |++++|+|+++..+....  .+...+..   .+.|+++|+||+|+.+....    +++.+.+..  
T Consensus        93 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~--~~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~--  165 (195)
T 1svi_A           93 GRMIETYITTREELKAVVQIVDLRHAPSNDDV--QMYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNI--  165 (195)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHHhhhhcCCEEEEEEECCCCCCHHHH--HHHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcc--
Confidence            34577888877   999999999876554432  12222222   46899999999999654322    222222321  


Q ss_pred             ccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           75 LRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        75 ~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                        ....+++++||++|.|++++++++.+.+.
T Consensus       166 --~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          166 --DPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             --CTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             --cCCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence              23568999999999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.54  E-value=4.4e-15  Score=87.46  Aligned_cols=98  Identities=19%  Similarity=0.248  Sum_probs=62.4

Q ss_pred             chHHHhcccC---CEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCccc-Cc
Q 044598            3 PLWRHYFQNT---QGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLR-QR   78 (110)
Q Consensus         3 ~~~~~~~~~~---~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~   78 (110)
                      .++..|++.+   +++++|+|+++.......  .+...+..   .+.|+++|+||+|+.+....+...+.... ... ..
T Consensus        93 ~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~--~~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~-~~~~~~  166 (195)
T 3pqc_A           93 RLVEDYFKNRWSLQMVFLLVDGRIPPQDSDL--MMVEWMKS---LNIPFTIVLTKMDKVKMSERAKKLEEHRK-VFSKYG  166 (195)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHH-HHHSSC
T ss_pred             HHHHHHHhcCcCceEEEEEecCCCCCCHHHH--HHHHHHHH---cCCCEEEEEEChhcCChHHHHHHHHHHHH-HHhhcC
Confidence            4567777776   999999998764332211  12222222   36899999999998654322222111100 011 13


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++++++||++|.|++++++++.+.+.+
T Consensus       167 ~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          167 EYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             CSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            3578999999999999999999988754

>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=99.53  E-value=3.2e-14  Score=86.20  Aligned_cols=96  Identities=14%  Similarity=0.095  Sum_probs=63.5

Q ss_pred             HHhcccCCEEEEEEECCChhhHH--HHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HH---HHHhhhCCCcccCc
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVV--EARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AA---EITDKLGLHSLRQR   78 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~---~~~~~~~~~~~~~~   78 (110)
                      ..++..+|++|+|+|++++.++.  ....++..+...  ..+.|+++|+||+|+.+...  .+   .......   ....
T Consensus       103 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~---~~~~  177 (228)
T 2qu8_A          103 TALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV--FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILD---NVKN  177 (228)
T ss_dssp             HHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC--C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHH---HCCS
T ss_pred             HHhhccccEEEEEEecccccCcchHHHHHHHHHHHHh--hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHH---hcCC
Confidence            45678899999999999875543  223444444322  24789999999999965422  11   1111110   0111


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+++++||++|.|++++++++.+.+.+
T Consensus       178 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~  205 (228)
T 2qu8_A          178 PIKFSSFSTLTGVGVEQAKITACELLKN  205 (228)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CceEEEEecccCCCHHHHHHHHHHHHHH
Confidence            2689999999999999999999988754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.51  E-value=1.2e-14  Score=83.26  Aligned_cols=89  Identities=16%  Similarity=0.154  Sum_probs=61.2

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce-E
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW-Y   81 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~   81 (110)
                      ..+..+++.+|++++|+|.++..+..  ..++...+..   .+.|+++|+||+|+.+..  ++..+.      ...+. +
T Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~~~~--~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~--~~~~~~------~~~~~~~  137 (161)
T 2dyk_A           71 EKVDRALEDAEVVLFAVDGRAELTQA--DYEVAEYLRR---KGKPVILVATKVDDPKHE--LYLGPL------YGLGFGD  137 (161)
T ss_dssp             HHHHHHTTTCSEEEEEEESSSCCCHH--HHHHHHHHHH---HTCCEEEEEECCCSGGGG--GGCGGG------GGGSSCS
T ss_pred             HHHHHHHHhCCEEEEEEECCCcccHh--HHHHHHHHHh---cCCCEEEEEECcccccch--HhHHHH------HhCCCCC
Confidence            35677899999999999998743221  2233333332   468999999999986431  111111      11222 5


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++++||++|.|++++++++.+.+
T Consensus       138 ~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          138 PIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             CEECBTTTTBSHHHHHHHHHHHC
T ss_pred             eEEEecccCCChHHHHHHHHHhC
Confidence            78999999999999999998865

>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=99.50  E-value=1.6e-14  Score=84.12  Aligned_cols=87  Identities=16%  Similarity=0.190  Sum_probs=61.1

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+++++|++++|+|+++..++.. ..|+..+.... ..+.|+++|+||+|+.+...     .     .......+++++|
T Consensus        79 ~~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~~~-----~-----~~~~~~~~~~~~S  146 (172)
T 2gj8_A           79 QEIEQADRVLFMVDGTTTDAVDP-AEIWPEFIARL-PAKLPITVVRNKADITGETL-----G-----MSEVNGHALIRLS  146 (172)
T ss_dssp             HHHHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHS-CTTCCEEEEEECHHHHCCCC-----E-----EEEETTEEEEECC
T ss_pred             HHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhc-ccCCCEEEEEECccCCcchh-----h-----hhhccCCceEEEe
Confidence            46899999999999987665432 24444443221 24689999999999843210     0     0112345789999


Q ss_pred             cccCCCHHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~  105 (110)
                      |++|.|++++++++.+.+.
T Consensus       147 A~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          147 ARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             TTTCTTHHHHHHHHHHHC-
T ss_pred             CCCCCCHHHHHHHHHHHhh
Confidence            9999999999999988764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.48  E-value=8.2e-14  Score=88.44  Aligned_cols=100  Identities=17%  Similarity=0.201  Sum_probs=64.6

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC--CCCCCCeEEEEeeCCCCCCCCC----HHHHHhhh--CCCcc
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE--DELRDAVLLVFANKQDLPNAMN----AAEITDKL--GLHSL   75 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~--~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~--~~~~~   75 (110)
                      +++.||++++++|+|+|.+++  +.+...++..++..  ...++.|+++++||+|+.....    .+++....  .+...
T Consensus        65 ~~~~yyr~a~~~IlV~Ditd~--~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~  142 (331)
T 3r7w_B           65 DSERLFKSVGALVYVIDSQDE--YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLEL  142 (331)
T ss_dssp             HHHHHHTTCSEEEEECCCSSC--TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSS
T ss_pred             hhhhhccCCCEEEEEEECCch--HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhh
Confidence            368999999999999999986  32333333332211  1125799999999999965321    12222211  11111


Q ss_pred             --cCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           76 --RQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        76 --~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                        ...++.+++|||++ .++.+.|..+.+.+..
T Consensus       143 ~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          143 GLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             SCSCCCEEEECCCSSS-SHHHHHHHHHHTTSST
T ss_pred             cccccCceEEEeccCC-CcHHHHHHHHHHHHHh
Confidence              12467999999998 5899999988876643

>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=99.48  E-value=4.9e-14  Score=88.84  Aligned_cols=92  Identities=21%  Similarity=0.171  Sum_probs=65.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~~   77 (110)
                      +.+.+.+++++|++++|+|++++. ++.....|+..+..    .++|.++|+||+|+.+...   .++....     +..
T Consensus        70 ~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~----~~~~~ilV~NK~DL~~~~~v~~~~~~~~~-----~~~  140 (302)
T 2yv5_A           70 NLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY----FKVEPVIVFNKIDLLNEEEKKELERWISI-----YRD  140 (302)
T ss_dssp             CEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHH-----HHH
T ss_pred             HHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh----CCCCEEEEEEcccCCCccccHHHHHHHHH-----HHH
Confidence            446677999999999999999875 66666666654322    4799999999999864321   1111111     112


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      .+.+++++||++|.|+++++..+..
T Consensus       141 ~g~~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          141 AGYDVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHTTT
T ss_pred             CCCeEEEEECCCCCCHHHHHhhccC
Confidence            2457899999999999999987654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.47  E-value=1.8e-14  Score=86.68  Aligned_cols=100  Identities=13%  Similarity=0.114  Sum_probs=62.7

Q ss_pred             chHHHhccc---CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH----HHhhhCCC--
Q 044598            3 PLWRHYFQN---TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE----ITDKLGLH--   73 (110)
Q Consensus         3 ~~~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~----~~~~~~~~--   73 (110)
                      .++..|++.   +|++++|+|+++..+.  ....+...+..   .+.|+++|+||+|+.+......    +...+...  
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~~--~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~  178 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLTE--LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRD  178 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCH--HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCCH--HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhh
Confidence            355667776   7789999999864221  12223333332   4689999999999865322111    11111100  


Q ss_pred             cccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           74 SLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .......+++++||++|.|+++++++|.+.+...
T Consensus       179 ~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          179 AGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             HTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             cccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence            0002456899999999999999999999887643

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.47  E-value=1.2e-12  Score=77.69  Aligned_cols=99  Identities=16%  Similarity=0.205  Sum_probs=72.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..++++++++++|+|.++..++.....|+..+... ...+.|+++++||+|+.+..  ..++.....     ...+
T Consensus        68 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~-----~~~~  141 (199)
T 2f9l_A           68 RRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH-ADSNIVIMLVGNKSDLRHLRAVPTDEARAFA-----EKNN  141 (199)
T ss_dssp             TCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHTT
T ss_pred             hhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHh-cCCCCeEEEEEECcccccccCcCHHHHHHHH-----HHcC
Confidence            457788999999999999999887777666666554322 12468999999999985432  223322221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.++++||+++.|++++++++.+.+.+
T Consensus       142 ~~~~d~Sal~~~~i~~l~~~l~~~~~~  168 (199)
T 2f9l_A          142 LSFIETSALDSTNVEEAFKNILTEIYR  168 (199)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            578899999999999999999988754

>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=99.47  E-value=7.4e-14  Score=88.22  Aligned_cols=98  Identities=15%  Similarity=0.154  Sum_probs=67.5

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC-CCCCHHHHHhhhCCCcccCcceE
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP-NAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ..+..+++++|++++|+|+++..+..+...|+..+ ..   .+.|+++|+||+|+. +.....+....+..  ......+
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l-~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~--~~~~~~~  157 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFI-KP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHK--KHPELTE  157 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHT-GG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHH--HCTTCCC
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHH-Hh---cCCCEEEEEECccCCCCHHHHHHHHHHHHH--hccCCCe
Confidence            45678899999999999999765655544444443 22   468999999999986 32222221111110  0112346


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++||++|.|++++++++.+.+..
T Consensus       158 i~~vSA~~g~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          158 IVPISALKGANLDELVKTILKYLPE  182 (308)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHSCB
T ss_pred             EEEEeCCCCCCHHHHHHHHHHhCcc
Confidence            8899999999999999999988754

>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=99.46  E-value=1.6e-14  Score=84.82  Aligned_cols=63  Identities=16%  Similarity=0.117  Sum_probs=43.9

Q ss_pred             CCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           44 RDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .+.|+++|+||+|+.+..  ..+++...++.. ......+++++||++|.|++++++++.+.+...
T Consensus       121 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          121 LDIPTIVAVNKLDKIKNVQEVINFLAEKFEVP-LSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             TTCCEEEEEECGGGCSCHHHHHHHHHHHHTCC-GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             cCCceEEEeehHhccCcHHHHHHHHHHHhhhh-hhccCCcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence            478999999999997543  112233333331 111123578999999999999999999988654

>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=99.45  E-value=2.7e-13  Score=78.28  Aligned_cols=86  Identities=20%  Similarity=0.220  Sum_probs=60.6

Q ss_pred             hHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccC
Q 044598            4 LWRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         4 ~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~   77 (110)
                      +...|++  +++++++|+|+++.+..   ..|+..+..    .+.|+++|+||+|+....    ..+.+...+       
T Consensus        72 ~~~~~~~~~~~~~~i~v~D~~~~~~~---~~~~~~~~~----~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~-------  137 (165)
T 2wji_A           72 IARDYIINEKPDLVVNIVDATALERN---LYLTLQLME----MGANLLLALNKMDLAKSLGIEIDVDKLEKIL-------  137 (165)
T ss_dssp             HHHHHHHHHCCSEEEEEEETTCHHHH---HHHHHHHHH----TTCCEEEEEECHHHHHHTTCCCCHHHHHHHH-------
T ss_pred             HHHHHHhcCCCCEEEEEecCCchhHh---HHHHHHHHh----cCCCEEEEEEchHhccccChhhHHHHHHHHh-------
Confidence            4566775  89999999999875432   334444432    368999999999974221    122222222       


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                       +.+++++||++|+|++++|+++.+.+
T Consensus       138 -~~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          138 -GVKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             -TSCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             -CCCEEEEEcCCCCCHHHHHHHHHHHh
Confidence             24688999999999999999998875

>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=99.45  E-value=1.7e-13  Score=87.66  Aligned_cols=98  Identities=23%  Similarity=0.334  Sum_probs=67.9

Q ss_pred             hHHHhcc---cCCEEEEEEECCC---hhhHHHHHHHHHHHhcCC-CCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcc
Q 044598            4 LWRHYFQ---NTQGLIFVVDSND---RDRVVEARDELHRMLNED-ELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSL   75 (110)
Q Consensus         4 ~~~~~~~---~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~-~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~   75 (110)
                      ++..|++   +++++|+|+|+++   ..++.+...+..++.... ...++|+++|+||+|+..... .+++...+.    
T Consensus       226 l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e~~~~l~~~l~----  301 (342)
T 1lnz_A          226 LGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKLT----  301 (342)
T ss_dssp             THHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHHHHHHHHHCC----
T ss_pred             hHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCHHHHHHHHHHhh----
Confidence            4455544   5999999999987   556766666666554332 235799999999999864321 112222221    


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                        ...+++++||++++|+++++.+|.+.+...
T Consensus       302 --~~~~v~~iSA~tg~gi~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          302 --DDYPVFPISAVTREGLRELLFEVANQLENT  331 (342)
T ss_dssp             --SCCCBCCCSSCCSSTTHHHHHHHHHHHTSC
T ss_pred             --cCCCEEEEECCCCcCHHHHHHHHHHHHhhC
Confidence              114678999999999999999999988643

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.41  E-value=7.3e-13  Score=89.08  Aligned_cols=96  Identities=11%  Similarity=0.185  Sum_probs=63.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++|+|+|+++.+..   ..|+..+....  .+.|+++|+||+|+.+..  ..+++....     ...
T Consensus       111 ~~~~~~~~l~~~d~ii~V~D~s~~~~~---~~~~~~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~-----~~~  180 (535)
T 3dpu_A          111 MHASHQFFMTRSSVYMLLLDSRTDSNK---HYWLRHIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERF-----PAI  180 (535)
T ss_dssp             TTTTCHHHHHSSEEEEEEECGGGGGGH---HHHHHHHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHC-----GGG
T ss_pred             HHHHHHHHccCCcEEEEEEeCCCchhH---HHHHHHHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHH-----Hhc
Confidence            356778899999999999999865444   33444443321  368999999999996543  333333332     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.+++++||++|.|+++++.++.+.+..
T Consensus       181 ~~~~~~vSA~~g~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          181 ENRFHRISCKNGDGVESIAKSLKSAVLH  208 (535)
T ss_dssp             TTCEEECCC-----CTTHHHHHHHHHTC
T ss_pred             CCceEEEecCcccCHHHHHHHHHHHHhc
Confidence            3468999999999999999999988754

>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=99.39  E-value=4.5e-12  Score=84.36  Aligned_cols=88  Identities=23%  Similarity=0.284  Sum_probs=64.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ...++++||++|+|+|++++.+..+. ..+ +.+     .++|+++|+||+|+.+....+++.....      ...++++
T Consensus       317 ~~~~~~~aD~vl~VvD~s~~~s~~~~-~il-~~l-----~~~piivV~NK~DL~~~~~~~~~~~~~~------~~~~~i~  383 (482)
T 1xzp_A          317 TLQEIEKADIVLFVLDASSPLDEEDR-KIL-ERI-----KNKRYLVVINKVDVVEKINEEEIKNKLG------TDRHMVK  383 (482)
T ss_dssp             HHHHHHHCSEEEEEEETTSCCCHHHH-HHH-HHH-----TTSSEEEEEEECSSCCCCCHHHHHHHHT------CSTTEEE
T ss_pred             HHHHhhcccEEEEEecCCCCCCHHHH-HHH-HHh-----cCCCEEEEEECcccccccCHHHHHHHhc------CCCcEEE
Confidence            35689999999999999876555442 222 222     3689999999999976544444443321      2235789


Q ss_pred             eecccCCCHHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +||++|+|+++++++|.+.+.
T Consensus       384 iSAktg~Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          384 ISALKGEGLEKLEESIYRETQ  404 (482)
T ss_dssp             EEGGGTCCHHHHHHHHHHHTH
T ss_pred             EECCCCCCHHHHHHHHHHHHh
Confidence            999999999999999998764

>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=99.38  E-value=5.7e-12  Score=74.41  Aligned_cols=97  Identities=15%  Similarity=0.200  Sum_probs=69.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..+++.++++++|+|.++..+++....|+..+.... ..+.|+++++||+|+.+..  ..++.....     ....
T Consensus        92 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~-----~~~~  165 (191)
T 1oix_A           92 RAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFA-----EKNG  165 (191)
T ss_dssp             SCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTT
T ss_pred             hhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHH-----HHcC
Confidence            4577888999999999999998877766655665443221 2468999999999986422  222222221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +.++++||+++.|++++++++.+.+
T Consensus       166 ~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          166 LSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            5788999999999999999998765

>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=99.38  E-value=4.2e-13  Score=88.71  Aligned_cols=96  Identities=13%  Similarity=0.073  Sum_probs=62.7

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .++++||++++|+|+++.-.  ....++...+..   .++|+++|+||+|+.+...  .+++.+............++++
T Consensus       273 ~~~~~ad~~llviD~~~~~~--~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  347 (456)
T 4dcu_A          273 KAIDRSEVVAVVLDGEEGII--EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILF  347 (456)
T ss_dssp             HHHHHCSEEEEEEETTTCCC--HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHhhCCEEEEEEeCCCCcC--HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEE
Confidence            47899999999999986422  222233333322   4699999999999975432  2222222110000112357899


Q ss_pred             eecccCCCHHHHHHHHHHHHHhh
Q 044598           85 TCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +||++|.|++++++++.+.+.+.
T Consensus       348 ~SA~~g~gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          348 MSALTKKRIHTLMPAIIKASENH  370 (456)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             EcCCCCcCHHHHHHHHHHHHHHh
Confidence            99999999999999999877543

>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=99.37  E-value=5.1e-13  Score=84.20  Aligned_cols=94  Identities=15%  Similarity=0.058  Sum_probs=64.0

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcceE
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~   81 (110)
                      .....+++++|++++|+|+++..+..  ..++.+.+... ..+.|+++|+||+|+.+... ..+....+      ....+
T Consensus        78 ~~~~~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~------~~~~~  148 (301)
T 1wf3_A           78 QEVYEALADVNAVVWVVDLRHPPTPE--DELVARALKPL-VGKVPILLVGNKLDAAKYPEEAMKAYHEL------LPEAE  148 (301)
T ss_dssp             HHHHHHTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEECGGGCSSHHHHHHHHHHT------STTSE
T ss_pred             HHHHHHHhcCCEEEEEEECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEECcccCCchHHHHHHHHHh------cCcCc
Confidence            34567899999999999998653332  33444434331 13689999999999865322 11112221      12246


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|.|++++++++.+.+.
T Consensus       149 ~~~iSA~~g~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          149 PRMLSALDERQVAELKADLLALMP  172 (301)
T ss_dssp             EEECCTTCHHHHHHHHHHHHTTCC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHhcc
Confidence            889999999999999999988764

>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=99.36  E-value=8.8e-13  Score=86.00  Aligned_cols=99  Identities=15%  Similarity=0.038  Sum_probs=66.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~   77 (110)
                      ...+..++..+|++|+|+|+++..+..+...++..+...   ..+|+++|+||+|+.+....    +++.+.+..  ...
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~--~~~  163 (403)
T 3sjy_A           89 MATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII---GVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKG--TWA  163 (403)
T ss_dssp             HHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTT--STT
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHc---CCCCEEEEEECccccchHHHHHHHHHHHHHHHh--hCC
Confidence            345667889999999999998754344444444333211   23689999999998653211    122222211  122


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...+++++||++|.|+++++++|.+.+.
T Consensus       164 ~~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          164 ENVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCCEEEEEECCCCcChHHHHHHHHHhCC
Confidence            3568999999999999999999998664

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.36  E-value=1.2e-12  Score=82.73  Aligned_cols=98  Identities=19%  Similarity=0.178  Sum_probs=66.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHH---HHHHhcCCCCCCCeEEEEeeCCCCCCCCCH--------HHHHhhh
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDE---LHRMLNEDELRDAVLLVFANKQDLPNAMNA--------AEITDKL   70 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~---~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~--------~~~~~~~   70 (110)
                      +.++..+++++|++|+|+|++++.++.....|   +..+...  .++.|+++|+||+|+.+....        +++....
T Consensus        71 ~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~--~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~  148 (307)
T 3r7w_A           71 TKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKY--SPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETS  148 (307)
T ss_dssp             TTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHh--CCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHH
Confidence            46788999999999999999998877766544   3333221  257999999999998652111        1111111


Q ss_pred             CCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           71 GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        71 ~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..  ......+++++||++ .|+.+.+..+.+.+
T Consensus       149 ~~--~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          149 SE--FGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             HT--TTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             HH--cCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            00  000136899999999 88999988887654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.36  E-value=2.1e-12  Score=83.01  Aligned_cols=93  Identities=15%  Similarity=0.160  Sum_probs=63.9

Q ss_pred             HhcccCCEEEEEEECCChh--hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRD--RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .+...+|++++|+|++++.  ++.....++..+....  .+.|+++|+||+|+......++.....     .....++++
T Consensus       242 ~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~--~~~piilV~NK~Dl~~~~~~~~~~~~~-----~~~~~~~~~  314 (357)
T 2e87_A          242 ALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF--KDLPFLVVINKIDVADEENIKRLEKFV-----KEKGLNPIK  314 (357)
T ss_dssp             GGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT--TTSCEEEEECCTTTCCHHHHHHHHHHH-----HHTTCCCEE
T ss_pred             HHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc--CCCCEEEEEECcccCChHHHHHHHHHH-----HhcCCCeEE
Confidence            3455799999999987654  4555555665554321  278999999999986432222222211     112346789


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|+|++++++++.+.+..
T Consensus       315 iSA~~g~gi~~l~~~i~~~l~~  336 (357)
T 2e87_A          315 ISALKGTGIDLVKEEIIKTLRP  336 (357)
T ss_dssp             CBTTTTBTHHHHHHHHHHHHHH
T ss_pred             EeCCCCcCHHHHHHHHHHHHHH
Confidence            9999999999999999988753

>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=99.35  E-value=7.1e-13  Score=81.82  Aligned_cols=85  Identities=15%  Similarity=0.089  Sum_probs=60.5

Q ss_pred             hHHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccC
Q 044598            4 LWRHYF--QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         4 ~~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~   77 (110)
                      +++.|+  +++|++++|+|+++.++...   +... +..   .+.|+++|+||+|+.+..    ....+...+       
T Consensus        74 i~~~~~~~~~~d~vi~VvDas~~~~~~~---l~~~-l~~---~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~l-------  139 (256)
T 3iby_A           74 IAAQSVIDLEYDCIINVIDACHLERHLY---LTSQ-LFE---LGKPVVVALNMMDIAEHRGISIDTEKLESLL-------  139 (256)
T ss_dssp             HHHHHHHHSCCSEEEEEEEGGGHHHHHH---HHHH-HTT---SCSCEEEEEECHHHHHHTTCEECHHHHHHHH-------
T ss_pred             HHHHHHhhCCCCEEEEEeeCCCchhHHH---HHHH-HHH---cCCCEEEEEEChhcCCcCCcHHHHHHHHHHc-------
Confidence            566777  89999999999987543322   2222 222   378999999999974322    223333333       


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                       +++++++||++|.|++++++++.+.
T Consensus       140 -g~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          140 -GCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             -CSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             -CCCEEEEECCCCCCHHHHHHHHHhh
Confidence             3478899999999999999999875

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.35  E-value=2.4e-12  Score=84.69  Aligned_cols=95  Identities=12%  Similarity=0.016  Sum_probs=64.2

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .++++||++++|+|+++..+..+. .++..+. .   .++|+++|+||+|+.+...  .++....+..........++++
T Consensus       253 ~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~-~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  327 (436)
T 2hjg_A          253 KAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAH-E---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILF  327 (436)
T ss_dssp             HHHHHCSEEEEEEETTTCCCHHHH-HHHHHHH-H---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHH-H---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEE
Confidence            478899999999999876555443 3443332 2   4799999999999975432  2222221110001112457899


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|.|+++++..+.+.+.+
T Consensus       328 ~SA~tg~~v~~l~~~i~~~~~~  349 (436)
T 2hjg_A          328 MSALTKKRIHTLMPAIIKASEN  349 (436)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHH
T ss_pred             EecccCCCHHHHHHHHHHHHHH
Confidence            9999999999999999887754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.34  E-value=2.5e-12  Score=84.65  Aligned_cols=91  Identities=19%  Similarity=0.231  Sum_probs=63.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce-
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW-   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-   80 (110)
                      +.++..+++.||++|+|+|+++..+..  ..++...+..   .++|+++|+||+|+.+...  ...+      ....+. 
T Consensus        73 ~~~~~~~~~~ad~il~vvD~~~~~~~~--d~~~~~~l~~---~~~pvilv~NK~D~~~~~~--~~~~------~~~lg~~  139 (436)
T 2hjg_A           73 RQQAEIAMDEADVIIFMVNGREGVTAA--DEEVAKILYR---TKKPVVLAVNKLDNTEMRA--NIYD------FYSLGFG  139 (436)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHH--HHHHHHHHTT---CCSCEEEEEECCCC-------CCCS------SGGGSSC
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHH--HHHHHHHHHH---cCCCEEEEEECccCccchh--hHHH------HHHcCCC
Confidence            456788999999999999998654432  3455555543   5789999999999854311  1001      111111 


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++||++|.|++++++++.+.+.
T Consensus       140 ~~~~iSA~~g~gv~~L~~~i~~~l~  164 (436)
T 2hjg_A          140 EPYPISGTHGLGLGDLLDAVAEHFK  164 (436)
T ss_dssp             CCEECBTTTTBTHHHHHHHHHHTGG
T ss_pred             CeEEEeCcCCCChHHHHHHHHHhcC
Confidence            5679999999999999999998875

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.34  E-value=8.6e-13  Score=85.21  Aligned_cols=97  Identities=18%  Similarity=0.138  Sum_probs=63.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhC--CCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLG--LHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~--~~~~~~   77 (110)
                      |+.++++++++++++++|+|++++.  ......+.+..     .++|+++|+||+|+.+.. ..+.+.+.+.  .....-
T Consensus        59 f~~~l~~i~~~~~~il~VvD~~d~~--~~~~~~l~~~~-----~~~p~ilV~NK~DL~~~~~~~~~~~~~l~~~~~~~g~  131 (368)
T 3h2y_A           59 FLRILNGIGKSDALVVKIVDIFDFN--GSWLPGLHRFV-----GNNKVLLVGNKADLIPKSVKHDKVKHWMRYSAKQLGL  131 (368)
T ss_dssp             HHHHHHHHHHSCCEEEEEEETTSHH--HHCCTTHHHHS-----SSSCEEEEEECGGGSCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccCcEEEEEEECCCCc--ccHHHHHHHHh-----CCCcEEEEEEChhcCCcccCHHHHHHHHHHHHHHcCC
Confidence            4678889999999999999999753  11112233321     368999999999996543 2222222210  000011


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ...+++.+||++|.|++++++.+.+..
T Consensus       132 ~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          132 KPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             CCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            123788999999999999999997654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.33  E-value=2.6e-12  Score=75.25  Aligned_cols=90  Identities=19%  Similarity=0.193  Sum_probs=63.6

Q ss_pred             chHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCccc
Q 044598            3 PLWRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLR   76 (110)
Q Consensus         3 ~~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~   76 (110)
                      .++..|+.  .++++++|+|.++.   .....|+..+..    .+.|+++|+||+|+....    ..+.+...+      
T Consensus        75 ~~~~~~~~~~~~~~~i~v~d~~~~---~~~~~~~~~~~~----~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~------  141 (188)
T 2wjg_A           75 IIARDYIINEKPDLVVNIVDATAL---ERNLYLTLQLME----MGANLLLALNKMDLAKSLGIEIDVDKLEKIL------  141 (188)
T ss_dssp             HHHHHHHHHHCCSEEEEEEEGGGH---HHHHHHHHHHHT----TTCCEEEEEECHHHHHHTTCCCCHHHHHHHH------
T ss_pred             HHHHHHHhccCCCEEEEEecchhH---HHHHHHHHHHHh----cCCCEEEEEEhhhccccccchHHHHHHHHHh------
Confidence            35677775  49999999998753   334445555432    468999999999984321    222233322      


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                        +.+++++||+++.|++++++++.+.+..+
T Consensus       142 --~~~~~~~Sa~~~~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          142 --GVKVVPLSAAKKMGIEELKKAISIAVKDK  170 (188)
T ss_dssp             --TSCEEECBGGGTBSHHHHHHHHHHHHTTC
T ss_pred             --CCCeEEEEecCCCCHHHHHHHHHHHHHhc
Confidence              23688999999999999999999988654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.31  E-value=3.5e-12  Score=83.65  Aligned_cols=89  Identities=16%  Similarity=0.091  Sum_probs=63.0

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      +..+++++|++|+|+|++....   ...++..+..    .+.|+++|+||+|+.+....+. ...+.    ...+.++++
T Consensus       107 ~~~~l~~aD~vllVvD~~~~~~---~~~~l~~l~~----~~~piIvV~NK~Dl~~~~~~~~-~~~l~----~~~g~~v~~  174 (423)
T 3qq5_A          107 ARRVFYRADCGILVTDSAPTPY---EDDVVNLFKE----MEIPFVVVVNKIDVLGEKAEEL-KGLYE----SRYEAKVLL  174 (423)
T ss_dssp             HHHHHTSCSEEEEECSSSCCHH---HHHHHHHHHH----TTCCEEEECCCCTTTTCCCTHH-HHHSS----CCTTCCCCC
T ss_pred             HHHHHhcCCEEEEEEeCCChHH---HHHHHHHHHh----cCCCEEEEEeCcCCCCccHHHH-HHHHH----HHcCCCEEE
Confidence            4568999999999999843222   2334443332    3789999999999976654322 22221    123457889


Q ss_pred             eecccCCCHHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +||++|.|++++++++.+.+.
T Consensus       175 vSAktg~gI~eL~~~L~~~l~  195 (423)
T 3qq5_A          175 VSALQKKGFDDIGKTISEILP  195 (423)
T ss_dssp             CSSCCTTSTTTHHHHHHHHSC
T ss_pred             EECCCCCCHHHHHHHHHHhhh
Confidence            999999999999999998874

>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=99.31  E-value=8.3e-12  Score=82.98  Aligned_cols=86  Identities=19%  Similarity=0.181  Sum_probs=61.1

Q ss_pred             HHhcccCCEEEEEEECCChhhHH---HHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH--HHhhhCCCcccCcce
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVV---EARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE--ITDKLGLHSLRQRHW   80 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~---~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~   80 (110)
                      ..+++++|++++|+|++++.+..   ....++..+      .++|+++|+||+|+.+......  +...        ...
T Consensus       307 ~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l------~~~piIvV~NK~Dl~~~~~~~~~~l~~~--------~~~  372 (476)
T 3gee_A          307 RMKMAEADLILYLLDLGTERLDDELTEIRELKAAH------PAAKFLTVANKLDRAANADALIRAIADG--------TGT  372 (476)
T ss_dssp             -CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHC------TTSEEEEEEECTTSCTTTHHHHHHHHHH--------HTS
T ss_pred             HhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhc------CCCCEEEEEECcCCCCccchhHHHHHhc--------CCC
Confidence            44789999999999999765543   222333222      3689999999999976543211  1111        013


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++||++|+|++++++++.+.+.
T Consensus       373 ~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          373 EVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             CEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHh
Confidence            6789999999999999999998876

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.31  E-value=9.5e-12  Score=84.61  Aligned_cols=95  Identities=22%  Similarity=0.256  Sum_probs=65.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQR   78 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~   78 (110)
                      ...+..+++.+|++|+|+|+++..+......|.. ...    .+.|+++|+||+|+.+....   +++.+.++..     
T Consensus        85 ~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~-~~~----~~ipiIvViNKiDl~~a~~~~v~~ei~~~lg~~-----  154 (599)
T 3cb4_D           85 SYEVSRSLAACEGALLVVDAGQGVEAQTLANCYT-AME----MDLEVVPVLNKIDLPAADPERVAEEIEDIVGID-----  154 (599)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHH-HHH----TTCEEEEEEECTTSTTCCHHHHHHHHHHHTCCC-----
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHH-HHH----CCCCEEEeeeccCcccccHHHHHHHHHHHhCCC-----
Confidence            4457788999999999999987544333333322 222    46899999999999765422   2233333321     


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+++++||++|.|++++++++.+.+..
T Consensus       155 ~~~vi~vSAktg~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          155 ATDAVRCSAKTGVGVQDVLERLVRDIPP  182 (599)
T ss_dssp             CTTCEEECTTTCTTHHHHHHHHHHHSCC
T ss_pred             cceEEEeecccCCCchhHHHHHhhcCCC
Confidence            1247799999999999999999988754

>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=99.31  E-value=1e-12  Score=81.84  Aligned_cols=86  Identities=20%  Similarity=0.190  Sum_probs=59.7

Q ss_pred             HHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCc
Q 044598            5 WRHYF--QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         5 ~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~   78 (110)
                      ++.|+  +++|++++|+|+++.++...   +...+..    .+.|+++|+||+|+.+..    ..+.+...+        
T Consensus        77 ~~~~~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~----~~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l--------  141 (274)
T 3i8s_A           77 ACHYILSGDADLLINVVDASNLERNLY---LTLQLLE----LGIPCIVALNMLDIAEKQNIRIEIDALSARL--------  141 (274)
T ss_dssp             HHHHHHHTCCSEEEEEEEGGGHHHHHH---HHHHHHH----HTCCEEEEEECHHHHHHTTEEECHHHHHHHH--------
T ss_pred             HHHHHhhcCCCEEEEEecCCChHHHHH---HHHHHHh----cCCCEEEEEECccchhhhhHHHHHHHHHHhc--------
Confidence            44454  79999999999987544322   2222221    268999999999974322    222333333        


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++++||++|.|++++++++.+.+.
T Consensus       142 g~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          142 GCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             TSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            247889999999999999999987764

>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=99.31  E-value=1e-12  Score=86.58  Aligned_cols=93  Identities=14%  Similarity=0.161  Sum_probs=62.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHH-HhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEI-TDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~-~~~~~~~~~~~~~~   80 (110)
                      +.++..++++||++++|+|+++..+..  ..++..++..   .++|+++|+||+|+.+.. ..+. .+..      ..+.
T Consensus        72 ~~~~~~~~~~ad~il~V~D~~~~~~~~--d~~i~~~l~~---~~~p~ilv~NK~D~~~~~-~~~~~~~~~------~lg~  139 (439)
T 1mky_A           72 KEVTLNMIREADLVLFVVDGKRGITKE--DESLADFLRK---STVDTILVANKAENLREF-EREVKPELY------SLGF  139 (439)
T ss_dssp             HHHHHHHHTTCSEEEEEEETTTCCCHH--HHHHHHHHHH---HTCCEEEEEESCCSHHHH-HHHTHHHHG------GGSS
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCCCHH--HHHHHHHHHH---cCCCEEEEEeCCCCcccc-HHHHHHHHH------hcCC
Confidence            346788999999999999987643322  2233343332   368999999999974210 1111 1111      1112


Q ss_pred             -EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 -YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 -~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                       +++++||++|.|++++++++.+.+..
T Consensus       140 ~~~~~iSA~~g~gv~~L~~~i~~~l~~  166 (439)
T 1mky_A          140 GEPIPVSAEHNINLDTMLETIIKKLEE  166 (439)
T ss_dssp             CSCEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCEEEEeccCCCCHHHHHHHHHHhccc
Confidence             46789999999999999999988763

>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=99.30  E-value=1e-11  Score=84.43  Aligned_cols=95  Identities=22%  Similarity=0.256  Sum_probs=65.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHhhhCCCcccCc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITDKLGLHSLRQR   78 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~   78 (110)
                      ...+..+++.||++|+|+|+++..+......|.. ...    .+.|+++|+||+|+.+....   +++...++.     .
T Consensus        87 ~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~-a~~----~~ipiIvviNKiDl~~a~~~~v~~el~~~lg~-----~  156 (600)
T 2ywe_A           87 SYEVSRALAACEGALLLIDASQGIEAQTVANFWK-AVE----QDLVIIPVINKIDLPSADVDRVKKQIEEVLGL-----D  156 (600)
T ss_dssp             HHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHH-HHH----TTCEEEEEEECTTSTTCCHHHHHHHHHHTSCC-----C
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHH-HHH----CCCCEEEEEeccCccccCHHHHHHHHHHhhCC-----C
Confidence            3456778899999999999987544444333322 222    47899999999999765422   122222222     1


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+++++||++|.|++++++++.+.+..
T Consensus       157 ~~~vi~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          157 PEEAILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             GGGCEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             cccEEEEEeecCCCchHHHHHHHHhccc
Confidence            1247899999999999999999988754

>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=99.29  E-value=9.8e-12  Score=76.80  Aligned_cols=85  Identities=20%  Similarity=0.243  Sum_probs=60.9

Q ss_pred             HHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCcc
Q 044598            6 RHYF--QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         6 ~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~   79 (110)
                      +.|+  +++|++++|+|+++.++.   ..++..+..    .+.|+++|+||+|+.+..    ....+...+        +
T Consensus        76 ~~~~~~~~~d~ii~V~D~t~~~~~---~~~~~~l~~----~~~pvilv~NK~Dl~~~~~i~~~~~~l~~~l--------g  140 (258)
T 3a1s_A           76 RDYLLKGDADLVILVADSVNPEQS---LYLLLEILE----MEKKVILAMTAIDEAKKTGMKIDRYELQKHL--------G  140 (258)
T ss_dssp             HHHHHHSCCSEEEEEEETTSCHHH---HHHHHHHHT----TTCCEEEEEECHHHHHHTTCCBCHHHHHHHH--------C
T ss_pred             HHHHhhcCCCEEEEEeCCCchhhH---HHHHHHHHh----cCCCEEEEEECcCCCCccchHHHHHHHHHHc--------C
Confidence            5666  589999999999875433   234444432    368999999999974321    223333333        2


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++++||++|.|++++++++.+...
T Consensus       141 ~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          141 IPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            47889999999999999999998765

>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=99.28  E-value=1.7e-11  Score=76.27  Aligned_cols=87  Identities=15%  Similarity=0.195  Sum_probs=61.5

Q ss_pred             hHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccC
Q 044598            4 LWRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         4 ~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~   77 (110)
                      +++.|+.  ++|++++|+|+++.++.   ..|...+..    .+.|+++|+||+|+....    ....+...+       
T Consensus        71 v~~~~~~~~~~d~vi~V~D~t~~e~~---~~~~~~l~~----~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~l-------  136 (272)
T 3b1v_A           71 VARDYLLSQRADSILNVVDATNLERN---LYLTTQLIE----TGIPVTIALNMIDVLDGQGKKINVDKLSYHL-------  136 (272)
T ss_dssp             HHHHHHHTTCCSEEEEEEEGGGHHHH---HHHHHHHHH----TCSCEEEEEECHHHHHHTTCCCCHHHHHHHH-------
T ss_pred             HHHHHHhcCCCCEEEEEecCCchHhH---HHHHHHHHh----cCCCEEEEEEChhhCCcCCcHHHHHHHHHHc-------
Confidence            5677776  69999999999875433   334433332    478999999999974321    222333333       


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                       +++++++||++|+|+++++.++.+.+.
T Consensus       137 -g~~vi~~SA~~g~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          137 -GVPVVATSALKQTGVDQVVKKAAHTTT  163 (272)
T ss_dssp             -TSCEEECBTTTTBSHHHHHHHHHHSCT
T ss_pred             -CCCEEEEEccCCCCHHHHHHHHHHHHh
Confidence             246889999999999999999988654

>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=99.26  E-value=5e-11  Score=77.88  Aligned_cols=95  Identities=16%  Similarity=0.098  Sum_probs=53.8

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~   81 (110)
                      ...+..+|++|+|+|+++.....+....+..+..   ....|+++++||+|+.+...    .+++.+.+..  ......+
T Consensus        99 ~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~---l~~~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~  173 (408)
T 1s0u_A           99 LSGASLMDGAILVIAANEPCPQPQTKEHLMALEI---LGIDKIIIVQNKIDLVDEKQAEENYEQIKEFVKG--TIAENAP  173 (408)
T ss_dssp             HTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHH---TTCCCEEEEEECTTSSCTTTTTTHHHHHHHHHTT--STTTTCC
T ss_pred             HHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHH---cCCCeEEEEEEccCCCCHHHHHHHHHHHHHHHhh--cCCCCCe
Confidence            3445677999999999853111112222222111   12358999999999965432    2333333321  1123567


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|.|+++++++|.+.+.
T Consensus       174 ~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          174 IIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             EEEC------CHHHHHHHHHHHSC
T ss_pred             EEEeeCCCCCCHHHHHHHHHHhCC
Confidence            899999999999999999998664

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.26  E-value=2.3e-12  Score=83.22  Aligned_cols=97  Identities=15%  Similarity=0.118  Sum_probs=64.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhC--CCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLG--LHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~--~~~~~~   77 (110)
                      |++++++++++++++++|+|++++.+  .....+.+.+     .++|+++|+||+|+.+.. ..+.+.+.+.  ......
T Consensus        61 f~~~L~~~~~~~~lil~VvD~~d~~~--s~~~~l~~~l-----~~~piilV~NK~DLl~~~~~~~~~~~~l~~~~~~~g~  133 (369)
T 3ec1_A           61 FLSMLHRIGESKALVVNIVDIFDFNG--SFIPGLPRFA-----ADNPILLVGNKADLLPRSVKYPKLLRWMRRMAEELGL  133 (369)
T ss_dssp             HHHHHHHHHHHCCEEEEEEETTCSGG--GCCSSHHHHC-----TTSCEEEEEECGGGSCTTCCHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHhhccCcEEEEEEECCCCCC--chhhHHHHHh-----CCCCEEEEEEChhcCCCccCHHHHHHHHHHHHHHcCC
Confidence            46778889999999999999998653  1111222322     368999999999996542 2222222210  000111


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ...+++.+||++|.|++++++.+.+..
T Consensus       134 ~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          134 CPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             CCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            123788999999999999999997765

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.25  E-value=9.2e-12  Score=83.70  Aligned_cols=100  Identities=14%  Similarity=0.023  Sum_probs=66.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC---HHHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN---AAEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~~   77 (110)
                      |..++..+++.+|++|+|+|+++..... ....+.....    .+.|+++++||+|+.+...   ..++...........
T Consensus        65 f~~~~~~~~~~aD~vILVVDa~dg~~~q-t~e~l~~~~~----~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~  139 (537)
T 3izy_P           65 FSAMRARGTQVTDIVILVVAADDGVMKQ-TVESIQHAKD----AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYG  139 (537)
T ss_dssp             TTTSBBSSSBSBSSCEEECBSSSCCCHH-HHHHHHHHHT----TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSS
T ss_pred             HHHHHHHHHccCCEEEEEEECCCCccHH-HHHHHHHHHH----cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcC
Confidence            4567778899999999999998743322 2233333321    4689999999999865321   122221111111112


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ...+++++||++|.|++++++++...+.
T Consensus       140 ~~~~iv~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P          140 GDVQAVHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             SSEEECCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHhhh
Confidence            3468999999999999999999987753

>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=99.24  E-value=6e-11  Score=80.70  Aligned_cols=97  Identities=24%  Similarity=0.174  Sum_probs=64.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH--------------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA--------------   63 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~--------------   63 (110)
                      |..++..+++.+|++|+|+|+++   +.+++.+.    .+. .   .+.|+++++||+|+.+....              
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~----~l~-~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~  154 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEALN----ILR-M---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQD  154 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH----HHH-H---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSC
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH----HHH-H---cCCeEEEEecccccccccccccCCchHHHHHHhH
Confidence            44566777889999999999987   44443322    221 1   47899999999998642110              


Q ss_pred             H-----------HHHhhh---CCCc-------ccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           64 A-----------EITDKL---GLHS-------LRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        64 ~-----------~~~~~~---~~~~-------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +           ++...+   ++..       ......+++++||++|.|++++++++...+.
T Consensus       155 ~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          155 IQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence            0           111111   1100       0023468999999999999999999988765

>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=99.23  E-value=1.9e-11  Score=80.96  Aligned_cols=86  Identities=13%  Similarity=0.108  Sum_probs=59.8

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+++.+|++++|+|++++.+... ..++..+      ..+|+++|+||+|+.+.....    .  .... ....+++++|
T Consensus       299 ~~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l------~~~piivV~NK~Dl~~~~~~~----~--~~~~-~~~~~~i~iS  364 (462)
T 3geh_A          299 QAANTADLVLLTIDAATGWTTGD-QEIYEQV------KHRPLILVMNKIDLVEKQLIT----S--LEYP-ENITQIVHTA  364 (462)
T ss_dssp             CCCCSCSEEEEEEETTTCSCHHH-HHHHHHH------TTSCEEEEEECTTSSCGGGST----T--CCCC-TTCCCEEEEB
T ss_pred             hhhhcCCEEEEEeccCCCCCHHH-HHHHHhc------cCCcEEEEEECCCCCcchhhH----H--HHHh-ccCCcEEEEE
Confidence            46889999999999987544332 2333332      347999999999986532111    1  1111 1334688999


Q ss_pred             cccCCCHHHHHHHHHHHHHh
Q 044598           87 ATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~~  106 (110)
                      |++|.|++++++++.+.+..
T Consensus       365 Aktg~Gi~eL~~~i~~~~~~  384 (462)
T 3geh_A          365 AAQKQGIDSLETAILEIVQT  384 (462)
T ss_dssp             TTTTBSHHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999998754

>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=99.23  E-value=1.1e-10  Score=72.52  Aligned_cols=90  Identities=20%  Similarity=0.204  Sum_probs=63.0

Q ss_pred             hHHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----CCHHHHHhhhCCCcccC
Q 044598            4 LWRHYF--QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----MNAAEITDKLGLHSLRQ   77 (110)
Q Consensus         4 ~~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~   77 (110)
                      +++.|+  .++|++++|+|+++..   ....++..+...   ...|+++|+||+|+.+.    .....+...++      
T Consensus        72 ~~~~~~~~~~~d~vi~v~D~~~~~---~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~lg------  139 (271)
T 3k53_A           72 IARNFILDGNADVIVDIVDSTCLM---RNLFLTLELFEM---EVKNIILVLNKFDLLKKKGAKIDIKKMRKELG------  139 (271)
T ss_dssp             HHHHHHHTTCCSEEEEEEEGGGHH---HHHHHHHHHHHT---TCCSEEEEEECHHHHHHHTCCCCHHHHHHHHS------
T ss_pred             HHHHhhhccCCcEEEEEecCCcch---hhHHHHHHHHhc---CCCCEEEEEEChhcCcccccHHHHHHHHHHcC------
Confidence            456676  6899999999998743   223344444332   23899999999997321    12333444433      


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                        .+++++||++|.|+++++.++.+.+...
T Consensus       140 --~~~~~~Sa~~g~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          140 --VPVIPTNAKKGEGVEELKRMIALMAEGK  167 (271)
T ss_dssp             --SCEEECBGGGTBTHHHHHHHHHHHHHTC
T ss_pred             --CcEEEEEeCCCCCHHHHHHHHHHHHhcc
Confidence              4688999999999999999999887643

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.21  E-value=6.6e-11  Score=79.57  Aligned_cols=56  Identities=13%  Similarity=0.087  Sum_probs=40.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      |+..+..+++.+|++|+|+|+++....... ..+..+. .   .++|+++|+||+|+.+..
T Consensus        95 f~~~~~~~l~~aD~allVvDa~~g~~~~t~-~~~~~~~-~---~~iPiivviNK~Dl~~~~  150 (528)
T 3tr5_A           95 FTEDTYRTLTAVDSALMVIDAAKGVEPRTI-KLMEVCR-L---RHTPIMTFINKMDRDTRP  150 (528)
T ss_dssp             CCHHHHHGGGGCSEEEEEEETTTCSCHHHH-HHHHHHH-T---TTCCEEEEEECTTSCCSC
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHHHHHH-H---cCCCEEEEEeCCCCcccc
Confidence            455678899999999999999874433332 2333332 2   478999999999996543

>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=99.20  E-value=2.3e-12  Score=77.25  Aligned_cols=61  Identities=30%  Similarity=0.417  Sum_probs=46.9

Q ss_pred             cchHHHhccc----CCEEEEEEECC-ChhhHHHHHHHHHHHhcCCC---CCCCeEEEEeeCCCCCCCCC
Q 044598            2 RPLWRHYFQN----TQGLIFVVDSN-DRDRVVEARDELHRMLNEDE---LRDAVLLVFANKQDLPNAMN   62 (110)
Q Consensus         2 ~~~~~~~~~~----~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~---~~~~~~iiv~nK~Dl~~~~~   62 (110)
                      +.++..|+++    +|++|+|+|++ ++.++.....++..++....   ..+.|+++|+||+|+.+...
T Consensus        69 ~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  137 (218)
T 1nrj_B           69 RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  137 (218)
T ss_dssp             THHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             HHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCC
Confidence            4577788877    99999999998 76777777777777654321   24799999999999976543

>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=99.19  E-value=4.6e-11  Score=78.71  Aligned_cols=95  Identities=16%  Similarity=0.107  Sum_probs=61.6

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      .+++.+|++++|+|+++..+..+  ..+...+..   .++|+++|+||+|+.+...  .+++...+..........++++
T Consensus       259 ~~i~~ad~vllv~d~~~~~~~~~--~~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (439)
T 1mky_A          259 DSIEKADVVVIVLDATQGITRQD--QRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIF  333 (439)
T ss_dssp             HHHHHCSEEEEEEETTTCCCHHH--HHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHhhCCEEEEEEeCCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEE
Confidence            46889999999999886433332  223333322   4789999999999865321  2222211100001112347889


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|.|++++++.+.+...+
T Consensus       334 ~SA~~g~gv~~l~~~i~~~~~~  355 (439)
T 1mky_A          334 TSADKGWNIDRMIDAMNLAYAS  355 (439)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999887654

>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=99.19  E-value=2.4e-11  Score=80.36  Aligned_cols=92  Identities=23%  Similarity=0.252  Sum_probs=59.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.++..+++.+|++|+|+|..+.  +.....++.+.+..   .++|+++|+||+|+.+..  ....+...+    ... .
T Consensus        93 ~~~~~~~~~~ad~il~VvD~~~~--~~~~d~~l~~~l~~---~~~pvilV~NK~D~~~~~--~~~~e~~~l----g~~-~  160 (456)
T 4dcu_A           93 RQQAEIAMDEADVIIFMVNGREG--VTAADEEVAKILYR---TKKPVVLAVNKLDNTEMR--ANIYDFYSL----GFG-E  160 (456)
T ss_dssp             HHHHHHHHHHCSEEEEEEESSSC--SCHHHHHHHHHHTT---CCSCEEEEEECC-----------CCSGGG----SSS-S
T ss_pred             HHHHHhhHhhCCEEEEEEeCCCC--CChHHHHHHHHHHH---cCCCEEEEEECccchhhh--hhHHHHHHc----CCC-c
Confidence            45678889999999999998753  22334455565544   579999999999985331  111111110    111 3


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+++||++|.|+.++++++.+.+.
T Consensus       161 ~~~iSA~~g~gv~~L~~~i~~~l~  184 (456)
T 4dcu_A          161 PYPISGTHGLGLGDLLDAVAEHFK  184 (456)
T ss_dssp             EEECCTTTCTTHHHHHHHHHTTGG
T ss_pred             eEEeecccccchHHHHHHHHhhcc
Confidence            458999999999999999988764

>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=99.19  E-value=7.7e-11  Score=76.03  Aligned_cols=92  Identities=18%  Similarity=0.109  Sum_probs=60.2

Q ss_pred             hcccCCEEEEEEECCChh--hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH---HH----hhhCCCcccCc
Q 044598            8 YFQNTQGLIFVVDSNDRD--RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE---IT----DKLGLHSLRQR   78 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~---~~----~~~~~~~~~~~   78 (110)
                      .+..+|++++|+|++++.  ..... ..+..++......+.|+++|+||+|+.+.. ..+   ..    ..+.     ..
T Consensus       254 ~~~~aD~il~VvD~s~~~~~~~~~~-~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~-~~~~~~~~~~l~~~l~-----~~  326 (364)
T 2qtf_A          254 EAKYSDALILVIDSTFSENLLIETL-QSSFEILREIGVSGKPILVTLNKIDKINGD-LYKKLDLVEKLSKELY-----SP  326 (364)
T ss_dssp             GGGGSSEEEEEEETTSCHHHHHHHH-HHHHHHHHHHTCCSCCEEEEEECGGGCCSC-HHHHHHHHHHHHHHHC-----SC
T ss_pred             HHHhCCEEEEEEECCCCcchHHHHH-HHHHHHHHHhCcCCCCEEEEEECCCCCCch-HHHHHHHHHHHHHHhc-----CC
Confidence            578999999999998764  22222 222223322222468999999999986543 211   11    1110     12


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ..+++++||+++.|++++++++.+.+..
T Consensus       327 ~~~~~~~SA~~g~gi~~L~~~I~~~l~~  354 (364)
T 2qtf_A          327 IFDVIPISALKRTNLELLRDKIYQLATQ  354 (364)
T ss_dssp             EEEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCcCHHHHHHHHHHHhcc
Confidence            3467899999999999999999887754

>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=99.16  E-value=6e-11  Score=79.01  Aligned_cols=94  Identities=13%  Similarity=0.080  Sum_probs=61.2

Q ss_pred             chHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH----HHHhhhCCCcc
Q 044598            3 PLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA----EITDKLGLHSL   75 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~----~~~~~~~~~~~   75 (110)
                      ..+..+++.+|++|+|+|+++   +.+.+.    +..+ ..   .+.|.++++||+|+.+....+    ++...+... .
T Consensus        88 ~~~~~~~~~aD~~ilVvda~~g~~~qt~e~----l~~~-~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~-~  158 (482)
T 1wb1_A           88 RAVVSAADIIDLALIVVDAKEGPKTQTGEH----MLIL-DH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQST-H  158 (482)
T ss_dssp             HHHHHHTTSCCEEEEEEETTTCSCHHHHHH----HHHH-HH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHS-S
T ss_pred             HHHHHHHhhCCEEEEEEecCCCccHHHHHH----HHHH-HH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhh-c
Confidence            345677899999999999986   333322    2211 11   367889999999996522111    122221100 0


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .....+++++||++|.|+++++++|.+.+.
T Consensus       159 ~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          159 NLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             SGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            011457899999999999999999998764

>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=99.13  E-value=6e-11  Score=77.56  Aligned_cols=95  Identities=15%  Similarity=0.096  Sum_probs=58.6

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~   81 (110)
                      ...+..+|++|+|+|+++.....+....+..+...   ...|+++++||+|+.+...    .+++...+..  ......+
T Consensus       101 ~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~  175 (410)
T 1kk1_A          101 LAGASLMDGAILVIAANEPCPRPQTREHLMALQII---GQKNIIIAQNKIELVDKEKALENYRQIKEFIEG--TVAENAP  175 (410)
T ss_dssp             HHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTT--STTTTCC
T ss_pred             HhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc---CCCcEEEEEECccCCCHHHHHHHHHHHHHHHHh--cCcCCCe
Confidence            34466789999999998531111112222211111   2368999999999865321    1222332221  1123568


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|.|+++++++|.+.+.
T Consensus       176 ~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          176 IIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             EEEeeCCCCCCHHHHHHHHHHhCC
Confidence            999999999999999999988664

>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=99.12  E-value=8e-11  Score=73.60  Aligned_cols=90  Identities=12%  Similarity=0.091  Sum_probs=61.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      .+...++++|++++|+|+.+|.+...  ..+.+++     .++|.++|+||+|+.+....+...+.+     ...+.+++
T Consensus        16 ~~~~~l~~aDvVl~VvDAr~p~~~~~--~~l~~~l-----~~kp~ilVlNK~DL~~~~~~~~~~~~~-----~~~g~~~i   83 (282)
T 1puj_A           16 EVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL-----KNKPRIMLLNKADKADAAVTQQWKEHF-----ENQGIRSL   83 (282)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC-----SSSCEEEEEECGGGSCHHHHHHHHHHH-----HTTTCCEE
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCccCC--HHHHHHH-----CCCCEEEEEECcccCCHHHHHHHHHHH-----HhcCCcEE
Confidence            34557899999999999998755421  1233333     468999999999996521111222222     12234678


Q ss_pred             eeecccCCCHHHHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+||+++.|++++++.+.+.+.
T Consensus        84 ~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           84 SINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHH
T ss_pred             EEECCCcccHHHHHHHHHHHHH
Confidence            9999999999999998887765

>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=99.12  E-value=6.1e-11  Score=74.72  Aligned_cols=91  Identities=16%  Similarity=0.129  Sum_probs=59.8

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC-CCHHHHHhhhCCCcccCcc-eEE
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-MNAAEITDKLGLHSLRQRH-WYI   82 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~-~~~   82 (110)
                      ...+++.+|++++|+|+++   +.....++...+..   .+.|.++++||+|+.+. ....+....+.    ...+ ..+
T Consensus        82 ~~~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~~---~~~P~ilvlNK~D~~~~~~~~~~~l~~l~----~~~~~~~~  151 (301)
T 1ega_A           82 ASSSIGDVELVIFVVEGTR---WTPDDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLA----SQMNFLDI  151 (301)
T ss_dssp             TTSCCCCEEEEEEEEETTC---CCHHHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHH----TTSCCSEE
T ss_pred             HHHHHhcCCEEEEEEeCCC---CCHHHHHHHHHHHh---cCCCEEEEEECcccCccHHHHHHHHHHHH----HhcCcCce
Confidence            4567889999999999876   22222344444432   46899999999998652 11111111111    0112 268


Q ss_pred             EeeecccCCCHHHHHHHHHHHHH
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++||+++.|++++++++.+.+.
T Consensus       152 i~iSA~~g~~v~~l~~~i~~~l~  174 (301)
T 1ega_A          152 VPISAETGLNVDTIAAIVRKHLP  174 (301)
T ss_dssp             EECCTTTTTTHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            89999999999999999987654

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.12  E-value=9.2e-11  Score=73.39  Aligned_cols=96  Identities=15%  Similarity=0.097  Sum_probs=60.4

Q ss_pred             chHHHhcccCCEEE-EEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcc
Q 044598            3 PLWRHYFQNTQGLI-FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         3 ~~~~~~~~~~~~~i-~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~   79 (110)
                      .++..|+++++.++ +|+|+++.....+...++.. +..   .+.|+++|+||+|+.+...  .+.+...+  .......
T Consensus       153 ~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~-~~~---~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~--~~~~~~~  226 (299)
T 2aka_B          153 DMLMQFVTKENCLILAVSPANSDLANSDALKIAKE-VDP---QGQRTIGVITKLDLMDEGTDARDVLENKL--LPLRRGY  226 (299)
T ss_dssp             HHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHH-HCT---TCSSEEEEEECGGGSCTTCCCHHHHTTCS--SCCTTCE
T ss_pred             HHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHH-hCC---CCCeEEEEEEccccCCCCchHHHHHhCCc--CcCCCCc
Confidence            46678899998777 79998764332222222322 222   4689999999999865432  22221111  0111123


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      .+++++||++|.|++++++++.+..
T Consensus       227 ~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          227 IGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             EECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             EEEECCChhhccccccHHHHHHHHH
Confidence            4788999999999999999987743

>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=99.09  E-value=6.7e-11  Score=79.01  Aligned_cols=94  Identities=19%  Similarity=0.197  Sum_probs=60.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCC----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLH----   73 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~----   73 (110)
                      |..++..+++.+|++++|+|+++   +.+.+.    +.... .   .+.|+++++||+|+.+... +.+...+...    
T Consensus        64 f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~----l~~~~-~---~~vPiIVviNKiDl~~~~~-~~v~~~l~~~~~~~  134 (501)
T 1zo1_I           64 FTSMRARGAQATDIVVLVVAADDGVMPQTIEA----IQHAK-A---AQVPVVVAVNKIDKPEADP-DRVKNELSQYGILP  134 (501)
T ss_dssp             CTTSBCSSSBSCSSEEEEEETTTBSCTTTHHH----HHHHH-H---TTCCEEEEEECSSSSTTCC-CCTTCCCCCCCCCT
T ss_pred             HHHHHHHHHhhCCEEEEEeecccCccHHHHHH----HHHHH-h---cCceEEEEEEeccccccCH-HHHHHHHHHhhhhH
Confidence            45566777899999999999876   233322    22221 1   4689999999999965321 1111111100    


Q ss_pred             cccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           74 SLRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                      .......+++++||++|.|++++++++...
T Consensus       135 ~~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I          135 EEWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             TCCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             HHhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence            001123689999999999999999998653

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.07  E-value=3.5e-10  Score=66.45  Aligned_cols=67  Identities=30%  Similarity=0.437  Sum_probs=49.2

Q ss_pred             cchHHHhccc----CCEEEEEEECC-ChhhHHHHHHHHHHHhcCCC---CCCCeEEEEeeCCCCCCCCCHHHHHh
Q 044598            2 RPLWRHYFQN----TQGLIFVVDSN-DRDRVVEARDELHRMLNEDE---LRDAVLLVFANKQDLPNAMNAAEITD   68 (110)
Q Consensus         2 ~~~~~~~~~~----~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~---~~~~~~iiv~nK~Dl~~~~~~~~~~~   68 (110)
                      +..|..++.+    +|++++|+|++ ++.++.....|+..++....   ..+.|+++|+||+|+.+....+++..
T Consensus       105 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  179 (193)
T 2ged_A          105 RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKD  179 (193)
T ss_dssp             SCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             HHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHH
Confidence            4566777766    89999999999 77778777777766654321   14799999999999977655444433

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.02  E-value=1.1e-09  Score=70.77  Aligned_cols=93  Identities=8%  Similarity=-0.041  Sum_probs=59.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeE-EEEee-CCCCCCCCCH----HHHHhhhCCCcccC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVL-LVFAN-KQDLPNAMNA----AEITDKLGLHSLRQ   77 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-iiv~n-K~Dl~~~~~~----~~~~~~~~~~~~~~   77 (110)
                      .+...++.+|++|+|+| ++ ....+...++.....    .+.|. ++++| |+|+ +....    +++.+.+..  ...
T Consensus        76 ~~~~~~~~aD~ailVvd-~~-g~~~qt~e~~~~~~~----~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~--~~~  146 (370)
T 2elf_A           76 SLITALNISDIAVLCIP-PQ-GLDAHTGECIIALDL----LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSG--TVL  146 (370)
T ss_dssp             HHHHHHHTCSEEEEEEC-TT-CCCHHHHHHHHHHHH----TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTT--STT
T ss_pred             HHHHHHHHCCEEEEEEc-CC-CCcHHHHHHHHHHHH----cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHh--cCC
Confidence            34556789999999999 53 223333344333221    35666 88999 9998 43211    223332221  112


Q ss_pred             cceEEEe--eeccc---CCCHHHHHHHHHHHHH
Q 044598           78 RHWYIQS--TCATS---GEGLYEGLDWLSNNIA  105 (110)
Q Consensus        78 ~~~~~~~--~Sa~~---~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++  +||++   ++|++++++.|.+.+.
T Consensus       147 ~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          147 QDWECISLNTNKSAKNPFEGVDELKARINEVAE  179 (370)
T ss_dssp             TTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHH
T ss_pred             CceEEEecccccccCcCCCCHHHHHHHHHhhcc
Confidence            3468999  99999   9999999999988765

>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=99.00  E-value=1.4e-10  Score=76.38  Aligned_cols=90  Identities=14%  Similarity=0.148  Sum_probs=53.9

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHH-------HHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CH-------HHHH
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEA-------RDELHRMLNEDELRDAVLLVFANKQDLPNAM-NA-------AEIT   67 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~-------~~~~   67 (110)
                      ..+..+++.+|++|+|+|+++ .+++..       ...+.... .  ....|+++++||+|+.+.. ..       +++.
T Consensus        99 ~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~-~--~~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i~  174 (435)
T 1jny_A           99 KNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAK-T--MGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVS  174 (435)
T ss_dssp             HHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHH-H--TTCTTCEEEEECGGGSSSTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHH-H--cCCCeEEEEEEcccCCCccccHHHHHHHHHHHH
Confidence            456778999999999999987 445422       22221111 1  1224689999999997631 11       1222


Q ss_pred             hhhCCCcccCcceEEEeeecccCCCHHHH
Q 044598           68 DKLGLHSLRQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      ..+....+.....+++++||++|.|+.++
T Consensus       175 ~~~~~~~~~~~~~~~i~iSA~~g~~v~e~  203 (435)
T 1jny_A          175 KFMRSYGFNTNKVRFVPVVAPSGDNITHK  203 (435)
T ss_dssp             HHHHHTTCCCTTCEEEECBTTTTBTTTBC
T ss_pred             HHHHHcCCCcCCceEEEeecccCcccccc
Confidence            22211011122468999999999999754

>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=98.98  E-value=2e-09  Score=70.87  Aligned_cols=91  Identities=13%  Similarity=-0.007  Sum_probs=54.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH------HHHHhhhCCCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA------AEITDKLGLHSL   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~------~~~~~~~~~~~~   75 (110)
                      ...+..+++.+|++|+|+|+++... .+...++......   ..+|+++|+||+|+.+....      +++...+.....
T Consensus       118 ~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g~  193 (434)
T 1zun_B          118 TRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL---GIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAF  193 (434)
T ss_dssp             HHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT---TCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhCC
Confidence            3456678899999999999986422 2223333222111   23479999999999753211      111111110000


Q ss_pred             cCcceEEEeeecccCCCHHHH
Q 044598           76 RQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      .....+++++||++|.|++++
T Consensus       194 ~~~~~~~i~vSA~~g~gi~~~  214 (434)
T 1zun_B          194 KPTTMAFVPMSALKGDNVVNK  214 (434)
T ss_dssp             CCSEEEEEECCTTTCTTTSSC
T ss_pred             CccCceEEEEeccCCCCcccc
Confidence            023468999999999999874

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.98  E-value=2.2e-09  Score=70.79  Aligned_cols=93  Identities=16%  Similarity=0.132  Sum_probs=54.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhh---H---HHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC----HHH----H
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDR---V---VEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN----AAE----I   66 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~---~---~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~----~~~----~   66 (110)
                      .+.+..+++.||++|+|+|+++...   +   .+....+.....    .+.| +++++||+|+.....    .++    +
T Consensus       109 ~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~----~~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~  184 (439)
T 3j2k_7          109 VPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT----AGVKHLIVLINKMDDPTVNWSNERYEECKEKL  184 (439)
T ss_pred             HHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH----cCCCeEEEEeecCCCcccchHHHHHHHHHHHH
Confidence            3456677889999999999986421   0   122222222211    3455 999999999854211    111    1


Q ss_pred             HhhhCCCccc-CcceEEEeeecccCCCHHHHHH
Q 044598           67 TDKLGLHSLR-QRHWYIQSTCATSGEGLYEGLD   98 (110)
Q Consensus        67 ~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~   98 (110)
                      ...+....+. ...++++++||++|.|++++.+
T Consensus       185 ~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          185 VPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            1111100011 1246899999999999998654

>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=98.98  E-value=2.6e-10  Score=74.42  Aligned_cols=98  Identities=19%  Similarity=0.179  Sum_probs=60.5

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-HH----HHHhhhCCCccc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-AA----EITDKLGLHSLR   76 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~   76 (110)
                      ..+..+++.+|++|+|+|+++... .+...++..+..    .+.| +++++||+|+.+... .+    ++...+......
T Consensus        90 ~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~----~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  164 (405)
T 2c78_A           90 KNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ----VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFP  164 (405)
T ss_dssp             HHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHH----TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhccc
Confidence            456677899999999999986432 233344433321    3577 889999999964211 11    122221110011


Q ss_pred             CcceEEEeeecccCCC------------------HHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEG------------------LYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~------------------i~~l~~~l~~~~~  105 (110)
                      ....+++++||++|.|                  ++++++.+.+.+.
T Consensus       165 ~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          165 GDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             TTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             ccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            1245789999999987                  7778877776553

>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=98.97  E-value=3.9e-10  Score=73.45  Aligned_cols=98  Identities=20%  Similarity=0.140  Sum_probs=60.0

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCCH-----HHHHhhhCCCccc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNA-----AEITDKLGLHSLR   76 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~-----~~~~~~~~~~~~~   76 (110)
                      ..+..+++.+|++|+|+|+++... .+....+..+. .   .+.| +++++||+|+.+....     +++.+.+......
T Consensus        81 ~~~~~~~~~aD~~ilVvda~~g~~-~qt~e~l~~~~-~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  155 (397)
T 1d2e_A           81 KNMITGTAPLDGCILVVAANDGPM-PQTREHLLLAR-Q---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYK  155 (397)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSC-HHHHHHHHHHH-H---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHhhHhhCCEEEEEEECCCCCC-HHHHHHHHHHH-H---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            355677899999999999986322 22223332221 1   3677 6899999999642110     1222222110111


Q ss_pred             CcceEEEeeecccCCC----------HHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEG----------LYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~----------i~~l~~~l~~~~~  105 (110)
                      ....+++++||++|.|          ++++++.+.+.+.
T Consensus       156 ~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          156 GEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             TTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             cccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence            2245889999999764          8899998887664

>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=98.96  E-value=1e-09  Score=73.18  Aligned_cols=91  Identities=20%  Similarity=0.157  Sum_probs=52.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhH------HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhh----
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRV------VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDK----   69 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~------~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~----   69 (110)
                      ...+..+++.+|++|+|+|+++....      ......+. ....  ...+|+++|+||+|+.+...  .+++...    
T Consensus       125 ~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~-~~~~--~~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~  201 (483)
T 3p26_A          125 VPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHML-LASS--LGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPY  201 (483)
T ss_dssp             HHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHH-HHHH--TTCCCEEEEEECGGGGTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHH-HHHH--cCCCcEEEEEECcCcccchHHHHHHHHHHHHHH
Confidence            45667789999999999999874221      11111111 1111  12357999999999965321  1111111    


Q ss_pred             hCCCcccCcceEEEeeecccCCCHHH
Q 044598           70 LGLHSLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        70 ~~~~~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      +..........+++++||++|.|+++
T Consensus       202 l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          202 LVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHcCCCcccceEEEEeeecCCCccc
Confidence            10000112357899999999999975

>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=98.91  E-value=3.5e-09  Score=69.41  Aligned_cols=93  Identities=20%  Similarity=0.199  Sum_probs=60.4

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCC-CCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNED-ELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .++++.+++++|++ ...+.+...+..+..... .+...|.++++||+|+......+.+...+     ......++.+||
T Consensus       233 ~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~~~~~~l~~~l-----~~~g~~vi~iSA  306 (416)
T 1udx_A          233 IARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKALADAL-----AREGLAVLPVSA  306 (416)
T ss_dssp             HTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHHHHHH-----HTTTSCEEECCT
T ss_pred             HHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhHHHHHHHHHHH-----HhcCCeEEEEEC
Confidence            45799999999997 333444433333322211 12358899999999986431112222221     123456889999


Q ss_pred             ccCCCHHHHHHHHHHHHHhh
Q 044598           88 TSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++|+++++.++.+.+...
T Consensus       307 ~~g~gi~eL~~~i~~~l~~~  326 (416)
T 1udx_A          307 LTGAGLPALKEALHALVRST  326 (416)
T ss_dssp             TTCTTHHHHHHHHHHHHHTS
T ss_pred             CCccCHHHHHHHHHHHHHhc
Confidence            99999999999999988653

>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=98.90  E-value=2.8e-09  Score=67.15  Aligned_cols=99  Identities=13%  Similarity=0.118  Sum_probs=59.6

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..|++++|++++|+|+++..........+...+..   .+.|+++|+||+|+.+...  .+.+...  .........
T Consensus       159 ~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~---~~~~~i~v~NK~Dl~~~~~~~~~~~~~~--~~~~~~~~~  233 (315)
T 1jwy_B          159 RMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP---EGKRTIGVITKLDLMDKGTDAMEVLTGR--VIPLTLGFI  233 (315)
T ss_dssp             HHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS---SCSSEEEEEECTTSSCSSCCCHHHHTTS--SSCCTTCEE
T ss_pred             HHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCC---CCCcEEEEEcCcccCCcchHHHHHHhCC--CccCCCCeE
Confidence            45677899999999999974322110111122233322   4689999999999865432  2222211  111111234


Q ss_pred             EEEeeeccc---CCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATS---GEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~---~~~i~~l~~~l~~~~~~  106 (110)
                      ++..+||.+   +.|+.+++..+.+.+..
T Consensus       234 ~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          234 GVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             ECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             EEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            566677777   89999999998887754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.89  E-value=4.2e-09  Score=72.97  Aligned_cols=100  Identities=16%  Similarity=0.224  Sum_probs=63.5

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-----CHH-------HHHhhh
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-----NAA-------EITDKL   70 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-----~~~-------~~~~~~   70 (110)
                      ..+..|+++||++|+|+|++++.+..+... +...+..   .+.|+++|+||+|+....     ..+       .+...+
T Consensus       192 ~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~-l~~~l~~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~  267 (695)
T 2j69_A          192 ELSLGYVNNCHAILFVMRASQPCTLGERRY-LENYIKG---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVF  267 (695)
T ss_dssp             HHHTHHHHSSSEEEEEEETTSTTCHHHHHH-HHHHTTT---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCEEEEEEeCCCccchhHHHH-HHHHHHh---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHH
Confidence            356688999999999999987655444332 3333322   367899999999985321     100       111110


Q ss_pred             --CCCcc-c-----CcceEEEeeecc--------------cCCCHHHHHHHHHHHHHh
Q 044598           71 --GLHSL-R-----QRHWYIQSTCAT--------------SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        71 --~~~~~-~-----~~~~~~~~~Sa~--------------~~~~i~~l~~~l~~~~~~  106 (110)
                        .+... .     ....+++++||+              ++.|+++++..+.+.+..
T Consensus       268 ~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          268 NANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             HHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence              00000 0     123468899999              999999999999887743

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=98.88  E-value=2.2e-08  Score=67.51  Aligned_cols=56  Identities=18%  Similarity=0.134  Sum_probs=38.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      |...+..+++.+|++|+|+|+++.... .....+.. ...   .+.|+++++||+|+....
T Consensus        95 f~~~~~~~l~~aD~~IlVvDa~~g~~~-~t~~~~~~-~~~---~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A           95 FSEDTYRTLTAVDCCLMVIDAAKGVED-RTRKLMEV-TRL---RDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             CCHHHHHGGGGCSEEEEEEETTTCSCH-HHHHHHHH-HTT---TTCCEEEEEECTTSCCSC
T ss_pred             HHHHHHHHHHHCCEEEEEEeCCccchH-HHHHHHHH-HHH---cCCCEEEEEcCcCCcccc
Confidence            345667789999999999999864221 12222222 222   478999999999997653

>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=98.85  E-value=4.7e-09  Score=64.57  Aligned_cols=96  Identities=13%  Similarity=0.178  Sum_probs=57.1

Q ss_pred             HHhcccCCEEEEEEECCChhhH-HHHHHHHHHHhcCCCCCCCeEEEEee-CCCCCCCCCHHH------------HHhhhC
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRV-VEARDELHRMLNEDELRDAVLLVFAN-KQDLPNAMNAAE------------ITDKLG   71 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~~~~iiv~n-K~Dl~~~~~~~~------------~~~~~~   71 (110)
                      ..+++++|++++|+|+++.... .....++.+.... . ...|.++++| |+|+.+. ....            +...++
T Consensus       100 ~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~-~-~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~  176 (260)
T 2xtp_A          100 LLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGE-D-AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACG  176 (260)
T ss_dssp             HHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCG-G-GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTT
T ss_pred             HhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCc-h-hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhC
Confidence            3478899999999999862222 2222344443321 1 1356666666 9999743 2222            122221


Q ss_pred             CCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           72 LHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        72 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .. .  ..+..+++||+++.|+++++.++.+.+...
T Consensus       177 ~~-~--~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          177 GR-I--CAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             TC-E--EECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             Ce-E--EEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            10 0  001116899999999999999999988753

>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=98.82  E-value=2.5e-09  Score=77.24  Aligned_cols=98  Identities=18%  Similarity=0.162  Sum_probs=60.1

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCCH-----HHHHhhhCCCccc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMNA-----AEITDKLGLHSLR   76 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~-----~~~~~~~~~~~~~   76 (110)
                      ..+..+++.+|++|+|+|+++... .+...++..+..    .++| +++++||+|+.+....     +++...+......
T Consensus       374 ~~mi~gas~AD~aILVVDAtdGv~-~QTrEhL~ll~~----lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~  448 (1289)
T 3avx_A          374 KNMITGAAQMDGAILVVAATDGPM-PQTREHILLGRQ----VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFP  448 (1289)
T ss_dssp             HHHHHTSCCCSEEEEEEETTTCSC-TTHHHHHHHHHH----HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHhhCCEEEEEEcCCccCc-HHHHHHHHHHHH----cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhcccc
Confidence            345667899999999999986421 222233332221    3577 7899999999752111     1222222110111


Q ss_pred             CcceEEEeeecccC--------CCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSG--------EGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~--------~~i~~l~~~l~~~~~  105 (110)
                      ....+++++||++|        .|++++++.+.+.+.
T Consensus       449 ~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          449 GDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             TTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             ccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            23468999999999        468889988887653

>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=98.81  E-value=1.2e-09  Score=70.30  Aligned_cols=91  Identities=15%  Similarity=0.127  Sum_probs=56.8

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCc--ccCcce
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHS--LRQRHW   80 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~--~~~~~~   80 (110)
                      ...+.+|++++|+|+........        +. ....+.|.++|+||+|+.+....    .++...+....  ......
T Consensus       188 ~~~~~aD~vl~V~d~~~~~~~~~--------l~-~~~~~~p~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~  258 (355)
T 3p32_A          188 AVANMVDTFVLLTLARTGDQLQG--------IK-KGVLELADIVVVNKADGEHHKEARLAARELSAAIRLIYPREALWRP  258 (355)
T ss_dssp             HHHTTCSEEEEEEESSTTCTTTT--------CC-TTSGGGCSEEEEECCCGGGHHHHHHHHHHHHHHHHHHSTTCCSCCC
T ss_pred             HHHHhCCEEEEEECCCCCccHHH--------HH-HhHhhcCCEEEEECCCCcChhHHHHHHHHHHHHHhhccccccCCCC
Confidence            34588999999999865332211        11 11235799999999998533211    11222111000  001234


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++++||++|+|++++++++.+.+..
T Consensus       259 ~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          259 PVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             CEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            78999999999999999999988754

>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=98.80  E-value=6.2e-08  Score=67.17  Aligned_cols=55  Identities=20%  Similarity=0.140  Sum_probs=39.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      |...+..+++.+|++|+|+|+++........ .+.....    .+.|+++|+||+|+...
T Consensus        90 f~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~-~~~~~~~----~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           90 FTIEVERSMRVLDGAIVVFDSSQGVEPQSET-VWRQAEK----YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTTCSCHHHHH-HHHHHHH----TTCCEEEEEECTTSTTC
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCcchhhHH-HHHHHHH----cCCCEEEEEECCCcccC
Confidence            4556788999999999999998754443332 2332222    47899999999999754

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.80  E-value=3.8e-09  Score=72.24  Aligned_cols=91  Identities=18%  Similarity=0.083  Sum_probs=52.4

Q ss_pred             chHHHhcccCCEEEEEEECCChhh------HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHH----HHhhh
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDR------VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAE----ITDKL   70 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~------~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~----~~~~~   70 (110)
                      ..+..+++.+|++|+|+|+++...      .......+.... .  ...+|+++|+||+|+.+...  .++    +...+
T Consensus       260 ~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~-~--lgi~~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l  336 (611)
T 3izq_1          260 PNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLAS-S--LGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYL  336 (611)
T ss_dssp             HHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHH-T--TTCCEEEEEEECTTTTTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHH-H--cCCCeEEEEEecccccchhHHHHHHHHHHHHHHH
Confidence            345667899999999999985310      011222222211 1  12356999999999975221  111    11111


Q ss_pred             CCCcccCcceEEEeeecccCCCHHHH
Q 044598           71 GLHSLRQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        71 ~~~~~~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      ..........+++++||++|.|+.++
T Consensus       337 ~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          337 VDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HhhcccccCccEEeeecccCCCcccc
Confidence            00001123568999999999999865

>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=98.74  E-value=4.1e-09  Score=64.77  Aligned_cols=95  Identities=9%  Similarity=-0.038  Sum_probs=54.3

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHH---HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhC-CC----------
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARD---ELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLG-LH----------   73 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~---~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~-~~----------   73 (110)
                      ++.+ +++++++|+.......+...   ........   .+.|+++|+||+|+.+....+++...+. ..          
T Consensus       135 ~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~---~~~p~~iv~NK~D~~~~~~~~~~~~~l~~~~~~~~~l~~~~  210 (262)
T 1yrb_A          135 NLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDLLSEEEKERHRKYFEDIDYLTARLKLDP  210 (262)
T ss_dssp             TSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGGCCHHHHHHHHHHHHCHHHHHHHHHHCC
T ss_pred             HHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcc---cCCCeEEEEecccccccccHHHHHHHHhChHHHHHHHhccc
Confidence            4466 89999999754322222111   11111111   3589999999999864321111111110 00          


Q ss_pred             --------------cccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           74 --------------SLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        74 --------------~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                                    .......+++++||++++|++++++++.+.+..
T Consensus       211 ~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          211 SMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             SHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence                          000122367899999999999999999987753

>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=98.73  E-value=3.5e-09  Score=70.34  Aligned_cols=92  Identities=12%  Similarity=0.086  Sum_probs=49.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChh---hH---HHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCC-CHH-------HH
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRD---RV---VEARDELHRMLNEDELRDAV-LLVFANKQDLPNAM-NAA-------EI   66 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~---~~---~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~-~~~-------~~   66 (110)
                      ...+..+++.+|++|+|+|+++..   ++   .+....+....    ..+.| +++++||+|+.+.. +.+       ++
T Consensus       135 ~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~----~~~vp~iivviNK~Dl~~~~~~~~~~~~i~~e~  210 (467)
T 1r5b_A          135 VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLAR----TQGINHLVVVINKMDEPSVQWSEERYKECVDKL  210 (467)
T ss_dssp             -------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHH----HTTCSSEEEEEECTTSTTCSSCHHHHHHHHHHH
T ss_pred             HHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHH----HcCCCEEEEEEECccCCCccccHHHHHHHHHHH
Confidence            345566788999999999998641   11   11222222221    13566 99999999996432 111       12


Q ss_pred             HhhhCCC-ccc-CcceEEEeeecccCCCHHHHH
Q 044598           67 TDKLGLH-SLR-QRHWYIQSTCATSGEGLYEGL   97 (110)
Q Consensus        67 ~~~~~~~-~~~-~~~~~~~~~Sa~~~~~i~~l~   97 (110)
                      ...+... .+. ....+++++||++|.|+.+++
T Consensus       211 ~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          211 SMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            2221100 010 125689999999999998754

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.73  E-value=2.9e-09  Score=72.54  Aligned_cols=97  Identities=19%  Similarity=0.118  Sum_probs=50.4

Q ss_pred             hHHHhcccCCEEEEEEECCChh---h---HHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC--H----HHHHhhh
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRD---R---VVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN--A----AEITDKL   70 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~---~---~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~--~----~~~~~~~   70 (110)
                      .+..+++.+|++|+|+|+++..   .   .......+.....    .+.| +++|+||+|+.+...  .    .++...+
T Consensus       271 ~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~----lgip~iIvviNKiDl~~~~~~~~~~i~~el~~~l  346 (592)
T 3mca_A          271 GMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA----LGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFL  346 (592)
T ss_dssp             ECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH----SSCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH----cCCCeEEEEEeccccccccHHHHHHHHHHHHHHH
Confidence            3445678999999999987421   0   0111112221111    2454 999999999865221  1    1222222


Q ss_pred             -CCCcccCcceEEEeeecccCCCHH--------------HHHHHHHHHH
Q 044598           71 -GLHSLRQRHWYIQSTCATSGEGLY--------------EGLDWLSNNI  104 (110)
Q Consensus        71 -~~~~~~~~~~~~~~~Sa~~~~~i~--------------~l~~~l~~~~  104 (110)
                       ....+....++++++||++|.|+.              .+++.|...+
T Consensus       347 ~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~~~  395 (592)
T 3mca_A          347 IKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLV  395 (592)
T ss_dssp             TTTSCCCGGGEEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHTSC
T ss_pred             HHhhCCCccceEEEEEecccCcccccccccccccccchHHHHHHHHhhc
Confidence             111122235689999999999998              6777765543

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.72  E-value=1.3e-09  Score=67.49  Aligned_cols=84  Identities=7%  Similarity=-0.003  Sum_probs=55.1

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      .....++++|++++|+|+.+|.+....  .+. +     . ++|.++|+||+|+.+....+.....+.     ..+.++ 
T Consensus        14 ~~~~~l~~~D~vl~VvDar~P~~~~~~--~l~-l-----l-~k~~iivlNK~DL~~~~~~~~~~~~~~-----~~g~~v-   78 (262)
T 3cnl_A           14 QIKDLLRLVNTVVEVRDARAPFATSAY--GVD-F-----S-RKETIILLNKVDIADEKTTKKWVEFFK-----KQGKRV-   78 (262)
T ss_dssp             HHHHHHTTCSEEEEEEETTSTTTTSCT--TSC-C-----T-TSEEEEEEECGGGSCHHHHHHHHHHHH-----HTTCCE-
T ss_pred             HHHHHHhhCCEEEEEeeCCCCCcCcCh--HHH-h-----c-CCCcEEEEECccCCCHHHHHHHHHHHH-----HcCCeE-
Confidence            345578999999999999887543211  111 1     1 789999999999965321122222221     123356 


Q ss_pred             eeecccCCCHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~  102 (110)
                      .+||+++.|++++++.+..
T Consensus        79 ~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           79 ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             EECCTTSCHHHHHHHHCCC
T ss_pred             EEECCCCcCHHHHHHHHHH
Confidence            8999999999999877654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.72  E-value=1.2e-09  Score=67.86  Aligned_cols=88  Identities=10%  Similarity=0.149  Sum_probs=42.5

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCC
Q 044598           12 TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGE   91 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~   91 (110)
                      +|+++++++.+... +......+.+.+..    ++|+++|+||+|+............+. ......+++++.+||++++
T Consensus       116 ~~~~l~~i~~~~~~-~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~e~~~~~~~i~-~~l~~~~i~v~~~sa~~~~  189 (274)
T 3t5d_A          116 VQCCLYFIAPSGHG-LKPLDIEFMKRLHE----KVNIIPLIAKADTLTPEECQQFKKQIM-KEIQEHKIKIYEFPETDDE  189 (274)
T ss_dssp             CCEEEEEECSCCSS-CCHHHHHHHHHHTT----TSCEEEEESSGGGSCHHHHHHHHHHHH-HHHHHTTCCCCCC------
T ss_pred             eeEEEEEecCCCCC-CCHHHHHHHHHHhc----cCCEEEEEeccCCCCHHHHHHHHHHHH-HHHHHcCCeEEcCCCCCCh
Confidence            78999999776421 22222223333322    689999999999854322111111110 0011234567789999999


Q ss_pred             CHHHHHHHHHHHHH
Q 044598           92 GLYEGLDWLSNNIA  105 (110)
Q Consensus        92 ~i~~l~~~l~~~~~  105 (110)
                      |+++++++|.+.++
T Consensus       190 ~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          190 EENKLVKKIKDRLP  203 (274)
T ss_dssp             -----CHHHHHTCS
T ss_pred             hHHHHHHHHhcCCC
Confidence            99999999987654

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=98.70  E-value=2.3e-07  Score=64.47  Aligned_cols=55  Identities=13%  Similarity=0.038  Sum_probs=38.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      |...+..+++.+|++|+|+|+++...... ...+.....    .+.|+++++||+|+...
T Consensus        95 f~~~~~~~l~~aD~aIlVvDa~~gv~~qt-~~~~~~~~~----~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           95 FTIEVERSMRVLDGAVMVYCAVGGVQPQS-ETVWRQANK----YKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             hHHHHHHHHHHCCEEEEEEeCCCCCcHHH-HHHHHHHHH----cCCCEEEEEeCCCcccc
Confidence            34567888999999999999986433222 223333221    46899999999998654

>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=98.70  E-value=5.8e-08  Score=67.06  Aligned_cols=52  Identities=12%  Similarity=0.019  Sum_probs=36.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      +..+..+++.+|++++|+|+++.... ....++.....    .+.|+++++||+|+.
T Consensus        88 ~~~~~~~l~~ad~~ilVvD~~~g~~~-qt~~~~~~~~~----~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           88 VGEIRGALEAADAALVAVSAEAGVQV-GTERAWTVAER----LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCH-HHHHHHHHHHH----TTCCEEEEEECGGGC
T ss_pred             HHHHHHHHhhcCcEEEEEcCCcccch-hHHHHHHHHHH----ccCCEEEEecCCchh
Confidence            45677889999999999998753222 12233333322    368999999999987

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.69  E-value=2.7e-07  Score=64.02  Aligned_cols=55  Identities=16%  Similarity=0.123  Sum_probs=39.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      |...+..+++.+|++|+|+|+++....... ..+..+..    .+.|+++|+||+|+...
T Consensus        88 f~~~~~~~l~~aD~~llVvDa~~g~~~~~~-~~~~~~~~----~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           88 FTVEVERSLRVLDGAVTVLDAQSGVEPQTE-TVWRQATT----YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTTBSCHHHH-HHHHHHHH----TTCCEEEEEECTTSTTC
T ss_pred             hHHHHHHHHHHCCEEEEEECCCCCCcHHHH-HHHHHHHH----cCCCEEEEEECCCcccc
Confidence            345677889999999999999875444332 22333322    36899999999999764

>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=98.69  E-value=1.8e-08  Score=66.81  Aligned_cols=89  Identities=11%  Similarity=0.078  Sum_probs=51.8

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHH-------HHHHHHHHHhcCCCCCCC-eEEEEeeCCCCCCCCCH--H----HHHh
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVV-------EARDELHRMLNEDELRDA-VLLVFANKQDLPNAMNA--A----EITD   68 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~-------~~~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~~~~--~----~~~~   68 (110)
                      ..+..++..+|++|+|+|+++.. ..       +....+.... .   .+. ++++++||+|+.+....  +    ++..
T Consensus       100 ~~~~~~~~~aD~~ilVvda~~g~-~~~sf~~~~qt~~~~~~~~-~---~~v~~iivviNK~Dl~~~~~~~~~~i~~~~~~  174 (458)
T 1f60_A          100 KNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALLAF-T---LGVRQLIVAVNKMDSVKWDESRFQEIVKETSN  174 (458)
T ss_dssp             HHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHHHH-H---TTCCEEEEEEECGGGGTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhCCEEEEEEeCCcCc-cccccCcchhHHHHHHHHH-H---cCCCeEEEEEEccccccCCHHHHHHHHHHHHH
Confidence            45667889999999999998542 11       2222222221 1   344 49999999999632111  1    1111


Q ss_pred             hhCCCcccCcceEEEeeecccCCCHHHH
Q 044598           69 KLGLHSLRQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        69 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      .+....+.....+++++||++|.|+.++
T Consensus       175 ~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          175 FIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             HHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             HHHHcCCCccCceEEEeecccCcCcccc
Confidence            1110001112367999999999998743

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.66  E-value=3e-08  Score=59.42  Aligned_cols=84  Identities=18%  Similarity=0.209  Sum_probs=53.5

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceEEEeeecc
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      .++.+++|+|++.....  ...+ ...      .+.|.++|+||+|+.+.  ...+++...+..   .+...+++++||+
T Consensus       129 ~~~~~i~vvd~~~~~~~--~~~~-~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~---~~~~~~i~~~Sa~  196 (221)
T 2wsm_A          129 GENYRVVMVSVTEGDDV--VEKH-PEI------FRVADLIVINKVALAEAVGADVEKMKADAKL---INPRAKIIEMDLK  196 (221)
T ss_dssp             SCSEEEEEEEGGGCTTH--HHHC-HHH------HHTCSEEEEECGGGHHHHTCCHHHHHHHHHH---HCTTSEEEECBTT
T ss_pred             ccCcEEEEEeCCCcchh--hhhh-hhh------hhcCCEEEEecccCCcchhhHHHHHHHHHHH---hCCCCeEEEeecC
Confidence            56788889998753221  1111 111      24789999999998532  233333333210   1234578999999


Q ss_pred             cCCCHHHHHHHHHHHHHh
Q 044598           89 SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~~~  106 (110)
                      +|.|++++++++.+.+..
T Consensus       197 ~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          197 TGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             TTBTHHHHHHHHHHHHC-
T ss_pred             CCCCHHHHHHHHHHHHHH
Confidence            999999999999987754

>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=98.64  E-value=4.8e-08  Score=57.99  Aligned_cols=89  Identities=12%  Similarity=0.141  Sum_probs=56.1

Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcceEEEee
Q 044598           10 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ..++++++++|++.+.+...  ..+...+..   .+.|.+++.||+|+......    ..+...+.   .....+.++++
T Consensus       107 ~~~~~~~~v~d~~~~~~~~~--~~~~~~~~~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~---~~~~~~~~~~~  178 (210)
T 1pui_A          107 QSLQGLVVLMDIRHPLKDLD--QQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVL---AFNGDVQVETF  178 (210)
T ss_dssp             TTEEEEEEEEETTSCCCHHH--HHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHG---GGCSCEEEEEC
T ss_pred             hcccEEEEEEECCCCCchhH--HHHHHHHHH---cCCCeEEEEecccCCCchhHHHHHHHHHHHHH---hcCCCCceEEE
Confidence            47899999999986543321  112222222   46889999999998543111    11222211   01224578899


Q ss_pred             ecccCCCHHHHHHHHHHHHHh
Q 044598           86 CATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ||+++.|++++++++.+.+..
T Consensus       179 Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          179 SSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             BTTTTBSHHHHHHHHHHHHC-
T ss_pred             eecCCCCHHHHHHHHHHHHhh
Confidence            999999999999999887643

>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=98.63  E-value=6.8e-09  Score=65.61  Aligned_cols=88  Identities=17%  Similarity=0.160  Sum_probs=54.9

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcccCcc
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~   79 (110)
                      +++....++|.+++|+|+.+|..-..   .+.+++......++|.++|+||+|+.+...    .+.+...+     ...+
T Consensus        79 l~R~~~anvD~v~~V~~~~~p~~~~~---~i~r~L~~~~~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y-----~~~g  150 (307)
T 1t9h_A           79 LIRPPICNVDQAVLVFSAVQPSFSTA---LLDRFLVLVEANDIQPIICITKMDLIEDQDTEDTIQAYAEDY-----RNIG  150 (307)
T ss_dssp             ETTTTEECCCEEEEEEESTTTTCCHH---HHHHHHHHHHTTTCEEEEEEECGGGCCCHHHHHHHHHHHHHH-----HHHT
T ss_pred             hhHHHHHhCCEEEEEEeCCCCCCCHH---HHHHHHHHHHHCCCCEEEEEECCccCchhhhHHHHHHHHHHH-----HhCC
Confidence            34456889999999999987643221   233333211125789999999999975422    12222221     1223


Q ss_pred             eEEEeeecccCCCHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDW   99 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~   99 (110)
                      .+++.+||.++.|+++++..
T Consensus       151 ~~v~~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          151 YDVYLTSSKDQDSLADIIPH  170 (307)
T ss_dssp             CCEEECCHHHHTTCTTTGGG
T ss_pred             CeEEEEecCCCCCHHHHHhh
Confidence            57888999999998876653

>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=98.61  E-value=8.3e-09  Score=66.53  Aligned_cols=84  Identities=7%  Similarity=0.081  Sum_probs=41.1

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH----HHHhhhCCCcccCcceEEEeeecc
Q 044598           13 QGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA----EITDKLGLHSLRQRHWYIQSTCAT   88 (110)
Q Consensus        13 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~   88 (110)
                      ++++|+++.+. .++......+...+.    .+.|+++|+||+|+.......    ++...     ....+++++++||+
T Consensus       147 ~~~vy~I~~~~-~~l~~~d~~~~~~l~----~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~-----~~~~~i~~~~~Sa~  216 (361)
T 2qag_A          147 HCCFYFISPFG-HGLKPLDVAFMKAIH----NKVNIVPVIAKADTLTLKERERLKKRILDE-----IEEHNIKIYHLPDA  216 (361)
T ss_dssp             CEEEEEECSSS-SSCCHHHHHHHHHTC----S-SCEEEEEECCSSSCHHHHHHHHHHHHHH-----TTCC-CCSCCCC--
T ss_pred             EEEEEEEecCC-CCcchhHHHHHHHhc----cCCCEEEEEECCCCCCHHHHHHHHHHHHHH-----HHHCCCCEEeCCCc
Confidence            45777776532 233333322323222    468999999999986432111    12121     12345678899999


Q ss_pred             cCCCHHHHHHHHHHHHHhh
Q 044598           89 SGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        89 ~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++.| ++.+.++.+.+...
T Consensus       217 ~~~~-~e~~~~l~~~i~~~  234 (361)
T 2qag_A          217 ESDE-DEDFKEQTRLLKAS  234 (361)
T ss_dssp             --------CHHHHHHHHHT
T ss_pred             CCCc-chhHHHHHHHHHhc
Confidence            9998 77777777776543

>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=98.59  E-value=4.8e-08  Score=68.21  Aligned_cols=94  Identities=12%  Similarity=0.109  Sum_probs=57.4

Q ss_pred             hHHHhc-ccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCCcccCcceE
Q 044598            4 LWRHYF-QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~   81 (110)
                      +...|+ +.+|++++|+|++......+... +...+..   .+.|+++|+||+|+.+.... ..+... ..........+
T Consensus       179 lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~-ll~~L~~---~g~pvIlVlNKiDlv~~~~~~~~il~~-~~~~l~lg~~~  253 (772)
T 3zvr_A          179 MLMQFVTKENCLILAVSPANSDLANSDALK-IAKEVDP---QGQRTIGVITKLDLMDEGTDARDVLEN-KLLPLRRGYIG  253 (772)
T ss_dssp             HHHHHHTSTTEEEEEEEETTSCSSSCHHHH-HHHHHCT---TCSSEEEEEECTTSSCTTCCSHHHHTT-CSSCCSSCEEE
T ss_pred             HHHHHHhcCCcEEEEEEcCCCCcchhHHHH-HHHHHHh---cCCCEEEEEeCcccCCcchhhHHHHHH-HhhhhhccCCc
Confidence            344455 57899999999986422222112 2222322   46899999999998654321 112111 11001112347


Q ss_pred             EEeeecccCCCHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      ++.+||++|.|++++++.+.+
T Consensus       254 VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          254 VVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             CCCCCCEESSSSEEHHHHHHH
T ss_pred             eEEecccccccchhHHHHHHH
Confidence            889999999999999998876

>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=98.58  E-value=2.4e-08  Score=64.11  Aligned_cols=95  Identities=15%  Similarity=0.118  Sum_probs=54.2

Q ss_pred             chHHHhcccCCEEE-EEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLI-FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i-~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~   80 (110)
                      .++..|+++++.++ +|+|++....-.+...++.. +..   .+.|+++|+||+|+.+... ....... ..........
T Consensus       158 ~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~-~~~---~~~~~i~V~NK~Dl~~~~~~~~~~~~~-~~~~l~~~~~  232 (353)
T 2x2e_A          158 DMLMQFVTKENCLILAVSPANSDLANSDALKVAKE-VDP---QGQRTIGVITKLDLMDEGTDARDVLEN-KLLPLRRGYI  232 (353)
T ss_dssp             HHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHH-HCT---TCTTEEEEEECGGGSCTTCCCHHHHTT-CSSCCTTCEE
T ss_pred             HHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHH-hCc---CCCceEEEeccccccCcchhHHHHHhC-CcccccCCce
Confidence            35667887666555 46666542111111122222 221   4689999999999865422 1121111 0100111224


Q ss_pred             EEEeeecccCCCHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                      +++.+||+++.|++++++++.+
T Consensus       233 ~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          233 GVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             ECCCCCHHHHHTTCCHHHHHHH
T ss_pred             EEEeCCcccccccccHHHHHHH
Confidence            6889999999999999998876

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.57  E-value=2.2e-07  Score=59.70  Aligned_cols=90  Identities=19%  Similarity=0.150  Sum_probs=52.2

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC----HHHHHhhhCCCcc--cCcce
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN----AAEITDKLGLHSL--RQRHW   80 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~--~~~~~   80 (110)
                      ...+.+|++++|+|++.......    +..     .....|.++|+||+|+.+...    ...+...+.....  .....
T Consensus       183 ~l~~~~d~vl~V~d~~~~~~~~~----i~~-----~il~~~~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~~~~~a~~~~~  253 (349)
T 2www_A          183 AVADMVDMFVLLLPPAGGDELQG----IKR-----GIIEMADLVAVTKSDGDLIVPARRIQAEYVSALKLLRKRSQVWKP  253 (349)
T ss_dssp             HHHTTCSEEEEEECCC---------------------CCSCSEEEECCCSGGGHHHHHHHHHHHHHHHTTCC-----CCC
T ss_pred             hHHhhCCEEEEEEcCCcchhHHH----hHH-----HHHhcCCEEEEeeecCCCchhHHHHHHHHHHHHHhcCccccCCCc
Confidence            45678999999999875422111    111     112467899999999853211    1112221211000  01134


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++.+||++|+|+++++++|.+.+.
T Consensus       254 ~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          254 KVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHHHHH
Confidence            7889999999999999999988764

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.49  E-value=1.5e-07  Score=60.29  Aligned_cols=89  Identities=16%  Similarity=0.103  Sum_probs=52.0

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH----HHHhhhCC-Ccc-cCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA----EITDKLGL-HSL-RQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~----~~~~~~~~-~~~-~~~~~~   81 (110)
                      ..+.+|++++|+|++......    .+..     ...+.|.++|+||+|+.+.....    ++...++. ... .....+
T Consensus       166 ~~~~aD~vl~Vvd~~~~~~~~----~l~~-----~~~~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~  236 (341)
T 2p67_A          166 VARMVDCFISLQIAGGGDDLQ----GIKK-----GLMEVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPR  236 (341)
T ss_dssp             HHTTCSEEEEEECC------C----CCCH-----HHHHHCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCE
T ss_pred             HHHhCCEEEEEEeCCccHHHH----HHHH-----hhhcccCEEEEECCCCCChHHHHHHHHHHHHHHHhccccccCCCCc
Confidence            457899999999986432211    0000     00146789999999986432111    12221111 000 011347


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|.|++++++++.+.+.
T Consensus       237 vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          237 VLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             EEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHH
Confidence            889999999999999999988654

>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=98.45  E-value=8.4e-08  Score=61.72  Aligned_cols=90  Identities=14%  Similarity=0.168  Sum_probs=52.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhH-HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRV-VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~   79 (110)
                      +.+...|++++|++|+|+|+.+.... .....++.. +   ...+.|+++|+||+|+.+... ........    .....
T Consensus       163 ~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~-~---~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~----~~~~~  234 (360)
T 3t34_A          163 ENMVRSYIEKPNCIILAISPANQDLATSDAIKISRE-V---DPSGDRTFGVLTKIDLMDKGTDAVEILEGR----SFKLK  234 (360)
T ss_dssp             HHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHH-S---CTTCTTEEEEEECGGGCCTTCCSHHHHTTS----SSCCS
T ss_pred             HHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHH-h---cccCCCEEEEEeCCccCCCcccHHHHHcCc----ccccc
Confidence            34677899999999999987543222 121222222 2   224689999999999865322 11111111    11233


Q ss_pred             eEEEeeecccCCCHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDW   99 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~   99 (110)
                      .+++.+|++++.++++.+..
T Consensus       235 ~~~~~v~~~s~~~i~~~~~~  254 (360)
T 3t34_A          235 YPWVGVVNRSQADINKNVDM  254 (360)
T ss_dssp             SCCEEECCCCHHHHHTTCCH
T ss_pred             CCeEEEEECChHHhccCCCH
Confidence            46778888887777655433

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.43  E-value=4e-06  Score=56.85  Aligned_cols=52  Identities=15%  Similarity=0.186  Sum_probs=35.6

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      ....++-+|++|+|+|+.+--. .+....|..+.+    .+.|.++++||+|.....
T Consensus       117 v~raL~~~DgAvlVvda~~GV~-~qT~~v~~~a~~----~~lp~i~fINK~Dr~~ad  168 (548)
T 3vqt_A          117 TYRVLTAVDSALVVIDAAKGVE-AQTRKLMDVCRM----RATPVMTFVNKMDREALH  168 (548)
T ss_dssp             HHHHHHSCSEEEEEEETTTBSC-HHHHHHHHHHHH----TTCCEEEEEECTTSCCCC
T ss_pred             HHHHHHhcCceEEEeecCCCcc-cccHHHHHHHHH----hCCceEEEEecccchhcc
Confidence            3456788999999999985322 222333443332    579999999999987653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.43  E-value=1.3e-07  Score=56.76  Aligned_cols=59  Identities=15%  Similarity=0.211  Sum_probs=40.6

Q ss_pred             CCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           45 DAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +.|.++|+||+|+.+.  ...+++...+..   .....+++++||++|.|++++++++.+.+..
T Consensus       164 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVGADIKKMENDAKR---INPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TTCSEEEEECGGGHHHHTCCHHHHHHHHHH---HCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhHHHHHHHHHHHHH---hCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            3567999999998542  223333322210   1234578999999999999999999887754

>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=98.29  E-value=2.2e-06  Score=55.24  Aligned_cols=86  Identities=16%  Similarity=0.137  Sum_probs=50.4

Q ss_pred             hcccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            8 YFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      ...++|.+++|.. ..|.. ...    +.+++......++|.++|+||+|+.+....+.......  .+...+++++.+|
T Consensus       127 i~anvD~v~iv~a-~~P~~~~~~----i~r~L~~a~~~~~~~iivlNK~DL~~~~~~~~~~~~~~--~y~~~G~~v~~~S  199 (358)
T 2rcn_A          127 IAANIDQIVIVSA-ILPELSLNI----IDRYLVGCETLQVEPLIVLNKIDLLDDEGMDFVNEQMD--IYRNIGYRVLMVS  199 (358)
T ss_dssp             EEECCCEEEEEEE-STTTCCHHH----HHHHHHHHHHHTCEEEEEEECGGGCCHHHHHHHHHHHH--HHHTTTCCEEECB
T ss_pred             HHhcCCEEEEEEe-CCCCCCHHH----HHHHHHHHHhcCCCEEEEEECccCCCchhHHHHHHHHH--HHHhCCCcEEEEe
Confidence            3678999997754 44532 222    23332111114678899999999965321111212111  1223445788999


Q ss_pred             cccCCCHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWL  100 (110)
Q Consensus        87 a~~~~~i~~l~~~l  100 (110)
                      |.++.|++++...+
T Consensus       200 a~~~~gl~~L~~~~  213 (358)
T 2rcn_A          200 SHTQDGLKPLEEAL  213 (358)
T ss_dssp             TTTTBTHHHHHHHH
T ss_pred             cCCCcCHHHHHHhc
Confidence            99999999887654

>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=98.25  E-value=1.6e-06  Score=52.60  Aligned_cols=96  Identities=11%  Similarity=0.078  Sum_probs=49.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhH-HHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH--------HHHhhhCCCc
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRV-VEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA--------EITDKLGLHS   74 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~--------~~~~~~~~~~   74 (110)
                      .+..+++++|++|+|+|+++.... .....++.......  ...|+++|+||+|+.+....+        .+.....   
T Consensus       105 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~---  179 (239)
T 3lxx_A          105 CILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD---  179 (239)
T ss_dssp             HHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHHHH---
T ss_pred             HHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH---
Confidence            344566788999999998653221 11112222222110  246899999999986443211        1111110   


Q ss_pred             ccCcceEEEeeecc-----cCCCHHHHHHHHHHHHHh
Q 044598           75 LRQRHWYIQSTCAT-----SGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        75 ~~~~~~~~~~~Sa~-----~~~~i~~l~~~l~~~~~~  106 (110)
                        ..+..++.+++.     ++.++.+++..+.+.+..
T Consensus       180 --~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          180 --IFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             --HHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --HcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence              011123344433     346899999888877654

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.03  E-value=4.4e-06  Score=57.57  Aligned_cols=52  Identities=17%  Similarity=0.205  Sum_probs=34.3

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM   61 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~   61 (110)
                      ....++-+|++|+|+|+.+--. .+....|..+.+    .+.|.+++.||+|.....
T Consensus        84 v~raL~~~DgavlVVDa~~GV~-~qT~~v~~~a~~----~~lp~i~~INKmDr~~a~  135 (638)
T 3j25_A           84 VYRSLSVLDGAILLISAKDGVQ-AQTRILFHALRK----MGIPTIFFINKIDQNGID  135 (638)
T ss_dssp             HHHHHTTCSEEECCEESSCTTC-SHHHHHHHHHHH----HTCSCEECCEECCSSSCC
T ss_pred             HHHHHHHhCEEEEEEeCCCCCc-HHHHHHHHHHHH----cCCCeEEEEeccccccCC
Confidence            3456788999999999975211 112233333322    368899999999986553

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.03  E-value=1.9e-06  Score=58.39  Aligned_cols=54  Identities=15%  Similarity=0.274  Sum_probs=37.5

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ..+..+++++|++++|+|+++.........++..+ ..   .+.|+++|+||+|+.+.
T Consensus       180 ~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l-~~---~~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          180 AVLRWFAERVDLIILLFDAHKLEISDEFSEAIGAL-RG---HEDKIRVVLNKADMVET  233 (550)
T ss_dssp             HHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHT-TT---CGGGEEEEEECGGGSCH
T ss_pred             HHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHH-Hh---cCCCEEEEEECCCccCH
Confidence            45677899999999999997643233333344333 22   35789999999998643

>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=98.02  E-value=3.9e-07  Score=59.52  Aligned_cols=47  Identities=17%  Similarity=0.242  Sum_probs=29.7

Q ss_pred             CCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHH
Q 044598           45 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEG   96 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l   96 (110)
                      .+|+++|+||+|+........+.+..     ...+.+++++||+.+.|+.++
T Consensus       214 ~kP~i~v~NK~D~~~~~~l~~l~~~~-----~~~~~~vv~iSA~~e~~l~~L  260 (397)
T 1wxq_A          214 NKPMVIAANKADAASDEQIKRLVREE-----EKRGYIVIPTSAAAELTLRKA  260 (397)
T ss_dssp             HSCEEEEEECGGGSCHHHHHHHHHHH-----HHTTCEEEEECHHHHHHHHSC
T ss_pred             CCCEEEEEeCccccchHHHHHHHHHH-----hhcCCcEEEEeccchhhHHHH
Confidence            48999999999986211111222211     111347889999999888764

>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=97.96  E-value=1.3e-06  Score=55.05  Aligned_cols=57  Identities=11%  Similarity=0.051  Sum_probs=30.6

Q ss_pred             CCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           45 DAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        45 ~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ..|+++|+||.|+......    +++.+.     ....+++++++||+++ |++++|.++.+.+...
T Consensus       155 ~~~iilV~~K~Dl~~~~e~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          155 KVNIVPVIAKADTLTLKERERLKKRILDE-----IEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             TSCEEEEECCGGGSCHHHHHHHHHHHHHH-----HHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHHHH-----HHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            5789999999998642111    111111     1123457889999999 9999999999887643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.94  E-value=2.5e-05  Score=49.97  Aligned_cols=89  Identities=12%  Similarity=0.088  Sum_probs=50.0

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-----HHHHHhhhCCCccc--Ccce
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-----AAEITDKLGLHSLR--QRHW   80 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-----~~~~~~~~~~~~~~--~~~~   80 (110)
                      ..+.+|.+++|+|+.........        .. .....+.++++||+|+.....     .+.+...+.+....  ....
T Consensus       165 v~~~~d~vl~v~d~~~~~~~~~i--------~~-~i~~~~~ivvlNK~Dl~~~~~~s~~~~~~l~~a~~l~~~~~~~~~~  235 (337)
T 2qm8_A          165 VADLTDFFLVLMLPGAGDELQGI--------KK-GIFELADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTP  235 (337)
T ss_dssp             HHTTSSEEEEEECSCC------C--------CT-THHHHCSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCC
T ss_pred             HHhhCCEEEEEEcCCCcccHHHH--------HH-HHhccccEEEEEchhccCchhHHHHHHHHHHHHHHhccccccCCCC
Confidence            34689999999997643211100        00 001245677889999743211     12222222211000  0123


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++.+||+++.|++++++.+.+...
T Consensus       236 ~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          236 PVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             CEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            6788999999999999999988654

>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=97.89  E-value=1.4e-05  Score=56.70  Aligned_cols=53  Identities=23%  Similarity=0.184  Sum_probs=39.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      |...+..+++.+|++|+|+|+++..+...... +.....    .+.|+++++||+|+.
T Consensus       111 f~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~-~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          111 FSSEVTAALRVTDGALVVVDTIEGVCVQTETV-LRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SCHHHHHHHHTCSEEEEEEETTTBSCHHHHHH-HHHHHH----TTCEEEEEEECHHHH
T ss_pred             hHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHH-HHHHHH----cCCCeEEEEECCCcc
Confidence            45678889999999999999987655444332 222222    468999999999985

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.87  E-value=0.00013  Score=50.92  Aligned_cols=51  Identities=14%  Similarity=0.127  Sum_probs=34.2

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      ....++-+|++|+|+|+.+--. .+....|....+    .+.|.+++.||+|....
T Consensus       102 v~~aLr~~DgavlvVDaveGV~-~qT~~v~~~a~~----~~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A          102 VERSLRVLDGAVVVFCGTSGVE-PQSETVWRQANK----YGVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             HHHHHHHCSEEEEEEETTTCSC-HHHHHHHHHHHH----HTCCEEEEEECSSSTTC
T ss_pred             HHHHHHHhCeEEEEEECCCCCc-hhHHHHHHHHHH----cCCCeEEEEccccccCc
Confidence            3456788999999999975211 122233444332    37899999999998654

>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=97.64  E-value=3.6e-06  Score=55.33  Aligned_cols=91  Identities=7%  Similarity=0.148  Sum_probs=34.5

Q ss_pred             hcccCC--EEEEEEECCChhhHHHHH-HHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            8 YFQNTQ--GLIFVVDSNDRDRVVEAR-DELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         8 ~~~~~~--~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ++.+++  +++|+.+++. .++.... .++..+ .    .+.|+++|+||+|+.............. ......++++++
T Consensus       133 l~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L-~----~~v~iIlVinK~Dll~~~ev~~~k~~i~-~~~~~~~i~~~~  205 (418)
T 2qag_C          133 QMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRL-H----EKVNIIPLIAKADTLTPEECQQFKKQIM-KEIQEHKIKIYE  205 (418)
T ss_dssp             CCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHH-T----TTSEEEEEEESTTSSCHHHHHHHHHHHH-HHHHHHTCCCCC
T ss_pred             hccCCCeeEEEEEecCcc-cCCCHHHHHHHHHH-h----ccCcEEEEEEcccCccHHHHHHHHHHHH-HHHHHcCCeEEe
Confidence            444544  4666665541 1222222 344443 2    3689999999999854221111111100 001122446778


Q ss_pred             eecccCCCHHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +||+++.++++++..+...++
T Consensus       206 ~sa~~~~~v~~~~~~l~~~iP  226 (418)
T 2qag_C          206 FPETDDEEENKLVKKIKDRLP  226 (418)
T ss_dssp             CC-----------------CC
T ss_pred             CCCCCCcCHHHHHHHHHhhCC
Confidence            999999999988887776543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.40  E-value=0.00014  Score=44.73  Aligned_cols=47  Identities=11%  Similarity=0.055  Sum_probs=27.8

Q ss_pred             cCCEEEEEEECCChhhHHHH-HHHHHHHhcC-CCCCCCeEEEEeeCCCCC
Q 044598           11 NTQGLIFVVDSNDRDRVVEA-RDELHRMLNE-DELRDAVLLVFANKQDLP   58 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~   58 (110)
                      ++|++++|+|.+... +... ..++..+... ......|+++|+||+|+.
T Consensus       116 ~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A          116 TIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             EECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             CCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence            789999999876532 2211 1233222211 111135899999999985

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.29  E-value=0.00024  Score=43.90  Aligned_cols=50  Identities=10%  Similarity=-0.036  Sum_probs=29.5

Q ss_pred             cccCCEEEEEEECCChhhHHHH-HHHHHHHhcCCC-CCCCeEEEEeeCCCCCC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEA-RDELHRMLNEDE-LRDAVLLVFANKQDLPN   59 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~   59 (110)
                      .+++|+++||+|.+.. ++... ..++..+..... ....|+++|+||+|+.+
T Consensus       117 ~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~  168 (270)
T 1h65_A          117 DKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSP  168 (270)
T ss_dssp             TCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCC
T ss_pred             cCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCC
Confidence            3479999999987642 22222 233333321100 01269999999999864

>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=97.12  E-value=0.0011  Score=42.92  Aligned_cols=18  Identities=6%  Similarity=0.032  Sum_probs=15.3

Q ss_pred             HHhcccCCEEEEEEECCC
Q 044598            6 RHYFQNTQGLIFVVDSND   23 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~   23 (110)
                      ..++++||++++|+|+++
T Consensus        94 l~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           94 LAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             HHHHHTCSEEEEEEECCC
T ss_pred             HHHHHhCCEEEEEEECCC
Confidence            346899999999999975

>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=96.82  E-value=0.015  Score=37.65  Aligned_cols=18  Identities=17%  Similarity=0.137  Sum_probs=15.4

Q ss_pred             HHhcccCCEEEEEEECCC
Q 044598            6 RHYFQNTQGLIFVVDSND   23 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~   23 (110)
                      ..+++++|++++|+|+++
T Consensus        91 l~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           91 LANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHHHHTCSEEEEEEECSC
T ss_pred             HHHHHhcCeEEEEEecCC
Confidence            346899999999999985

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=95.83  E-value=0.012  Score=38.35  Aligned_cols=48  Identities=15%  Similarity=0.108  Sum_probs=31.6

Q ss_pred             hcccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            8 YFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ..+.||++++|+|+++|.. .......+...  ...+..+|.+++.||.|.
T Consensus       146 ~i~~ad~il~vvD~~~p~~~~~~i~~EL~~~--~~~l~~k~~~i~~nK~d~  194 (376)
T 4a9a_A          146 VARTCNLLFIILDVNKPLHHKQIIEKELEGV--GIRLNKTPPDILIKKKEK  194 (376)
T ss_dssp             HHHHCSEEEEEEETTSHHHHHHHHHHHHHHT--TEEETCCCCCEEEEECSS
T ss_pred             HHHhcCccccccccCccHHHHHHHHHHHHHh--hHhhccCChhhhhhHhhh
Confidence            4688999999999998632 22222233222  112346788999999996

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.76  E-value=0.088  Score=35.64  Aligned_cols=85  Identities=9%  Similarity=0.042  Sum_probs=48.0

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeE-EEEeeCCCCCCCCCH-HHHHhhhCCCc--------cc--Cc
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVL-LVFANKQDLPNAMNA-AEITDKLGLHS--------LR--QR   78 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-iiv~nK~Dl~~~~~~-~~~~~~~~~~~--------~~--~~   78 (110)
                      .+|.+++|+|+.......   .....+. .    ..|+ .+|+||+|....... -.+...++.+-        ..  ..
T Consensus       213 ~pd~vllVvDa~~g~~~~---~~a~~~~-~----~~~i~gvVlNK~D~~~~~g~~l~~~~~~g~PI~fig~ge~~~dl~~  284 (504)
T 2j37_W          213 QPDNIVYVMDASIGQACE---AQAKAFK-D----KVDVASVIVTKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEP  284 (504)
T ss_dssp             CCSEEEEEEETTCCTTHH---HHHHHHH-H----HHCCCCEEEECTTSCCCCTHHHHHHHHHCCCEEEEECSSSTTCEEC
T ss_pred             cCceEEEEEeccccccHH---HHHHHHH-h----hcCceEEEEeCCccccchHHHHHHHHHhCCCeEEeccccchhhhhc
Confidence            789999999987542211   1111111 1    2564 899999998643321 12222333221        00  00


Q ss_pred             ceEEEeeecccCCC-HHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEG-LYEGLDWLSNN  103 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~-i~~l~~~l~~~  103 (110)
                      ..+...+|+..|.| +.++++++.+.
T Consensus       285 f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          285 FKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             cCcceeeehhcCCCcHHHHHHHHHHH
Confidence            11233579999999 99999888765

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=91.31  E-value=0.96  Score=29.51  Aligned_cols=51  Identities=16%  Similarity=0.012  Sum_probs=35.5

Q ss_pred             CCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           44 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ...|.+++.||+|..   ..+++......       ...+++|+..+.|++.+...+.+.+
T Consensus       248 ~~~p~i~v~nKid~~---~~eele~l~~~-------~~~~~is~~~e~gLd~Li~~~y~~L  298 (376)
T 4a9a_A          248 RYMPAIYVLNKIDSL---SIEELELLYRI-------PNAVPISSGQDWNLDELLQVMWDRL  298 (376)
T ss_dssp             EEECEEEEEECGGGS---CHHHHHHHTTS-------TTEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hccceEEEEeccccc---CHHHHHHHhcc-------cchhhhhhhhcccchhHHHHHHHHc
Confidence            357999999999964   23333322111       1245789999999999998887765

>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=89.65  E-value=0.83  Score=30.51  Aligned_cols=42  Identities=12%  Similarity=0.165  Sum_probs=24.9

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      .+|.+++|+|++.......   ....+..    .-.+..+|+||.|...
T Consensus       212 ~pd~vlLVvDA~~gq~a~~---~a~~f~~----~~~i~gVIlTKlD~~~  253 (443)
T 3dm5_A          212 HPHEVILVIDGTIGQQAYN---QALAFKE----ATPIGSIIVTKLDGSA  253 (443)
T ss_dssp             CCSEEEEEEEGGGGGGHHH---HHHHHHH----SCTTEEEEEECCSSCS
T ss_pred             cCceEEEEEeCCCchhHHH---HHHHHHh----hCCCeEEEEECCCCcc
Confidence            5788999999875322211   1222211    1235678999999753

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=88.56  E-value=0.33  Score=30.03  Aligned_cols=46  Identities=9%  Similarity=0.113  Sum_probs=27.5

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      +.+++++++++|.... .+......+...+..   . .++++|.+|+|...
T Consensus       109 iaRal~~lllldep~~-gL~~lD~~~l~~L~~---~-~~vI~Vi~K~D~lt  154 (270)
T 3sop_A          109 DTRVHCCLYFISPTGH-SLRPLDLEFMKHLSK---V-VNIIPVIAKADTMT  154 (270)
T ss_dssp             CCSCCEEEEEECCCSS-SCCHHHHHHHHHHHT---T-SEEEEEETTGGGSC
T ss_pred             hheeeeeeEEEecCCC-cCCHHHHHHHHHHHh---c-CcEEEEEeccccCC
Confidence            4467899999996421 111122222222322   2 89999999999754

>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=86.82  E-value=0.55  Score=31.19  Aligned_cols=39  Identities=13%  Similarity=0.168  Sum_probs=22.5

Q ss_pred             EEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598           15 LIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus        15 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ++|+.|+...  +...+..+.+.+.    .+.|+++|.||+|...
T Consensus       152 v~fI~d~~~~--l~~~Dieilk~L~----~~~~vI~Vi~KtD~Lt  190 (427)
T 2qag_B          152 LYFIAPTGHS--LKSLDLVTMKKLD----SKVNIIPIIAKADAIS  190 (427)
T ss_dssp             EEEECCCC-----CHHHHHHHHHTC----SCSEEEEEESCGGGSC
T ss_pred             EEEEeCCCCC--CCHHHHHHHHHHh----hCCCEEEEEcchhccc
Confidence            4556665532  3233333444442    4689999999999754

>3u7r_A NADPH-dependent FMN reductase; alpha/beta twisted open-sheet, lavoprotein, quinone reductas oxidoreductase; HET: MSE FNR 2PE; 1.40A {Paracoccus denitrificans}

Probab=85.30  E-value=1.9  Score=25.27  Aligned_cols=52  Identities=8%  Similarity=0.140  Sum_probs=31.3

Q ss_pred             HHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCC
Q 044598            5 WRHYFQNTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQD   56 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~D   56 (110)
                      |...+..||++|++..--+   +..+.....|+........+.++|+.++..=..
T Consensus        61 l~~~i~~aD~~ii~tPeYn~s~pg~LKn~iDwlsr~~~~~~~~gKpv~~v~~S~G  115 (190)
T 3u7r_A           61 LKDRIEHSDAVLAITPEYNRSYPGMIKNAIDWATRPYGQNSWKGKPAAVIGTSPG  115 (190)
T ss_dssp             HHHHHHTSSEEEEECCCBTTBCCHHHHHHHHHHHCSTTCCTTTTCEEEEEEEESS
T ss_pred             HHHHHHhCCcEEEechhhcccCCHHHHHHHHHhcccccCCccCCCEEEEEEeCCc
Confidence            4556889999999986543   223444444443222223456899998875443

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=83.78  E-value=4.9  Score=23.75  Aligned_cols=66  Identities=17%  Similarity=0.135  Sum_probs=41.5

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGL   72 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~   72 (110)
                      ....+..||.+++++..+ ..+.......+..+. ........+-+|.|+.+.......+++.+.++.
T Consensus       134 ~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~-~~~~~~~~~~~v~N~~~~~~~~~~~~~~~~~~~  199 (245)
T 3ea0_A          134 GVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCK-EFEKPISRIEIILNRADTNSRITSDEIEKVIGR  199 (245)
T ss_dssp             HHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHH-TCSSCCSCEEEEEESTTSCTTSCHHHHHHHHTS
T ss_pred             HHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHH-HhCCCccceEEEEecCCCCCCCCHHHHHHHhCC
Confidence            345678899999999875 445555544444432 222234568899999997555455566655543

>2l82_A Designed protein OR32; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=81.58  E-value=3.3  Score=22.19  Aligned_cols=46  Identities=17%  Similarity=0.481  Sum_probs=27.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQD   56 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~D   56 (110)
                      |.+|.. |...|++++|..-.        ..|+..+.....-.+..++++.|.-|
T Consensus        69 reiwer-ypqldvvvivttdd--------kewikdfieeakergvevfvvynnkd  114 (162)
T 2l82_A           69 REIWER-YPQLDVVVIVTTDD--------KEWIKDFIEEAKERGVEVFVVYNNKD  114 (162)
T ss_dssp             HHHHHH-CTTCCEEEEEECCC--------HHHHHHHHHHHHHTTCEEEEEEECSC
T ss_pred             HHHHHh-CCCCcEEEEEecCc--------HHHHHHHHHHHHhcCcEEEEEecCCC
Confidence            346764 67788888876322        23444443332225778777777666

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=80.55  E-value=0.98  Score=29.71  Aligned_cols=20  Identities=5%  Similarity=0.195  Sum_probs=16.2

Q ss_pred             hHHHhcccCCEEEEEEECCC
Q 044598            4 LWRHYFQNTQGLIFVVDSND   23 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~   23 (110)
                      .+..+++++|++++|+|+++
T Consensus       109 ~~l~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A          109 AFLSHISACDGIFHLTRAFE  128 (396)
T ss_dssp             HHHHHHHTSSSEEEEEEC--
T ss_pred             HHHHHHHhcCeEEEEEecCC
Confidence            56778999999999999875

>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=80.27  E-value=1.5  Score=29.02  Aligned_cols=63  Identities=10%  Similarity=0.005  Sum_probs=37.4

Q ss_pred             CCCeEEEEeeCCCCC---------CCCCHHHHHhhhCCC------cccCcceEEEeeec--ccCCCHHHHHHHHHHHHHh
Q 044598           44 RDAVLLVFANKQDLP---------NAMNAAEITDKLGLH------SLRQRHWYIQSTCA--TSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        44 ~~~~~iiv~nK~Dl~---------~~~~~~~~~~~~~~~------~~~~~~~~~~~~Sa--~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++|+++|.||.|+.         +.....++.+.+...      ........++.+|+  ..+.|++++.+.+.+.++.
T Consensus       174 ~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          174 MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCcc
Confidence            368999999999962         122233322221100      00001225677888  6667799999999888754

---

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	110
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-25
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-20
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-19
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	1e-17
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-17
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-16
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	6e-16
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	7e-15
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-14
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-11
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	4e-10
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-09
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-08
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-08
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	8e-08
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	8e-08
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-07
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-07
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	3e-07
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-06
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-05
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-05
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	3e-05
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	5e-05
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	9e-05
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-04
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	7e-04

>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 = 90.4 bits (223), Expect = 7e-25
 Identities = 68/103 (66%), Positives = 86/103 (83%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           RPLWRHY+  TQGLIFVVD  DRDR+ EAR ELHR++N+ E+RDA++L+FANKQDLP+AM
Sbjct: 70  RPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAM 129

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
              EI +KLGL  +R R+WY+Q +CATSG+GLYEGL WL++N 
Sbjct: 130 KPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>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 = 78.1 bits (191), Expect = 4e-20
 Identities = 50/103 (48%), Positives = 69/103 (66%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           RP WR YF+NT  LI+V+DS DR R  E   EL  +L E++L    +L+FANKQDL  A 
Sbjct: 74  RPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA 133

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
            A+EI + L LH++R R W IQS  A +GEG+ +G++W+  N+
Sbjct: 134 PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 75.9 bits (185), Expect = 3e-19
 Identities = 51/107 (47%), Positives = 73/107 (68%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           +R  WR+YF++T GLI+VVDS DR R+ + + EL  +L E+ L  A LL+FANKQDLP A
Sbjct: 59  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 118

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           ++   I + L L S+R  HW IQ   A +GE L  G+DWL ++I+++
Sbjct: 119 LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>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 = 71.9 bits (175), Expect = 1e-17
 Identities = 57/107 (53%), Positives = 76/107 (71%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
           IRP WR Y+ +T  +IFVVDS D+DR+  A  ELH ML E+EL+DA LLVFANKQD P A
Sbjct: 74  IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA 133

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           ++A+E++ +L L  L+ R W I ++ A  GEG+ EGLDWL + I  +
Sbjct: 134 LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>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 = 71.2 bits (173), Expect = 1e-17
 Identities = 92/103 (89%), Positives = 98/103 (95%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           RPLWRHYFQNTQGLIFVVDSNDR+RV EAR+EL RML EDELRDAVLLVFANKQDLPNAM
Sbjct: 58  RPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM 117

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           NAAEITDKLGLHSLR R+WYIQ+TCATSG+GLYEGLDWLSN +
Sbjct: 118 NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>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 = 68.9 bits (167), Expect = 2e-16
 Identities = 48/103 (46%), Positives = 71/103 (68%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R  W  Y+ NT+ +I VVDS DR+R+   R+EL++ML  ++LR A LL+FANKQD+   M
Sbjct: 73  RSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM 132

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
             AEI+  L L S++   W+IQ+ CA +GEGL +GL+W+ + +
Sbjct: 133 TVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>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 = 67.4 bits (163), Expect = 6e-16
 Identities = 26/113 (23%), Positives = 55/113 (48%), Gaps = 12/113 (10%)

Query: 4   LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA 63
           +W++Y     G++F+VD  D +R++E+++EL  ++ ++ + +  +L+  NK D P A++ 
Sbjct: 73  VWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISE 132

Query: 64  AEITDKLGLH------------SLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
             + +  GL+             L  R   +        +G  EG  W++  I
Sbjct: 133 ERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>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 = 64.3 bits (155), Expect = 7e-15
 Identities = 37/105 (35%), Positives = 52/105 (49%), Gaps = 7/105 (6%)

Query: 4   LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA 63
           LW+ YF    G++F+VD+ D +R  EAR EL  + N  EL+D   ++  NK D PNA++ 
Sbjct: 60  LWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSE 119

Query: 64  AEITDKLGLHSL-------RQRHWYIQSTCATSGEGLYEGLDWLS 101
           AE+   LGL +         QR   +         G  E   WLS
Sbjct: 120 AELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS 164

>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 = 62.4 bits (150), Expect = 3e-14
 Identities = 26/100 (26%), Positives = 57/100 (57%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA 64
           W  Y +    ++++VD+ D++++  +++ELH +L++ +L+   +LV  NK+DLP A++  
Sbjct: 64  WERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEK 123

Query: 65  EITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           E+ +K+ L +++ R     S      + +   L WL  + 
Sbjct: 124 ELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 163

>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 = 53.9 bits (128), Expect = 6e-11
 Identities = 50/103 (48%), Positives = 71/103 (68%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA 64
           WR Y+ NT  +I+VVDS DRDR+  ++ EL  ML E+ELR A+L+VFANKQD+  AM ++
Sbjct: 66  WRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSS 125

Query: 65  EITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           E+ + LGL +L+ R W I  T AT G GL E ++WL   + ++
Sbjct: 126 EMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>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 = 52.3 bits (124), Expect = 4e-10
 Identities = 23/113 (20%), Positives = 44/113 (38%), Gaps = 9/113 (7%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAV--LLVFANKQDLPNAM 61
              +  + + ++FVVDS    R V +  + L+++L +         LL+  NKQD+  A 
Sbjct: 65  LDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK 124

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGL------YEGLDWLSNNIANKV 108
           +A  I  +L       R     +                +G ++  + +  KV
Sbjct: 125 SAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKV 177

>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 = 49.8 bits (118), Expect = 3e-09
 Identities = 27/109 (24%), Positives = 42/109 (38%), Gaps = 4/109 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R L   Y++  QG+I V D   RD  V+  + L+ +       D V ++  NK D     
Sbjct: 70  RTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKID----K 125

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKVGL 110
              E+    GL   R+         A + +G+    + L   I    GL
Sbjct: 126 ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGL 174

>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 = 47.8 bits (113), Expect = 1e-08
 Identities = 13/108 (12%), Positives = 31/108 (28%), Gaps = 4/108 (3%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +   Y++   G++ V D  +       R+ +  +          +++          
Sbjct: 68  FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR 127

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
             + E     G             T A +   +      L+ +I  K+
Sbjct: 128 QVSKER----GEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 171

>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 = 47.5 bits (112), Expect = 2e-08
 Identities = 20/108 (18%), Positives = 38/108 (35%), Gaps = 5/108 (4%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +   Y++   G+I V D  D       +     +         +LLV  NK D+   
Sbjct: 64  FRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLV-GNKSDMETR 122

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           +  A+     G    ++       + A + + + E    L+  I  K+
Sbjct: 123 VVTADQ----GEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>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 = 46.0 bits (108), Expect = 8e-08
 Identities = 17/107 (15%), Positives = 43/107 (40%), Gaps = 3/107 (2%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R L   +F++  G + + D   +   +  R+ + ++       +  +++  NK DLP+  
Sbjct: 78  RSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR 137

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
              E           +       T A +G+ + + ++ L + I  ++
Sbjct: 138 EVNERQ---ARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 181

>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 = 46.1 bits (108), Expect = 8e-08
 Identities = 17/123 (13%), Positives = 42/123 (34%), Gaps = 23/123 (18%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA 64
                  ++    +V+S++ +R+ E++     ++     +++ +++F NK+DL       
Sbjct: 72  IMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMY 131

Query: 65  EITDK-----------------------LGLHSLRQRHWYIQSTCATSGEGLYEGLDWLS 101
                                       + L+    +  Y   TCAT  E +      + 
Sbjct: 132 SHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVK 191

Query: 102 NNI 104
           + I
Sbjct: 192 DTI 194

>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 = 44.9 bits (105), Expect = 2e-07
 Identities = 18/107 (16%), Positives = 34/107 (31%), Gaps = 4/107 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R + R Y++   G + V D   R+      + L            ++L    K    +  
Sbjct: 68  RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADRE 127

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
                  +      ++       T A +GE + E     +  I NK+
Sbjct: 128 VTFLEASRF----AQENELMFLETSALTGENVEEAFVQCARKILNKI 170

>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 = 44.7 bits (105), Expect = 3e-07
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 10/68 (14%)

Query: 1   IRPLWRHYFQNTQGLIFVV----------DSNDRDRVVEARDELHRMLNEDELRDAVLLV 50
            R  W   F +   +IFVV          + N  +R+ EA +    + N   LR   +++
Sbjct: 60  ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVIL 119

Query: 51  FANKQDLP 58
           F NKQDL 
Sbjct: 120 FLNKQDLL 127

>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 = 44.3 bits (103), Expect = 3e-07
 Identities = 19/106 (17%), Positives = 41/106 (38%), Gaps = 1/106 (0%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
             L   Y++N Q  + V D       ++AR  +  +  +   +D ++ +  NK D+    
Sbjct: 66  ASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS-KDIIIALVGNKIDMLQEG 124

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
              ++  + G     ++      T A +GE + +    +   I  K
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>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 = 41.8 bits (97), Expect = 3e-06
 Identities = 16/107 (14%), Positives = 33/107 (30%), Gaps = 4/107 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +   Y++   G + V D             L  + +  +  + V+++  NK DL +  
Sbjct: 67  RRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLR 125

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
               +          + +     T A     + E    +   I   V
Sbjct: 126 A---VPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV 169

>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 = 39.5 bits (91), Expect = 2e-05
 Identities = 15/106 (14%), Positives = 32/106 (30%), Gaps = 4/106 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +   Y++   G I + D  + +     +D   ++         VLLV          +
Sbjct: 68  RTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERV 127

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
            ++E              +      A     + +  + L + I  K
Sbjct: 128 VSSERGR----QLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>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 = 39.1 bits (90), Expect = 2e-05
 Identities = 14/107 (13%), Positives = 31/107 (28%), Gaps = 4/107 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R +   Y++ + G+I V D  D++     +  L  +          LLV          +
Sbjct: 69  RTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRV 128

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
              ++                  T A     + +    ++  I   +
Sbjct: 129 VEYDVAK----EFADANKMPFLETSALDSTNVEDAFLTMARQIKESM 171

>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 = 38.7 bits (89), Expect = 3e-05
 Identities = 11/104 (10%), Positives = 35/104 (33%), Gaps = 4/104 (3%)

Query: 1   IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 60
            R +   Y+++   L+ + D  ++      +  L  +    +   A++L+          
Sbjct: 69  FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDS---- 124

Query: 61  MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
            +   +  + G    ++       T A +G  +      ++  +
Sbjct: 125 AHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>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 = 38.3 bits (88), Expect = 5e-05
 Identities = 19/107 (17%), Positives = 37/107 (34%), Gaps = 4/107 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R + R Y++   G + V D   R+              +    + V+++  NK DL +  
Sbjct: 66  RSITRSYYRGAAGALLVYDITRRETF-NHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR 124

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV 108
           +      + G    R+       T A +   + E     +  I  K+
Sbjct: 125 DVKR---EEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 168

>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 = 37.2 bits (85), Expect = 9e-05
 Identities = 22/133 (16%), Positives = 40/133 (30%), Gaps = 33/133 (24%)

Query: 5   WRHYFQNTQGLIFVVDSNDRDRVVEAR----------DELHRMLNEDELRDAVLLVFAN- 53
           W H F+    +IF V  +D D V+                  + N     D  +++F N 
Sbjct: 59  WIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNK 118

Query: 54  KQDLPNAMNAAEITDKLGLH----------------------SLRQRHWYIQSTCATSGE 91
           K      +  + +T     +                          +  Y   TCAT  +
Sbjct: 119 KDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTK 178

Query: 92  GLYEGLDWLSNNI 104
            +    D +++ I
Sbjct: 179 NVQFVFDAVTDVI 191

>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 = 36.8 bits (84), Expect = 1e-04
 Identities = 17/103 (16%), Positives = 33/103 (32%), Gaps = 4/103 (3%)

Query: 2   RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM 61
           R + R Y++   G + V D   R                    + V+++  NK DL    
Sbjct: 67  RAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDARNLTNPNTVIILIGNKADLEAQR 125

Query: 62  NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI 104
           +   +T +       +         A +GE + +     +  I
Sbjct: 126 D---VTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 = 34.9 bits (79), Expect = 7e-04
 Identities = 18/104 (17%), Positives = 38/104 (36%), Gaps = 3/104 (2%)

Query: 4   LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA 63
           +  +YF++ +G + V    + +      D   ++L   E  +   L+  NK DL +    
Sbjct: 68  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 127

Query: 64  AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK 107
           +    K   +   Q +     T A +   + +    L   I  +
Sbjct: 128 SVEEAK---NRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	110
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.91
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.89
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.89
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.88
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.87
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.82
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.82
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.82
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.82
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.82
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.8
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.8
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.79
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.79
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.79
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.79
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.79
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.77
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.77
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.76
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.75
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.75
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.74
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.74
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.72
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.71
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.71
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.71
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.7
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.7
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.68
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.66
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.52
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.47
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.47
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.47
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.47
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.44
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.41
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.38
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.36
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.34
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.33
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.33
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.3
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.24
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.21
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.2
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.17
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.14
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.01
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.82
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.78
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.7
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.67
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.53
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.42
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.32
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.29
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.26
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.22
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.1
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.03
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.01
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.98
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.96
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.82
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	96.99
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	96.81
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	93.22
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.93
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	92.81
d1s2da_	167	Purine transdeoxyribosylase {Lactobacillus helveti	85.62
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	83.74
d1f8ya_	156	Nucleoside 2-deoxyribosyltransferase {Lactobacillu	83.31

>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=99.91  E-value=3.3e-23  Score=120.68  Aligned_cols=107  Identities=53%  Similarity=0.932  Sum_probs=92.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++.+|+.++++++++++|+|.+++.++.+...++...+......+.|+++|+||+|+.+..+.+++...+++.......+
T Consensus        74 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  153 (182)
T d1moza_          74 IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSW  153 (182)
T ss_dssp             CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCE
T ss_pred             cchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCC
Confidence            46789999999999999999999988888888888877766666899999999999988777777777776655566778


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++|||++|+|++++++||.+.+.++
T Consensus       154 ~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         154 SIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             EEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            999999999999999999999998764

>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=99.89  E-value=1.5e-22  Score=117.11  Aligned_cols=104  Identities=49%  Similarity=0.877  Sum_probs=86.1

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcce
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ++..|..+++.+|++++|+|.++..++.....++..........++|+++++||+|+.+......+.+.+.......+.+
T Consensus        73 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  152 (176)
T d1fzqa_          73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVW  152 (176)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCE
T ss_pred             chhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCC
Confidence            35689999999999999999999988988888887776665556799999999999987766666666555444455678


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHH
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++++|||++|+|++++|+||.+.+
T Consensus       153 ~~~~~SA~tg~gv~e~~~~l~~~i  176 (176)
T d1fzqa_         153 QIQSCSALTGEGVQDGMNWVCKNV  176 (176)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHTC
T ss_pred             EEEEEeCCCCCCHHHHHHHHHhcC
Confidence            899999999999999999998753

>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=99.89  E-value=2.2e-22  Score=116.37  Aligned_cols=103  Identities=66%  Similarity=1.243  Sum_probs=88.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++.|..++++++++++|+|.++..++.....++...++.....+.|+++++||+|+.+.....++...+++......++.
T Consensus        70 ~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  149 (173)
T d1e0sa_          70 RPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWY  149 (173)
T ss_dssp             HHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEE
T ss_pred             hhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCE
Confidence            56889999999999999999998889888888888877655568999999999999877777777777666556667889


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++|||++|+|++++|+||.+++
T Consensus       150 ~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         150 VQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             EEECBTTTTBTHHHHHHHHHHHC
T ss_pred             EEEeeCCCCcCHHHHHHHHHHhc
Confidence            99999999999999999998865

>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=99.88  E-value=9.6e-22  Score=112.72  Aligned_cols=106  Identities=48%  Similarity=0.901  Sum_probs=88.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +..|+.+++.++++++|+|.++..++.+...++...+......+.|+++|+||+|+.+....++....+........+++
T Consensus        60 ~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  139 (165)
T d1ksha_          60 RSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWR  139 (165)
T ss_dssp             HTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEE
T ss_pred             hhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHHHHHHhhhhhcCCCE
Confidence            56788999999999999999998888888888877776655578999999999999877666665555544444556788


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++|||++|+|++++++||.+++.++
T Consensus       140 ~~~~Sa~~g~gv~e~~~~l~~~i~~r  165 (165)
T d1ksha_         140 IQGCSAVTGEDLLPGIDWLLDDISSR  165 (165)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHcC
Confidence            99999999999999999999998764

>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=99.87  E-value=1.7e-21  Score=111.66  Aligned_cols=103  Identities=26%  Similarity=0.622  Sum_probs=88.4

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +..|..++.+++++++|+|+++..++.....++..++.....++.|+++|+||+|+.+.....++.+.++........++
T Consensus        61 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  140 (164)
T d1zd9a1          61 RSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREIC  140 (164)
T ss_dssp             HTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEE
T ss_pred             cccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhCCCE
Confidence            56789999999999999999998889888888888877766678999999999999877777777776665555567889


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++++||++|+|++++|+||.+++
T Consensus       141 ~~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         141 CYSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHTC
T ss_pred             EEEEeCcCCcCHHHHHHHHHHcc
Confidence            99999999999999999998864

>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=99.85  E-value=4.3e-21  Score=110.46  Aligned_cols=102  Identities=15%  Similarity=0.086  Sum_probs=76.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.|++++|++|+|+|.+++.++.....|+..+.......+.|+++|+||+|+....  +..+....     ....
T Consensus        61 ~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~-----~~~~  135 (168)
T d2gjsa1          61 GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRAC-----AVVF  135 (168)
T ss_dssp             ---CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHH-----HHHH
T ss_pred             cceecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHH-----HHhc
Confidence            4678899999999999999999999999888888777554444568999999999986532  33332221     1123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.++++|||++|.|++++|.++.+.+..+
T Consensus       136 ~~~~~e~Sak~~~~v~~~f~~l~~~i~~~  164 (168)
T d2gjsa1         136 DCKFIETSAALHHNVQALFEGVVRQIRLR  164 (168)
T ss_dssp             TSEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            45789999999999999999999887654

>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=99.83  E-value=1.2e-20  Score=108.81  Aligned_cols=101  Identities=15%  Similarity=0.175  Sum_probs=79.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +.+++.|+++++++++|+|++++++++....|+.......  .+.|+++|+||+|+......++....     ....+++
T Consensus        66 ~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~-----~~~~~~~  138 (170)
T d1i2ma_          66 GGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDIKDRKVKAKSIVF-----HRKKNLQ  138 (170)
T ss_dssp             SSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHH--CSCCEEEEEECCCCSCSCCTTTSHHH-----HSSCSSE
T ss_pred             ceecchhcccccchhhccccccccccchhHHHHHHHhhcc--CCCceeeecchhhhhhhhhhhHHHHH-----HHHcCCE
Confidence            4678899999999999999999999988888887765432  47999999999999665432221111     1234568


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhhcC
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANKVG  109 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  109 (110)
                      ++++||++|.|++++|.+|.+.+.+..+
T Consensus       139 ~~e~Sak~~~~v~e~f~~l~~~l~~~~~  166 (170)
T d1i2ma_         139 YYDISAKSNYNFEKPFLWLARKLIGDPN  166 (170)
T ss_dssp             EEEEBTTTTBTTTHHHHHHHHHHHTCTT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHccCCC
Confidence            8999999999999999999998876544

>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=99.82  E-value=2.2e-20  Score=107.49  Aligned_cols=101  Identities=18%  Similarity=0.261  Sum_probs=78.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|.+++.++.....|+..+.......+.|+++|+||+|+.+.  ...++.....     ...+
T Consensus        66 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~-----~~~~  140 (168)
T d1u8za_          66 AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRA-----DQWN  140 (168)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHT
T ss_pred             hhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHH-----HHcC
Confidence            45788899999999999999999999988888877765433467899999999998543  2334433321     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +++++|||++|.|++++|.+|.+.+..+
T Consensus       141 ~~~~e~Sak~g~gv~e~f~~l~~~i~~r  168 (168)
T d1u8za_         141 VNYVETSAKTRANVDKVFFDLMREIRAR  168 (168)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHHCc
Confidence            5789999999999999999999987653

>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=99.82  E-value=5.2e-20  Score=105.69  Aligned_cols=101  Identities=17%  Similarity=0.189  Sum_probs=78.3

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.+++.|++++|++|+|+|.+++.+++.+..|+..+......++.|+++|+||+|+....  ..++......    ...
T Consensus        64 ~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~----~~~  139 (167)
T d1c1ya_          64 FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR----QWC  139 (167)
T ss_dssp             STTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH----HTT
T ss_pred             ccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHH----HhC
Confidence            3567889999999999999999999999998888877654344678999999999986432  2322222210    113


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..++++|||++|+|++++|.++.+.+.
T Consensus       140 ~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         140 NCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             SCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            458899999999999999999998774

>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=99.82  E-value=7.6e-20  Score=105.53  Aligned_cols=99  Identities=16%  Similarity=0.161  Sum_probs=77.6

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++..|++++|++|+|+|.+++.++.....|+..+.......+.|+++|+||+|+.+.  ...++....     ....+++
T Consensus        70 ~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~-----a~~~~~~  144 (172)
T d2g3ya1          70 LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRAC-----AVVFDCK  144 (172)
T ss_dssp             HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHH-----HHHHTCE
T ss_pred             cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHH-----HHHcCCe
Confidence            567789999999999999999999988888887765544467999999999998653  233332221     1123457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|.|++++|..+++.+..+
T Consensus       145 ~~e~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         145 FIETSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHHc
Confidence            89999999999999999999988654

>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=99.82  E-value=5.2e-20  Score=106.31  Aligned_cols=102  Identities=18%  Similarity=0.235  Sum_probs=79.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..++++++++|+|+|.+++.++.....|+..+.+.....+.|+++|+||+|+....  ..++.....     ...
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~-----~~~  141 (173)
T d2fn4a1          67 FGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFG-----ASH  141 (173)
T ss_dssp             TSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             cccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHH-----Hhc
Confidence            3567889999999999999999999999888888776554333578999999999985432  233332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.++++|||++|.|++++|+++.+.+.++
T Consensus       142 ~~~~~e~Sak~g~gv~e~f~~l~~~i~k~  170 (173)
T d2fn4a1         142 HVAYFEASAKLRLNVDEAFEQLVRAVRKY  170 (173)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            45789999999999999999999988765

>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=99.82  E-value=4.3e-20  Score=107.64  Aligned_cols=103  Identities=17%  Similarity=0.327  Sum_probs=79.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|+.++++||++|+|+|++++.++.....|+..+.........|+++|+||+|+....  ..++.....     ...
T Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~-----~~~  151 (186)
T d2f7sa1          77 FRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELA-----DKY  151 (186)
T ss_dssp             HHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             hHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHH-----HHc
Confidence            3568899999999999999999999998888887766554444578999999999986432  333333221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++++||++|.|++++|+++.+.+.++.
T Consensus       152 ~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~  181 (186)
T d2f7sa1         152 GIPYFETSAATGQNVEKAVETLLDLIMKRM  181 (186)
T ss_dssp             TCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            457899999999999999999999887653

>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=99.82  E-value=5.6e-20  Score=105.85  Aligned_cols=101  Identities=14%  Similarity=0.157  Sum_probs=79.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..+++.|++++|++++|+|++++.++.....|+..+.+.....+.|+++++||+|+....  ..++..+..     ...+
T Consensus        66 ~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~-----~~~~  140 (169)
T d1x1ra1          66 SAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMA-----TKYN  140 (169)
T ss_dssp             CSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHH-----HHHT
T ss_pred             ccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHH-----HHcC
Confidence            457788999999999999999999999988888877654334579999999999986643  334433321     1233


Q ss_pred             eEEEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      ++++++||+++. ||+++|..+.+.+.++
T Consensus       141 ~~~~e~Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         141 IPYIETSAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             CCEEEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             CEEEEEcCCCCCcCHHHHHHHHHHHHHhC
Confidence            578899999886 9999999999988754

>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=99.80  E-value=6e-20  Score=105.38  Aligned_cols=100  Identities=11%  Similarity=0.056  Sum_probs=77.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~   78 (110)
                      |+.++..+++++|++|+|+|.+++.++.....|+..+.......+.|+++|+||+|+...  .+.++.....     ...
T Consensus        65 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a-----~~~  139 (167)
T d1xtqa1          65 YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALA-----ESW  139 (167)
T ss_dssp             TCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             cccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHH-----HHc
Confidence            345778899999999999999999999988888877765433357899999999998643  3344433221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +.++++|||++|.|++++|+.+.+.+.
T Consensus       140 ~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         140 NAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             TCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            457889999999999999999988764

>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=99.80  E-value=3.2e-19  Score=102.68  Aligned_cols=101  Identities=17%  Similarity=0.213  Sum_probs=78.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..+++++|++++|+|.+++.++.....|+..+.........|+++|+||+|+...  ...++.....     ...+
T Consensus        67 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~-----~~~~  141 (171)
T d2erya1          67 GAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLA-----RQLK  141 (171)
T ss_dssp             CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHH-----HHTT
T ss_pred             cccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHH-----HHcC
Confidence            45678899999999999999999999888888877665433457899999999998654  2344433321     2234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++++|||++|.|++++|..+.+.+.++
T Consensus       142 ~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         142 VTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            5789999999999999999999988653

>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=99.80  E-value=1.6e-19  Score=104.55  Aligned_cols=104  Identities=12%  Similarity=0.154  Sum_probs=74.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc-----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL-----   75 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-----   75 (110)
                      |+.+|+.|++++|++|+|+|.+++.+++....++........ ++.|+++|+||+|+.+.....+..........     
T Consensus        63 ~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~  141 (177)
T d1kmqa_          63 YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEG  141 (177)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHH
T ss_pred             hcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhC-CCCceEEeeecccccchhhHHHHHHHhhcccccHHHH
Confidence            457889999999999999999999999887776666554422 57999999999998653211110000000000     


Q ss_pred             ----c-CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           76 ----R-QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        76 ----~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                          . ....++++|||++|.|++++|+.+.+.+.
T Consensus       142 ~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         142 RDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence                0 11247899999999999999999998765

>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=99.80  E-value=3.5e-19  Score=102.72  Aligned_cols=102  Identities=20%  Similarity=0.272  Sum_probs=78.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.+|+.+++++|++++|+|.+++.++.....|+..+..... .+.|+++|+||+|+....  ..++.....     ...
T Consensus        65 ~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~a-----~~~  138 (173)
T d2a5ja1          65 FRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSS-SNMVIMLIGNKSDLESRRDVKREEGEAFA-----REH  138 (173)
T ss_dssp             TSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCC-CCCeEEEEecCCchhhhhhhHHHHHHHHH-----HHc
Confidence            467889999999999999999999999988888877654432 578999999999975432  233222221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ..+++++||++|.|++++|.++.+.+.++.
T Consensus       139 ~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~  168 (173)
T d2a5ja1         139 GLIFMETSAKTACNVEEAFINTAKEIYRKI  168 (173)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHHH
Confidence            457899999999999999999999876553

>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=99.79  E-value=2.8e-19  Score=102.28  Aligned_cols=99  Identities=16%  Similarity=0.268  Sum_probs=77.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..++++++++++|+|.+++.++.....|+........ .+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        62 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~-~~~~iilvgnK~Dl~~~~~~~~~~~~~~~-----~~~  135 (164)
T d1yzqa1          62 FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERG-SDVIIMLVGNKTDLADKRQVSIEEGERKA-----KEL  135 (164)
T ss_dssp             GGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             hccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcC-CCceEEEEecccchhhhhhhhHHHHHHHH-----HHc
Confidence            356889999999999999999999999888888877654322 579999999999985432  333332221     223


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +.++++|||++|.|++++|++|++.++
T Consensus       136 ~~~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         136 NVMFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             CCEEEEecCCCCcCHHHHHHHHHHhhC
Confidence            457899999999999999999999876

>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=99.79  E-value=4.1e-19  Score=101.90  Aligned_cols=98  Identities=18%  Similarity=0.216  Sum_probs=76.3

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..++++++++|+|+|.++++++.....|+....... ..+.|+++|+||+|+.+.  ...++.....     ...+
T Consensus        67 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~-----~~~~  140 (167)
T d1z0ja1          67 RALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHG-PPSIVVAIAGNKCDLTDVREVMERDAKDYA-----DSIH  140 (167)
T ss_dssp             GGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTSEEEEEEECTTCGGGCCSCHHHHHHHH-----HHTT
T ss_pred             hHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhcc-CCcceEEEecccchhccccchhHHHHHHHH-----HHcC
Confidence            5678999999999999999999999988888776654332 357999999999999643  2333333221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++|||++|.||+++|.+|.+.++
T Consensus       141 ~~~~e~SAk~~~nV~e~f~~l~~~i~  166 (167)
T d1z0ja1         141 AIFVETSAKNAININELFIEISRRIP  166 (167)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             CEEEEEecCCCCCHHHHHHHHHHhCC
Confidence            57899999999999999999998874

>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=99.79  E-value=2.4e-18  Score=97.48  Aligned_cols=103  Identities=89%  Similarity=1.409  Sum_probs=84.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +..+..++.+++++++++|.+++.++.....++.+.+........|+++++||.|+.+.....++.............++
T Consensus        58 ~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~  137 (160)
T d1r8sa_          58 RPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWY  137 (160)
T ss_dssp             HHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEE
T ss_pred             hhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCE
Confidence            34678899999999999999998888888888888877666678999999999999877666666554444334456788


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +++|||++|+|++++|+||.+.+
T Consensus       138 ~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         138 IQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             EEECBTTTTBTHHHHHHHHHHHC
T ss_pred             EEEeECCCCCCHHHHHHHHHhcC
Confidence            99999999999999999998764

>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=99.79  E-value=2.8e-18  Score=98.86  Aligned_cols=103  Identities=47%  Similarity=0.857  Sum_probs=83.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      +..|..++..++++++++|.++..++.....+...........+.|+++|+||+|+......+++...+..........+
T Consensus        73 ~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  152 (177)
T d1zj6a1          73 RSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWH  152 (177)
T ss_dssp             CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEE
T ss_pred             ccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCE
Confidence            56788899999999999999988877766655555555544568999999999999877776677666655445567789


Q ss_pred             EEeeecccCCCHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ++++||++|+|++++++||.+++
T Consensus       153 ~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         153 IQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             EEECBTTTTBTHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999876

>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=99.79  E-value=1.3e-19  Score=103.95  Aligned_cols=99  Identities=19%  Similarity=0.212  Sum_probs=73.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      +.+|+.+++++|++++|+|.++++++.....|+..+.... ....|+++++||+|+...  .+.++.....     ...+
T Consensus        66 ~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a-----~~~~  139 (167)
T d1z08a1          66 HALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYA-----ESVG  139 (167)
T ss_dssp             ----CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTT
T ss_pred             cccchhhccCCceeEEEEeCCchhHHHhhhhhhhhccccc-ccccceeeeccccccccccccchHHHHHHH-----HHcC
Confidence            5678899999999999999999999988888877654332 246899999999998653  2344443321     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .++++|||++|.|++++|.+|.+.+.+
T Consensus       140 ~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         140 AKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             CEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             CeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            578999999999999999999988753

>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=99.79  E-value=2.4e-19  Score=102.78  Aligned_cols=100  Identities=16%  Similarity=0.238  Sum_probs=77.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcce
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   80 (110)
                      +..++.++++++++++|+|.+++.+++....|+..+.......+.|+++|+||+|+.... ..++..+..     ...++
T Consensus        65 ~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~  139 (166)
T d1ctqa_          65 SAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA-----RSYGI  139 (166)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCSCHHHHHHHH-----HHHTC
T ss_pred             ccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccccHHHHHHHH-----HHhCC
Confidence            346788899999999999999999998888888776544333578999999999986543 333332221     12345


Q ss_pred             EEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           81 YIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++|||++|+|++++|.++.+.+.+
T Consensus       140 ~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         140 PYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            78899999999999999999988764

>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=99.79  E-value=5.1e-19  Score=101.72  Aligned_cols=101  Identities=15%  Similarity=0.230  Sum_probs=76.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|+.++++||++|+|+|+++++++.....++...... .....|+++++||+|+.+..  +.++.....     ...
T Consensus        67 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~-----~~~  140 (169)
T d3raba_          67 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTY-SWDNAQVLLVGNKCDMEDERVVSSERGRQLA-----DHL  140 (169)
T ss_dssp             GHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH-CCSCCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcc-cCCcceEEEEEeecccccccccchhhhHHHH-----HHc
Confidence            3567899999999999999999998888777776655332 23578999999999986533  333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++++|||++|.|++++|+++.+.+.++
T Consensus       141 ~~~~~e~Sak~g~gv~e~f~~l~~~i~ek  169 (169)
T d3raba_         141 GFEFFEASAKDNINVKQTFERLVDVICEK  169 (169)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHTC
T ss_pred             CCEEEEecCCCCcCHHHHHHHHHHHHhhC
Confidence            45799999999999999999999988654

>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=99.78  E-value=6.3e-19  Score=101.35  Aligned_cols=99  Identities=17%  Similarity=0.235  Sum_probs=76.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+++.++++++++++|+|.++..++.....|+..+.... .++.|+++|+||+|+....  +.++.....     ...
T Consensus        68 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~-----~~~  141 (170)
T d1r2qa_          68 YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQA-SPNIVIALSGNKADLANKRAVDFQEAQSYA-----DDN  141 (170)
T ss_dssp             GGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHT
T ss_pred             hhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhcc-CCCceEEeecccccccccccccHHHHHHHH-----Hhc
Confidence            35688999999999999999999999988887777765432 2579999999999985432  333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..++++|||++|.||+++|.+|.+.+.
T Consensus       142 ~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         142 SLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            458999999999999999999988764

>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=99.78  E-value=1.5e-19  Score=103.66  Aligned_cols=99  Identities=15%  Similarity=0.179  Sum_probs=76.1

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      +.++..++++++++++|+|.+++.++.....|+..+.......+.|+++|+||+|+....  ..++.....     ....
T Consensus        65 ~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~-----~~~~  139 (167)
T d1kaoa_          65 ASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALA-----EEWG  139 (167)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHT
T ss_pred             ccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHH-----HHcC
Confidence            456788999999999999999999999988888777654444678999999999985432  233322211     1223


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .++++|||++|.|++++|.++.+.+.
T Consensus       140 ~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         140 CPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             SCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            46889999999999999999998764

>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=99.78  E-value=1.6e-19  Score=103.90  Aligned_cols=102  Identities=15%  Similarity=0.161  Sum_probs=75.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC-CCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccC
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE-DELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQ   77 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~   77 (110)
                      |+.++..+++++|++++|+|.++++++.....|+..+... ....+.|+++|+||+|+...  .+.++..+..     ..
T Consensus        63 ~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~-----~~  137 (171)
T d2erxa1          63 FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALA-----RT  137 (171)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHH-----HH
T ss_pred             ccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHH-----HH
Confidence            3557788999999999999999999998887777665432 12357899999999998543  2333333221     12


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++++++|||++|.|++++|..|.+.+.++
T Consensus       138 ~~~~~~e~Sak~~~~v~e~f~~l~~~~~~~  167 (171)
T d2erxa1         138 WKCAFMETSAKLNHNVKELFQELLNLEKRR  167 (171)
T ss_dssp             HTCEEEECBTTTTBSHHHHHHHHHHTCCSS
T ss_pred             cCCeEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            345789999999999999999999877544

>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=99.78  E-value=1.1e-18  Score=101.57  Aligned_cols=100  Identities=13%  Similarity=0.061  Sum_probs=73.4

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAEI   66 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~~   66 (110)
                      |+.++..|++++|++++|+|++++++++....++....... ..+.|+++|+||+|+.+..              ..++.
T Consensus        70 ~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~  148 (185)
T d2atxa1          70 YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQG  148 (185)
T ss_dssp             STTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHH
T ss_pred             hhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHH
Confidence            45788999999999999999999999987766666555432 3578999999999986432              11111


Q ss_pred             HhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           67 TDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      .+...    ......+++|||++|.|++++|+.+.+.+.
T Consensus       149 ~~~a~----~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         149 QKLAK----EIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHH----HHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHH----HcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            11100    011246889999999999999999988764

>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=99.78  E-value=3.2e-19  Score=102.10  Aligned_cols=97  Identities=15%  Similarity=0.244  Sum_probs=75.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~   79 (110)
                      ..++..++++++++++|+|.+++.+++....|+..+.+.  ..+.|+++|+||+|+.+.  ...++.....     ...+
T Consensus        65 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~iilVgnK~Dl~~~~~v~~~~~~~~~-----~~~~  137 (164)
T d1z2aa1          65 DAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAE--VGDIPTALVQNKIDLLDDSCIKNEEAEGLA-----KRLK  137 (164)
T ss_dssp             TCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH--HCSCCEEEEEECGGGGGGCSSCHHHHHHHH-----HHHT
T ss_pred             hhhhhhhhccCceEEEEEeccchhhhhhccccccccccc--CCCceEEEeeccCCcccceeeeehhhHHHH-----HHcC
Confidence            457788999999999999999999998888888776543  247899999999998543  2333333221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++++++||++|.|++++|++|.+.+.
T Consensus       138 ~~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         138 LRFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             CEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             CEEEEeccCCCcCHHHHHHHHHHHHh
Confidence            57899999999999999999988765

>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=99.77  E-value=7.1e-19  Score=101.22  Aligned_cols=101  Identities=14%  Similarity=0.188  Sum_probs=76.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|+.|+++++++++|+|.+++.++.....++..+.... ....|+++|+||+|+.+..  ..++.....     ...
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~-----~~~  140 (171)
T d2ew1a1          67 FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYA-SNKVITVLVGNKIDLAERREVSQQRAEEFS-----EAQ  140 (171)
T ss_dssp             GHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCSSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccc-cccccEEEEEeecccccccchhhhHHHHHH-----HhC
Confidence            35688999999999999999999988888877777665432 2568999999999986432  333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      +.++++|||++|+||+++|.++++.+..+
T Consensus       141 ~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         141 DMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            34688999999999999999998877654

>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=99.77  E-value=7.4e-19  Score=100.52  Aligned_cols=94  Identities=16%  Similarity=0.162  Sum_probs=71.7

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcce
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHW   80 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~   80 (110)
                      ..|+.|++++|++|+|+|.+++++++....|+..+.+.....+.|+++|+||+|+.+.  .+.++.....     ...++
T Consensus        67 ~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~-----~~~~~  141 (165)
T d1z06a1          67 SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFA-----DTHSM  141 (165)
T ss_dssp             TTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHTTC
T ss_pred             ccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHH-----HHCCC
Confidence            3578899999999999999999999988888887765544467999999999998653  2444433321     12345


Q ss_pred             EEEeeeccc---CCCHHHHHHHHH
Q 044598           81 YIQSTCATS---GEGLYEGLDWLS  101 (110)
Q Consensus        81 ~~~~~Sa~~---~~~i~~l~~~l~  101 (110)
                      ++++|||++   +.||+++|++|+
T Consensus       142 ~~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         142 PLFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             CEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             EEEEEecccCCcCcCHHHHHHHhC
Confidence            788999987   459999998874

>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=99.77  E-value=2.7e-18  Score=98.96  Aligned_cols=102  Identities=15%  Similarity=0.205  Sum_probs=71.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |..+|..+++++|++|+|+|++++.++.....++..+... ...+.|+++|+||+|+....  ..++....     ....
T Consensus        68 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iilv~~k~D~~~~~~~~~~~~~~~-----~~~~  141 (173)
T d2fu5c1          68 FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEH-ASADVEKMILGNKCDVNDKRQVSKERGEKL-----ALDY  141 (173)
T ss_dssp             ----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH-SCTTCEEEEEEEC--CCSCCCSCHHHHHHH-----HHHH
T ss_pred             hHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhh-ccCCceEEEEEecccchhhcccHHHHHHHH-----HHhc
Confidence            3567889999999999999999999888887777666433 23679999999999987643  22222222     1234


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +.++++|||++|+|++++|.+|.+.+..+.
T Consensus       142 ~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         142 GIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             TCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            568899999999999999999999987664

>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=99.76  E-value=4.8e-18  Score=98.04  Aligned_cols=99  Identities=16%  Similarity=0.223  Sum_probs=76.2

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..++++++++|+|+|.+++.++.....++..+..... .+.|+++|+||+|+.+..  ..+......     ...
T Consensus        66 ~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~-----~~~  139 (175)
T d2f9la1          66 YRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTDEARAFA-----EKN  139 (175)
T ss_dssp             TTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             HHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcC-CCCcEEEEEeeecccccccchHHHHHHhh-----ccc
Confidence            456789999999999999999999999888888877655433 578999999999986432  222222211     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..++++|||++|.|++++|.++.+.+.
T Consensus       140 ~~~~~e~Sa~~g~~i~e~f~~l~~~i~  166 (175)
T d2f9la1         140 NLSFIETSALDSTNVEEAFKNILTEIY  166 (175)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CceEEEEecCCCcCHHHHHHHHHHHHH
Confidence            457899999999999999999988764

>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=99.76  E-value=4.1e-18  Score=97.57  Aligned_cols=98  Identities=19%  Similarity=0.260  Sum_probs=74.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.++..+++++|++++|+|.++.+++.....|+..+... .....|+++++||+|+....  ..++.....     ...
T Consensus        66 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~-----~~~  139 (166)
T d1z0fa1          66 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNL-TNPNTVIILIGNKADLEAQRDVTYEEAKQFA-----EEN  139 (166)
T ss_dssp             TCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHT
T ss_pred             HHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhh-ccccceEEEEcccccchhhcccHHHHHHHHH-----HHc
Confidence            4567899999999999999999998888877777665433 33578999999999985433  233332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      ..++++|||++|.|++++|.++.+.+
T Consensus       140 ~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         140 GLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            45889999999999999999998764

>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=99.76  E-value=6.4e-18  Score=97.68  Aligned_cols=104  Identities=24%  Similarity=0.302  Sum_probs=81.6

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      ++++|+.+++++|++++|+|.+++.++.....++..+.+.......|+++++||.|..... ..++..+..     ...+
T Consensus        69 ~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~-----~~~~  143 (177)
T d1x3sa1          69 FRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFA-----RKHS  143 (177)
T ss_dssp             GCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHH-----HHTT
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccccccHHHHHHHH-----HHCC
Confidence            3568999999999999999999998898888888887655444579999999999975533 333333321     2234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhcC
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKVG  109 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  109 (110)
                      ++++++||++|+|++++|+++.+.+.+.-+
T Consensus       144 ~~~~e~Sa~tg~gv~e~f~~l~~~l~~~p~  173 (177)
T d1x3sa1         144 MLFIEASAKTCDGVQCAFEELVEKIIQTPG  173 (177)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHTSGG
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHccCcc
Confidence            578999999999999999999998876544

>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=99.76  E-value=2.4e-18  Score=99.18  Aligned_cols=101  Identities=22%  Similarity=0.302  Sum_probs=77.5

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~   79 (110)
                      ..+|+.++++++++++|+|.+++.++.....++..+..... .+.|+++|+||+|+....  ..+.....     .....
T Consensus        68 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~-----~~~~~  141 (174)
T d2bmea1          68 RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS-QNIVIILCGNKKDLDADREVTFLEASRF-----AQENE  141 (174)
T ss_dssp             HHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHH-----HHHTT
T ss_pred             hhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccC-CceEEEEEEecccccchhchhhhHHHHH-----HHhCC
Confidence            46789999999999999999999888887777777654332 579999999999985432  22222221     11235


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      ++++++||++|.|++++|.++.+.+.+++
T Consensus       142 ~~~~e~Sak~~~gi~e~f~~l~~~i~~~~  170 (174)
T d2bmea1         142 LMFLETSALTGENVEEAFVQCARKILNKI  170 (174)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CEEEEeeCCCCcCHHHHHHHHHHHHHHHH
Confidence            68899999999999999999999887654

>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=99.75  E-value=7.8e-18  Score=97.01  Aligned_cols=103  Identities=9%  Similarity=0.118  Sum_probs=72.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC---CCCCCCeEEEEeeCCCCCCC---CCHHHHHhhhCCCcc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE---DELRDAVLLVFANKQDLPNA---MNAAEITDKLGLHSL   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~---~~~~~~~~iiv~nK~Dl~~~---~~~~~~~~~~~~~~~   75 (110)
                      ..++..+++.++++++|+|++++.++.....|+..+...   ....+.|+++|+||+|+.+.   ...++..+...    
T Consensus        66 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~----  141 (175)
T d1ky3a_          66 QSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK----  141 (175)
T ss_dssp             -----CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH----
T ss_pred             hhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHH----
Confidence            356788999999999999999999888877777665432   22347899999999998643   23333222110    


Q ss_pred             cCcceEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           76 RQRHWYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        76 ~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      .....++++|||++|.|++++|.++.+.+.++.
T Consensus       142 ~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         142 SLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             HTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            012346789999999999999999999887653

>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=99.75  E-value=2.2e-18  Score=100.16  Aligned_cols=104  Identities=11%  Similarity=0.065  Sum_probs=73.0

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCC-c----
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLH-S----   74 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~-~----   74 (110)
                      |+.++..|++++|++++|+|.+++.+++....++....... ..+.|+++|+||+|+...... +......... .    
T Consensus        66 ~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~  144 (183)
T d1mh1a_          66 YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG  144 (183)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHH
T ss_pred             chhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHH
Confidence            35678889999999999999999999988776565554432 257899999999998543211 1111100000 0    


Q ss_pred             ---c-cCcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           75 ---L-RQRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        75 ---~-~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                         . .....++++|||++|.||+++|..+.+.+.
T Consensus       145 ~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         145 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence               0 012358999999999999999999998765

>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=99.74  E-value=2.1e-17  Score=96.76  Aligned_cols=101  Identities=16%  Similarity=0.215  Sum_probs=76.7

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      |+.+|..++++|+++|+|+|++++.++.....++..+... ...+.|+++|+||+|+.+..  ..++.....     ...
T Consensus        68 ~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~-~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~-----~~~  141 (194)
T d2bcgy1          68 FRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRY-ATSTVLKLLVGNKCDLKDKRVVEYDVAKEFA-----DAN  141 (194)
T ss_dssp             TTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHH-----HHT
T ss_pred             hHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhc-ccCCceEEEEEeccccccccchhHHHHhhhh-----hcc
Confidence            4678999999999999999999998888877766655433 23678999999999997643  233322221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ...++++||++|.|++++|+++.+.+...
T Consensus       142 ~~~~~e~SAk~g~gi~e~f~~l~~~i~~~  170 (194)
T d2bcgy1         142 KMPFLETSALDSTNVEDAFLTMARQIKES  170 (194)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CcceEEEecCcCccHHHHHHHHHHHHHHH
Confidence            34678999999999999999999887653

>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=99.74  E-value=6.9e-18  Score=96.84  Aligned_cols=99  Identities=17%  Similarity=0.192  Sum_probs=72.1

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC--CCHHHHHhhhCCCcccCcceE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ....|+++++++++|+|.++++++.....|+..........+.|+++|+||+|+...  .+.++..+..     ...+++
T Consensus        65 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a-----~~~~~~  139 (168)
T d2atva1          65 QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLA-----TELACA  139 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHTSE
T ss_pred             cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHH-----HHhCCe
Confidence            345689999999999999999888877665443322222357999999999998643  3444433221     123457


Q ss_pred             EEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      +++|||++|. ||+++|..+.+.+.++
T Consensus       140 ~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         140 FYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             EEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             EEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            8999999998 5999999999988654

>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=99.72  E-value=1.7e-18  Score=99.48  Aligned_cols=98  Identities=18%  Similarity=0.284  Sum_probs=74.9

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC-----CCHHHHHhhhCCCccc
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-----MNAAEITDKLGLHSLR   76 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-----~~~~~~~~~~~~~~~~   76 (110)
                      ..+++.+++++|++++|+|.+++.++.....|+....... ....|+++++||+|+...     ...++..+..     .
T Consensus        66 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~-----~  139 (170)
T d1ek0a_          66 ASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQA-SKDIIIALVGNKIDMLQEGGERKVAREEGEKLA-----E  139 (170)
T ss_dssp             GGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHH-----H
T ss_pred             HHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhcccc-ccccceeeeecccccccccchhhhhHHHHHHHH-----H
Confidence            4578889999999999999999999988887776654432 257899999999998432     1333332221     2


Q ss_pred             CcceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           77 QRHWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        77 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..+++++++||++|.|++++|.+|.+.++
T Consensus       140 ~~~~~~~e~Sak~g~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_         140 EKGLLFFETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             HHTCEEEECCTTTCTTHHHHHHHHHTTSC
T ss_pred             HcCCEEEEecCCCCcCHHHHHHHHHHHhc
Confidence            34568999999999999999999987664

>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=99.71  E-value=2.9e-16  Score=89.27  Aligned_cols=106  Identities=49%  Similarity=0.894  Sum_probs=82.7

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceE
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY   81 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   81 (110)
                      ++.+..++..++++++++|..+..++.....++............|+++++||.|+.......++.............++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~  142 (169)
T d1upta_          63 RPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQ  142 (169)
T ss_dssp             GGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEE
T ss_pred             cccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCE
Confidence            45677889999999999999877666666555555554444467999999999999877666666555443334456789


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ++++||++|+|++++|++|.+.+.++
T Consensus       143 ~~~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         143 IFKTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999988765

>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=99.71  E-value=2.2e-17  Score=96.44  Aligned_cols=101  Identities=9%  Similarity=0.047  Sum_probs=73.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHHH
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAEI   66 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~~   66 (110)
                      |+.+++.+++++|++++|+|.+++++++.+..|+....... ..+.|+++|+||+|+.+..              ..++.
T Consensus        64 ~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~  142 (191)
T d2ngra_          64 YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETA  142 (191)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHH
T ss_pred             hhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhc-CCCCceEEEeccccccccchhhhhhhhcccccccHHHH
Confidence            45688999999999999999999999988876666555432 2579999999999985331              11111


Q ss_pred             HhhhCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           67 TDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .....    .....++++|||++|.||+++|+.+.+.+.+
T Consensus       143 ~~~~~----~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~~  178 (191)
T d2ngra_         143 EKLAR----DLKAVKYVECSALTQKGLKNVFDEAILAALE  178 (191)
T ss_dssp             HHHHH----HTTCSCEEECCTTTCTTHHHHHHHHHHHHTS
T ss_pred             HHHHH----HcCCCeEEEEeCCCCcCHHHHHHHHHHHHhc
Confidence            11100    0123468899999999999999999887654

>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=99.71  E-value=4.2e-17  Score=93.62  Aligned_cols=99  Identities=13%  Similarity=0.242  Sum_probs=71.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--CHHHHHhhhCCCcccCc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQR   78 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~   78 (110)
                      ++.+|..+++++|++++|+|.+++.++.....++........ ...|+++|+||+|+.+..  ..++.....     ...
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~~k~d~~~~~~v~~~~~~~~~-----~~~  142 (170)
T d2g6ba1          69 FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLA-----KEY  142 (170)
T ss_dssp             ------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHH-----HHH
T ss_pred             hHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccC-CCceEEEEEeeechhhcccccHHHHHHHH-----HHc
Confidence            356788999999999999999999888887777766544322 468999999999987643  333332221     123


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      +++++++||++|.|++++|.++.+.+.
T Consensus       143 ~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         143 GLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            457899999999999999999998875

>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=99.71  E-value=2.3e-17  Score=95.79  Aligned_cols=102  Identities=13%  Similarity=0.147  Sum_probs=74.6

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcC---CCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccC
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE---DELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQ   77 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~---~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~   77 (110)
                      +.++..++..|+++++|+|.+++.++.....|+..+...   ....+.|+++|+||+|+.+.. ..++.....    ...
T Consensus        65 ~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~----~~~  140 (184)
T d1vg8a_          65 QSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWC----YSK  140 (184)
T ss_dssp             SCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHH----HHT
T ss_pred             cccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHH----HHh
Confidence            346678899999999999999988888777777655432   222468999999999986643 233322221    112


Q ss_pred             cceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           78 RHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        78 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      ...++++|||++|.|++++|+++.+.+.++
T Consensus       141 ~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~  170 (184)
T d1vg8a_         141 NNIPYFETSAKEAINVEQAFQTIARNALKQ  170 (184)
T ss_dssp             TSCCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEcCCCCcCHHHHHHHHHHHHHhc
Confidence            345788999999999999999998877653

>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=99.71  E-value=1.6e-16  Score=91.41  Aligned_cols=99  Identities=9%  Similarity=0.157  Sum_probs=73.6

Q ss_pred             chHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhc---CCCCCCCeEEEEeeCCCCCCC-CCHHHHHhhhCCCcccCc
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLN---EDELRDAVLLVFANKQDLPNA-MNAAEITDKLGLHSLRQR   78 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~---~~~~~~~~~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~   78 (110)
                      ..+..++..++++++++|.+++.++.....|+..+..   .....+.|+++|+||+|+.+. ...++......    ...
T Consensus        70 ~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~----~~~  145 (174)
T d1wmsa_          70 SLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DNG  145 (174)
T ss_dssp             HHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HTT
T ss_pred             hhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhccCcHHHHHHHHH----HcC
Confidence            4677889999999999999999888877777655432   223356899999999998653 23444333211    112


Q ss_pred             ceEEEeeecccCCCHHHHHHHHHHHHH
Q 044598           79 HWYIQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        79 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ..++++|||++|.||+++|+++.+.+.
T Consensus       146 ~~~~~e~Sak~~~gI~e~f~~l~~~il  172 (174)
T d1wmsa_         146 DYPYFETSAKDATNVAAAFEEAVRRVL  172 (174)
T ss_dssp             CCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCcCHHHHHHHHHHHHh
Confidence            346889999999999999999998875

>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=99.70  E-value=4.7e-17  Score=93.02  Aligned_cols=102  Identities=19%  Similarity=0.261  Sum_probs=77.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHHHHhhhCCCcccCcc
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~   79 (110)
                      |+.+|..++++++++++|+|.+++.++.....++...... .....|+++++||.|+.+.. ..++.....     ...+
T Consensus        64 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~i~~~~k~d~~~~~~~~~~~~~~~-----~~~~  137 (166)
T d1g16a_          64 FRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEH-ANDEAQLLLVGNKSDMETRVVTADQGEALA-----KELG  137 (166)
T ss_dssp             TSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCTTCCSCHHHHHHHH-----HHHT
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhcc-ccCcceeeeecchhhhhhhhhhHHHHHHHH-----HhcC
Confidence            4678899999999999999999998887776666555433 22568999999999987654 333332221     1234


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhhc
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +++++|||++|+|++++|.+|.+.+.+++
T Consensus       138 ~~~~~~Sa~~~~~v~e~f~~l~~~i~~k~  166 (166)
T d1g16a_         138 IPFIESSAKNDDNVNEIFFTLAKLIQEKI  166 (166)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHHHHTC
T ss_pred             CeEEEECCCCCCCHHHHHHHHHHHHHhcC
Confidence            57899999999999999999999987763

>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=99.70  E-value=3.3e-17  Score=94.89  Aligned_cols=100  Identities=11%  Similarity=0.098  Sum_probs=73.2

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC--------------CHHHHH
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--------------NAAEIT   67 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--------------~~~~~~   67 (110)
                      +.+++.+++++|++++|+|++++.++.....++...+.... .+.|+++|+||+|+....              ..++..
T Consensus        64 ~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~-~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~  142 (179)
T d1m7ba_          64 DNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGA  142 (179)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHH
T ss_pred             cccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccC-CcceEEEEEecccccccchhhHHHhhhhcCcchHHHHH
Confidence            45678899999999999999999999888776666543322 579999999999985321              122211


Q ss_pred             hhhCCCcccC-cceEEEeeecccCC-CHHHHHHHHHHHHHhh
Q 044598           68 DKLGLHSLRQ-RHWYIQSTCATSGE-GLYEGLDWLSNNIANK  107 (110)
Q Consensus        68 ~~~~~~~~~~-~~~~~~~~Sa~~~~-~i~~l~~~l~~~~~~~  107 (110)
                      ...     .. ....+++|||++|. |++++|+.+.+.+.++
T Consensus       143 ~~a-----~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~k  179 (179)
T d1m7ba_         143 NMA-----KQIGAATYIECSALQSENSVRDIFHVATLACVNK  179 (179)
T ss_dssp             HHH-----HHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHTC
T ss_pred             HHH-----HHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhcC
Confidence            110     01 12478999999998 5999999999988764

>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=99.70  E-value=4.4e-16  Score=88.04  Aligned_cols=101  Identities=38%  Similarity=0.665  Sum_probs=80.0

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcc------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSL------   75 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~------   75 (110)
                      ..+++.++..++++++++|.++...+.....++..........+.|+++++||.|+.......++...+.+...      
T Consensus        58 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~  137 (166)
T d2qtvb1          58 RRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRI  137 (166)
T ss_dssp             GGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCHHHHHHHHTCSSCCC---C
T ss_pred             hhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCHHHHHHHhhhhhhhHHHhh
Confidence            35678899999999999999998887777667766666555578999999999999877666666655543221      


Q ss_pred             -cCcceEEEeeecccCCCHHHHHHHHHH
Q 044598           76 -RQRHWYIQSTCATSGEGLYEGLDWLSN  102 (110)
Q Consensus        76 -~~~~~~~~~~Sa~~~~~i~~l~~~l~~  102 (110)
                       ..+.+++++|||++|+|++++|+||.+
T Consensus       138 ~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         138 EGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             CSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             cccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence             234578999999999999999999975

>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=99.68  E-value=1.1e-15  Score=88.06  Aligned_cols=103  Identities=26%  Similarity=0.643  Sum_probs=79.8

Q ss_pred             cchHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCc-------
Q 044598            2 RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHS-------   74 (110)
Q Consensus         2 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~-------   74 (110)
                      ...+..+++.++++++++|.++.........++..........+.|+++++||.|+.......++...+....       
T Consensus        71 ~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~~~~i~~~~~~~~~~~~~~~  150 (186)
T d1f6ba_          71 RRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGS  150 (186)
T ss_dssp             CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSC
T ss_pred             hhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCCHHHHHHHHhhcccchhhhh
Confidence            4567889999999999999998877776665555555554557899999999999987766666555443211       


Q ss_pred             -----ccCcceEEEeeecccCCCHHHHHHHHHHHH
Q 044598           75 -----LRQRHWYIQSTCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        75 -----~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  104 (110)
                           ...+++++++|||++|+|++++|+||.+++
T Consensus       151 ~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         151 VSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             CCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             hhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence                 123457899999999999999999999765

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.6e-15  Score=86.57  Aligned_cols=98  Identities=11%  Similarity=0.144  Sum_probs=70.8

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHh--cCCCCCCCeEEEEeeCCCCCCCC----CHHHHHhhhCCCcccCcc
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRML--NEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRQRH   79 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~--~~~~~~~~~~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~   79 (110)
                      ..|++++|++|+|+|.+++.+++....|...+.  ........|+++|+||.|+....    +.++......    ....
T Consensus        65 ~~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~----~~~~  140 (175)
T d2bmja1          65 AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCA----DMKR  140 (175)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHH----TSTT
T ss_pred             cccccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHH----HhCC
Confidence            468999999999999999999888776665543  22223568999999999974432    2333333211    1235


Q ss_pred             eEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           80 WYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        80 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                      .++++|||++|.|++++|..+.+.+...
T Consensus       141 ~~~~e~SAk~~~~v~~~F~~l~~~i~~~  168 (175)
T d2bmja1         141 CSYYETCATYGLNVDRVFQEVAQKVVTL  168 (175)
T ss_dssp             EEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CeEEEeCCCCCcCHHHHHHHHHHHHHHh
Confidence            6889999999999999999999877643

>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=99.52  E-value=4.4e-15  Score=85.58  Aligned_cols=93  Identities=14%  Similarity=0.050  Sum_probs=61.9

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEee
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (110)
                      ..++++||++++|+|++++...  ...++...+... ..++|+++|+||+|+.+..  ++.......   ......++++
T Consensus        79 ~~~~~~ad~il~v~D~~~~~~~--~~~~i~~~l~~~-~~~~piilv~NK~Dl~~~~--~~~~~~~~~---~~~~~~~~~i  150 (178)
T d1wf3a1          79 YEALADVNAVVWVVDLRHPPTP--EDELVARALKPL-VGKVPILLVGNKLDAAKYP--EEAMKAYHE---LLPEAEPRML  150 (178)
T ss_dssp             HHHTSSCSEEEEEEETTSCCCH--HHHHHHHHHGGG-TTTSCEEEEEECGGGCSSH--HHHHHHHHH---TSTTSEEEEC
T ss_pred             ccccccccceeeeechhhhhcc--cccchhhheecc-ccchhhhhhhcccccccCH--HHHHHHHHh---hcccCceEEE
Confidence            3467899999999999865332  233444444332 2468999999999986532  222221110   0112367789


Q ss_pred             ecccCCCHHHHHHHHHHHHHh
Q 044598           86 CATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ||++|.|+++++++|.+.+++
T Consensus       151 SA~~~~gi~~L~~~i~~~lpe  171 (178)
T d1wf3a1         151 SALDERQVAELKADLLALMPE  171 (178)
T ss_dssp             CTTCHHHHHHHHHHHHTTCCB
T ss_pred             ecCCCCCHHHHHHHHHHhCCC
Confidence            999999999999999987753

>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=99.47  E-value=3.7e-14  Score=82.67  Aligned_cols=91  Identities=12%  Similarity=0.039  Sum_probs=60.4

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHH----HhhhCCCcccCcceE
Q 044598            6 RHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEI----TDKLGLHSLRQRHWY   81 (110)
Q Consensus         6 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~----~~~~~~~~~~~~~~~   81 (110)
                      .+.+..++++++|+|++.+...  ....+...+..   .++|+++|+||+|+.+....++.    .+.+.    .....+
T Consensus       100 ~~~~~~~~~vi~viD~~~~~~~--~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~l~----~~~~~~  170 (195)
T d1svia_         100 ITTREELKAVVQIVDLRHAPSN--DDVQMYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLN----IDPEDE  170 (195)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCH--HHHHHHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHT----CCTTSE
T ss_pred             hccccchhhhhhhhhccccccc--ccccccccccc---ccCcceechhhccccCHHHHHHHHHHHHHHhc----ccCCCC
Confidence            3456678999999999754221  12222233332   46899999999998544332222    22222    134457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++.+||++|+|+++++++|.+.+.
T Consensus       171 ~~~~SA~~~~gi~el~~~i~~~l~  194 (195)
T d1svia_         171 LILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhC
Confidence            889999999999999999988774

>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=99.47  E-value=3.1e-14  Score=82.85  Aligned_cols=107  Identities=23%  Similarity=0.393  Sum_probs=75.9

Q ss_pred             CcchHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRD----------RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----------   60 (110)
                      ++..|..++++++++++++|.++..          .+.+...++..++......+.|+++++||+|+...          
T Consensus        58 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~  137 (200)
T d2bcjq2          58 ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDY  137 (200)
T ss_dssp             GGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHH
T ss_pred             ccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHh
Confidence            4679999999999999999987643          34455566666776655678999999999997211          


Q ss_pred             --------CCHHH----HHhh-hCCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           61 --------MNAAE----ITDK-LGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        61 --------~~~~~----~~~~-~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                              .....    +... ........+.+.++++||++|+|+.++|+.+.+.+.+.
T Consensus       138 ~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         138 FPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             STTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence                    01111    1111 12222234567888999999999999999998888653

>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=99.47  E-value=1.6e-14  Score=82.66  Aligned_cols=94  Identities=15%  Similarity=0.117  Sum_probs=60.8

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      +..++..||+++++.|+++......  ..+...+..   .++|+++|+||+|+.+....+...+....     ...++++
T Consensus        74 ~~~~~~~ad~i~~~~~~~~~~~~~~--~~~~~~l~~---~~~pviiv~NK~Dl~~~~~~~~~~~~~~~-----~~~~~i~  143 (171)
T d1mkya1          74 TLNMIREADLVLFVVDGKRGITKED--ESLADFLRK---STVDTILVANKAENLREFEREVKPELYSL-----GFGEPIP  143 (171)
T ss_dssp             HHHHHTTCSEEEEEEETTTCCCHHH--HHHHHHHHH---HTCCEEEEEESCCSHHHHHHHTHHHHGGG-----SSCSCEE
T ss_pred             cccccccCcEEEEeecccccccccc--ccccccccc---ccccccccchhhhhhhhhhhHHHHHHHhc-----CCCCeEE
Confidence            3456789999999999875433221  222233322   46899999999998533211111111111     1224578


Q ss_pred             eecccCCCHHHHHHHHHHHHHhhc
Q 044598           85 TCATSGEGLYEGLDWLSNNIANKV  108 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~~~  108 (110)
                      +||++|.|+++++++|.+.+.++.
T Consensus       144 iSAk~g~gid~L~~~i~~~l~e~~  167 (171)
T d1mkya1         144 VSAEHNINLDTMLETIIKKLEEKG  167 (171)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHTT
T ss_pred             EecCCCCCHHHHHHHHHHhCCCCC
Confidence            999999999999999999987654

>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=99.47  E-value=2.8e-13  Score=78.44  Aligned_cols=107  Identities=25%  Similarity=0.386  Sum_probs=74.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChhh----------HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC-----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRDR----------VVEARDELHRMLNEDELRDAVLLVFANKQDLPN-----------   59 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~-----------   59 (110)
                      ++++|..|+++++++++|+|.++..+          ..+....+..++........|+++++||+|+..           
T Consensus        55 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~  134 (195)
T d1svsa1          55 ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTIC  134 (195)
T ss_dssp             GGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGT
T ss_pred             cccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHH
Confidence            57899999999999999999887653          234445566666655556899999999999621           


Q ss_pred             ------CCCHHH----HHhhh-CC-CcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           60 ------AMNAAE----ITDKL-GL-HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        60 ------~~~~~~----~~~~~-~~-~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                            .....+    +...+ .. .....+++.+++|||++++||+++|+.+.+.+.++
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         135 YPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             CTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence                  001111    11111 11 11224567888999999999999999999888654

>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=99.44  E-value=1.2e-13  Score=79.59  Aligned_cols=97  Identities=14%  Similarity=0.145  Sum_probs=61.8

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH---HHHhhhCCCcccCcceE
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA---EITDKLGLHSLRQRHWY   81 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~   81 (110)
                      ....+..+|++++|+|+++..... ....+. .+..   .++|+++|+||+|+.+.....   +....+..........+
T Consensus        76 ~~~~l~~~d~~ilv~d~~~g~~~~-~~~~~~-~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (179)
T d1wb1a4          76 VVSAADIIDLALIVVDAKEGPKTQ-TGEHML-ILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSS  150 (179)
T ss_dssp             HHHHTTSCCEEEEEEETTTCSCHH-HHHHHH-HHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             hhhhhhhccccccccccccccchh-hhhhhh-hhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCe
Confidence            445678999999999998643222 122222 2222   478999999999986532111   11111100001123457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHHh
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++++||++|+|++++++.|.+.+.+
T Consensus       151 iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         151 IIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEEEEccCCcCHHHHHHHHHhcCCc
Confidence            8899999999999999999998875

>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=99.41  E-value=4.5e-14  Score=79.88  Aligned_cols=88  Identities=17%  Similarity=0.189  Sum_probs=60.4

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ...++.++|++++++|..+......... +...+.... .+.|+++|+||+|+.+....        +  ......++++
T Consensus        74 ~~~~~~~~d~~i~~~d~~~~~~~~~~~~-~~~~~~~~~-~~~~iilv~NK~Dl~~~~~~--------~--~~~~~~~~~~  141 (161)
T d2gj8a1          74 AWQEIEQADRVLFMVDGTTTDAVDPAEI-WPEFIARLP-AKLPITVVRNKADITGETLG--------M--SEVNGHALIR  141 (161)
T ss_dssp             HHHHHHTCSEEEEEEETTTCCCCSHHHH-CHHHHHHSC-TTCCEEEEEECHHHHCCCCE--------E--EEETTEEEEE
T ss_pred             HHHHHHhccccceeeccccccchhhhhh-hhhhhhhcc-cccceeeccchhhhhhhHHH--------H--HHhCCCcEEE
Confidence            3467889999999999987654433322 222222211 46899999999998543210        0  0123458899


Q ss_pred             eecccCCCHHHHHHHHHHHH
Q 044598           85 TCATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~  104 (110)
                      +||++|+|+++++++|.+.+
T Consensus       142 iSAk~~~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         142 LSARTGEGVDVLRNHLKQSM  161 (161)
T ss_dssp             CCTTTCTTHHHHHHHHHHHC
T ss_pred             EECCCCCCHHHHHHHHHhhC
Confidence            99999999999999998763

>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=99.38  E-value=7.4e-13  Score=76.16  Aligned_cols=93  Identities=23%  Similarity=0.236  Sum_probs=61.5

Q ss_pred             HhcccCCEEEEEEECCChh--hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEe
Q 044598            7 HYFQNTQGLIFVVDSNDRD--RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQS   84 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (110)
                      ..+..++++++++|.....  .......++....  ....++|+++|+||+|+......+++.+.+.     ....+++.
T Consensus        75 ~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~--~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~-----~~~~~~~~  147 (180)
T d1udxa2          75 RHIARTRVLLYVLDAADEPLKTLETLRKEVGAYD--PALLRRPSLVALNKVDLLEEEAVKALADALA-----REGLAVLP  147 (180)
T ss_dssp             HHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHC--HHHHHSCEEEEEECCTTSCHHHHHHHHHHHH-----TTTSCEEE
T ss_pred             HHHHhhhhhhhhcccccccccchhhhhhhhhccc--cccchhhhhhhhhhhhhhhHHHHHHHHHHHH-----hcCCeEEE
Confidence            4578899999999986532  2222222332221  1113589999999999865433333333322     23557889


Q ss_pred             eecccCCCHHHHHHHHHHHHHh
Q 044598           85 TCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        85 ~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +||++|+|++++++.|.+.+..
T Consensus       148 iSA~tg~gid~L~~~i~~~l~~  169 (180)
T d1udxa2         148 VSALTGAGLPALKEALHALVRS  169 (180)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEcCCCCCHHHHHHHHHHHHhh
Confidence            9999999999999999888754

>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=99.36  E-value=9.4e-13  Score=75.96  Aligned_cols=97  Identities=15%  Similarity=0.090  Sum_probs=61.3

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCCcccCcceEE
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRQRHWYI   82 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~   82 (110)
                      ...+++.+|++++|+|+...... . ...+...+..   .+.|+++|+||+|+.....  ..++...+..........++
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~-~-~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i  159 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITR-Q-DQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL  159 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCH-H-HHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHhcCCEEEEeecccccchh-h-HHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeE
Confidence            44567899999999999754221 1 1222222222   4689999999999854332  22222222110011123478


Q ss_pred             EeeecccCCCHHHHHHHHHHHHHh
Q 044598           83 QSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        83 ~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      +++||++|.|+++++++|.+.+..
T Consensus       160 ~~vSa~~g~gv~~L~~~i~~~~~~  183 (186)
T d1mkya2         160 IFTSADKGWNIDRMIDAMNLAYAS  183 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHh
Confidence            899999999999999999877654

>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=99.34  E-value=7.8e-12  Score=70.36  Aligned_cols=83  Identities=23%  Similarity=0.319  Sum_probs=61.2

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeeec
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCA   87 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   87 (110)
                      .+.++|++++|+|++++......  .+....     ...+++++.||.|+.+....+++...++.      ..+++++||
T Consensus        77 ~~~~ad~ii~v~d~~~~~~~~~~--~~~~~~-----~~~~~i~~~~k~d~~~~~~~~~~~~~~~~------~~~~~~vSA  143 (160)
T d1xzpa2          77 EIEKADIVLFVLDASSPLDEEDR--KILERI-----KNKRYLVVINKVDVVEKINEEEIKNKLGT------DRHMVKISA  143 (160)
T ss_dssp             HHHHCSEEEEEEETTSCCCHHHH--HHHHHH-----TTSSEEEEEEECSSCCCCCHHHHHHHHTC------STTEEEEEG
T ss_pred             HHHhCCEEEEEEeCCCCcchhhh--hhhhhc-----ccccceeeeeeccccchhhhHHHHHHhCC------CCcEEEEEC
Confidence            46789999999999876543322  122222     45789999999999887777666655432      235789999


Q ss_pred             ccCCCHHHHHHHHHHH
Q 044598           88 TSGEGLYEGLDWLSNN  103 (110)
Q Consensus        88 ~~~~~i~~l~~~l~~~  103 (110)
                      ++|+|+++++++|.+.
T Consensus       144 ~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         144 LKGEGLEKLEESIYRE  159 (160)
T ss_dssp             GGTCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHhc
Confidence            9999999999998764

>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=99.33  E-value=4.2e-12  Score=73.80  Aligned_cols=107  Identities=21%  Similarity=0.371  Sum_probs=71.5

Q ss_pred             CcchHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC----------
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDRD----------RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA----------   60 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~----------   60 (110)
                      ++..|..++++++++++++|.++..          .+.....++..++......+.|+++++||+|+.+.          
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~  136 (200)
T d1zcba2          57 ERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDY  136 (200)
T ss_dssp             ----CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGT
T ss_pred             ecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHh
Confidence            3578899999999999999988642          35566667777777666678999999999997310          


Q ss_pred             --------CCHHH----HHhhh-CC-CcccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           61 --------MNAAE----ITDKL-GL-HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        61 --------~~~~~----~~~~~-~~-~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                              ...+.    +...+ .. .....+++.++++||++++||+++|+.+.+.+.++
T Consensus       137 f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         137 FLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             CTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence                    01111    11111 11 11123456677899999999999999998877543

>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=99.33  E-value=3.3e-12  Score=73.38  Aligned_cols=99  Identities=17%  Similarity=0.189  Sum_probs=61.2

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHH---------HHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC--HHHHHhhhCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEA---------RDELHRMLNEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLH   73 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--~~~~~~~~~~~   73 (110)
                      ....++.+|++++|+|+.........         ...+...+..   .++|+++|+||+|+.+...  .......+...
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~  151 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQEVINFLAEKFEVP  151 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHHHHHHHHHHHHTCC
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHHHHHHHHHHHhccc
Confidence            34557789999999998754221110         0111222222   4789999999999754321  11122222221


Q ss_pred             cccCcceEEEeeecccCCCHHHHHHHHHHHHHhh
Q 044598           74 SLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  107 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  107 (110)
                       .......++++||++|.|+++++++|.+.++++
T Consensus       152 -~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         152 -LSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             -GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             -ccccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence             112233577899999999999999999988764

>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=99.30  E-value=6.3e-12  Score=74.56  Aligned_cols=106  Identities=26%  Similarity=0.378  Sum_probs=74.8

Q ss_pred             CcchHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC------CC--
Q 044598            1 IRPLWRHYFQNTQGLIFVVDSNDR----------DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA------MN--   62 (110)
Q Consensus         1 ~~~~~~~~~~~~~~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~------~~--   62 (110)
                      +|+.|..|+++++++++++|.++.          .++.+...++..++.+....+.|+++++||+|+.+.      ..  
T Consensus        60 ~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~  139 (221)
T d1azta2          60 ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIE  139 (221)
T ss_dssp             TTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHH
T ss_pred             eccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHH
Confidence            478899999999999999998753          245666677888887777778999999999997321      00  


Q ss_pred             ------------------------HHH----HHhhh----CCCcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           63 ------------------------AAE----ITDKL----GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        63 ------------------------~~~----~~~~~----~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                                              ...    +...+    .......+.+.++.+||.+++++..+|+.+.+.+..
T Consensus       140 ~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         140 DYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             HHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             HhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHH
Confidence                                    000    11111    111112345667899999999999999887766653

>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=99.24  E-value=1.7e-11  Score=72.99  Aligned_cols=95  Identities=22%  Similarity=0.164  Sum_probs=57.7

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH---HHHHh---------------
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA---AEITD---------------   68 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~---~~~~~---------------   68 (110)
                      ..+..||++|+|+|+.+.-... ....+..+. .   .++|+++|+||+|+......   ..+..               
T Consensus        89 ~~~~~~D~~ilVvda~~g~~~~-~~~~~~~~~-~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~  163 (227)
T d1g7sa4          89 RGGALADLAILIVDINEGFKPQ-TQEALNILR-M---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (227)
T ss_dssp             SSSBSCSEEEEEEETTTCCCHH-HHHHHHHHH-H---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hcccccceEEEEEecccCcccc-hhHHHHHhh-c---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHH
Confidence            3467899999999987532211 122222222 2   47899999999998543210   00000               


Q ss_pred             -------hh---CC-------CcccCcceEEEeeecccCCCHHHHHHHHHHHHHh
Q 044598           69 -------KL---GL-------HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        69 -------~~---~~-------~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                             .+   ..       ........+++++||.+|.|++++++.+.....+
T Consensus       164 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence                   00   00       0001223589999999999999999988876644

>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=99.21  E-value=1e-11  Score=72.83  Aligned_cols=94  Identities=16%  Similarity=0.093  Sum_probs=58.1

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH----HHhhhCCCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE----ITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~~   83 (110)
                      -+..||++|+|+|+.+.-.-.+....+.-.. .  ..-.|++++.||+|+.+......    +...+.  .......+++
T Consensus       106 ~~~~ad~ailvVda~~gi~~~~t~e~~~~~~-~--~~i~~iIV~vNK~Dl~~~~~~~~~~~~~~~~l~--~~~~~~~p~i  180 (205)
T d2qn6a3         106 GAALMDGAILVVAANEPFPQPQTREHFVALG-I--IGVKNLIIVQNKVDVVSKEEALSQYRQIKQFTK--GTWAENVPII  180 (205)
T ss_dssp             TSSCCSEEEEEEETTSCSSCHHHHHHHHHHH-H--TTCCCEEEEEECGGGSCHHHHHHHHHHHHHHHT--TSTTTTCCEE
T ss_pred             ceeccccccccccccccccchhHHHHHHHHH-H--cCCceeeeccccCCCccchHHHHHHHHHHHHhc--cccCCCCeEE
Confidence            3567999999999976311112222222111 1  12358899999999965321111    112211  1223456889


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      ++||++|.|++++++.+..+++.
T Consensus       181 piSA~~g~nI~~L~e~i~~~ip~  203 (205)
T d2qn6a3         181 PVSALHKINIDSLIEGIEEYIKT  203 (205)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             EEeCCCCCChHHHHHHHHhhCCC
Confidence            99999999999999999887653

>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=99.20  E-value=1.8e-10  Score=67.28  Aligned_cols=100  Identities=26%  Similarity=0.346  Sum_probs=62.3

Q ss_pred             chHHHhcccCCEEEEEEECCChhh-HHHHHHHHHHHhcCC--CCCCCeEEEEeeCCCCCCCCCHHHHHhhhC--------
Q 044598            3 PLWRHYFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNED--ELRDAVLLVFANKQDLPNAMNAAEITDKLG--------   71 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~--~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~--------   71 (110)
                      ..|..+++.++++++|+|+++..+ ..+...++..++...  ....+|+++|+||+|+.++.+.+++.+.+.        
T Consensus        63 ~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~~~~i~~~l~~e~~~~~~  142 (207)
T d2fh5b1          63 QLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRV  142 (207)
T ss_dssp             HHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCCHHHHHHHHHHHhhhhhh
Confidence            367889999999999999998654 344445555544321  124589999999999987655443322110        


Q ss_pred             ------------------CCc--------ccCcceEEEeeecccCCC------HHHHHHHHHH
Q 044598           72 ------------------LHS--------LRQRHWYIQSTCATSGEG------LYEGLDWLSN  102 (110)
Q Consensus        72 ------------------~~~--------~~~~~~~~~~~Sa~~~~~------i~~l~~~l~~  102 (110)
                                        +..        .......++++|++++.|      ++++.+|+.+
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~S~~~~~~~~~~~~i~~~~~wl~~  205 (207)
T d2fh5b1         143 TRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAK  205 (207)
T ss_dssp             HCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHH
T ss_pred             ccccccceeehhhhhhhhhcccchhhhHHhccCCcEEEEeeecCCCcccccccHHHHHHHHHH
Confidence                              000        011235788999999987      7788888765

>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=99.17  E-value=1.5e-11  Score=71.53  Aligned_cols=93  Identities=16%  Similarity=0.142  Sum_probs=57.4

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhCCCcccCcceEEE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~   83 (110)
                      -+..+|++++|+|+.+........+.+......   ..++++++.||+|+.+....    ..+.+.+.  .......+++
T Consensus        98 ~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~---~~~~iiv~inK~D~~d~~~~~~~~~~~~~~~~--~~~~~~~~iI  172 (195)
T d1kk1a3          98 GASLMDGAILVIAANEPCPRPQTREHLMALQII---GQKNIIIAQNKIELVDKEKALENYRQIKEFIE--GTVAENAPII  172 (195)
T ss_dssp             CGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHT--TSTTTTCCEE
T ss_pred             ccccccccccccchhhhhhhhhhHHHHHHHHHh---cCccceeeeecccchhhHHHHHHHHHHHHHhc--cccCCCCeEE
Confidence            356899999999988642112222222221111   23568889999998653211    11222221  1223456789


Q ss_pred             eeecccCCCHHHHHHHHHHHHH
Q 044598           84 STCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++||++|+|++++++.+.+.++
T Consensus       173 piSA~~G~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         173 PISALHGANIDVLVKAIEDFIP  194 (195)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSC
T ss_pred             EEECCCCCCHHHHHHHHHHHCc
Confidence            9999999999999999988764

>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=99.14  E-value=4.6e-11  Score=68.70  Aligned_cols=92  Identities=22%  Similarity=0.272  Sum_probs=58.4

Q ss_pred             cccCCEEEEEEECCChhh---HHHHHH-HHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCCcccCcceEEE
Q 044598            9 FQNTQGLIFVVDSNDRDR---VVEARD-ELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~---~~~~~~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~   83 (110)
                      +..++.++++++......   ...... ............++|+++|+||+|+.+.... +.+...+      ....+++
T Consensus        77 ~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~~~~~~~~~~------~~~~~v~  150 (185)
T d1lnza2          77 IERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKL------TDDYPVF  150 (185)
T ss_dssp             HHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHHHHHHHHHC------CSCCCBC
T ss_pred             HHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHHHHHHHHHHh------ccCCcEE
Confidence            567899999997654322   111111 1111222333457899999999998653211 2222222      2345788


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+||++|.|++++++++.+.+.+
T Consensus       151 ~iSA~~g~Gi~~L~~~i~~~L~~  173 (185)
T d1lnza2         151 PISAVTREGLRELLFEVANQLEN  173 (185)
T ss_dssp             CCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             EEECCCCCCHHHHHHHHHHhhhh
Confidence            99999999999999999998864

>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=99.01  E-value=1.5e-10  Score=70.59  Aligned_cols=91  Identities=12%  Similarity=0.087  Sum_probs=62.2

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEE
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQ   83 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (110)
                      ..+..++.+|++|+|+|+.+|.+..  ...+.+++     .++|.++|+||+|+.+....+.....+.     ......+
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~--~~~l~~~~-----~~Kp~IlVlNK~DLv~~~~~~~w~~~f~-----~~~~~~i   75 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSR--NPMIEDIL-----KNKPRIMLLNKADKADAAVTQQWKEHFE-----NQGIRSL   75 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTS--CHHHHHHC-----SSSCEEEEEECGGGSCHHHHHHHHHHHH-----TTTCCEE
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCC--CHHHHHHH-----cCCCeEEEEECccCCchHHHHHHHHHHH-----hcCCccc
Confidence            3455799999999999998764432  12344443     3689999999999975433333333332     2334567


Q ss_pred             eeecccCCCHHHHHHHHHHHHHh
Q 044598           84 STCATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        84 ~~Sa~~~~~i~~l~~~l~~~~~~  106 (110)
                      .+|+.++.+..++...+.+.+.+
T Consensus        76 ~isa~~~~~~~~~~~~~~~~l~~   98 (273)
T d1puja_          76 SINSVNGQGLNQIVPASKEILQE   98 (273)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             eeecccCCCccccchhhhhhhhh
Confidence            89999999998887777665543

>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=98.82  E-value=6.4e-09  Score=59.05  Aligned_cols=90  Identities=16%  Similarity=0.120  Sum_probs=55.9

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH-HHHHhhhCCCcccCcceEEEeee
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA-AEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      +...+++++++.|..+....  ...+...+. .   ...|.+++.||.|....... ....+...   ..-...+++++|
T Consensus        82 ~~~~~~~~l~~~d~~~~~~~--~~~~~~~l~-~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~---~~~~~~~~~~vS  152 (179)
T d1egaa1          82 SIGDVELVIFVVEGTRWTPD--DEMVLNKLR-E---GKAPVILAVNKVDNVQEKADLLPHLQFLA---SQMNFLDIVPIS  152 (179)
T ss_dssp             CCCCEEEEEEEEETTCCCHH--HHHHHHHHH-S---SSSCEEEEEESTTTCCCHHHHHHHHHHHH---TTSCCSEEEECC
T ss_pred             chhhcceeEEEEecCccchh--HHHHHHHhh-h---ccCceeeeeeeeeccchhhhhhhHhhhhh---hhcCCCCEEEEe
Confidence            34578888899997753222  122222222 2   35788999999997654211 11111111   011234788999


Q ss_pred             cccCCCHHHHHHHHHHHHHh
Q 044598           87 ATSGEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~~~  106 (110)
                      |++|+|++++++++.+.+++
T Consensus       153 A~~g~gi~~L~~~i~~~lpe  172 (179)
T d1egaa1         153 AETGLNVDTIAAIVRKHLPE  172 (179)
T ss_dssp             TTTTTTHHHHHHHHHTTCCB
T ss_pred             CcCCCCHHHHHHHHHHhCCC
Confidence            99999999999999988754

>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=98.78  E-value=1.9e-09  Score=62.75  Aligned_cols=95  Identities=21%  Similarity=0.186  Sum_probs=57.1

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCC-HH----HHHhhhCCCcccCcceE
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMN-AA----EITDKLGLHSLRQRHWY   81 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~   81 (110)
                      .-+..+|++++|+|+.+.. ..+..+.+..+...   ..+|++++.||+|+..... .+    ++...+..........+
T Consensus        85 ~~~~~aD~allVVda~~G~-~~QT~~~~~~a~~~---~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~p  160 (196)
T d1d2ea3          85 TGTAPLDGCILVVAANDGP-MPQTREHLLLARQI---GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETP  160 (196)
T ss_dssp             HTSSCCSEEEEEEETTTCS-CHHHHHHHHHHHHT---TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSC
T ss_pred             HHHhhcCeEEEEEEcCCCC-chhHHHHHHHHHHh---cCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCE
Confidence            3467899999999998632 12223333322221   3467899999999864321 11    12222211112234567


Q ss_pred             EEeeecccC----------CCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSG----------EGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~----------~~i~~l~~~l~~~~~  105 (110)
                      ++++||++|          .|+.++++.+.++++
T Consensus       161 ii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~iP  194 (196)
T d1d2ea3         161 IIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (196)
T ss_dssp             EEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             EEEEEccccccccCcccccCCHHHHHHHHHhhCC
Confidence            899999998          588888888876653

>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=98.70  E-value=7.7e-09  Score=61.12  Aligned_cols=87  Identities=20%  Similarity=0.186  Sum_probs=55.8

Q ss_pred             hcccCCEEEEEEECCChhh-HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHHhhhCCCcccCcceEEEeee
Q 044598            8 YFQNTQGLIFVVDSNDRDR-VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      -..+.|.+++|+.+.+|.. ..-++.++...    ...+.|.+||+||+|+.+....+.+.....   ......+++.+|
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a----~~~~i~pvIvlnK~DL~~~~~~~~~~~~~~---~~~~~~~v~~vS   79 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLA----EKNELETVMVINKMDLYDEDDLRKVRELEE---IYSGLYPIVKTS   79 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHH----HHTTCEEEEEECCGGGCCHHHHHHHHHHHH---HHTTTSCEEECC
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHH----HHcCCCEEEEEeCcccCCHHHHHHHHHhhc---ccccceeEEEec
Confidence            4678999999998776542 33333333222    225789999999999965322222222211   112235788999


Q ss_pred             cccCCCHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLS  101 (110)
Q Consensus        87 a~~~~~i~~l~~~l~  101 (110)
                      |+++.|++++..++.
T Consensus        80 a~~~~g~~~L~~~l~   94 (225)
T d1u0la2          80 AKTGMGIEELKEYLK   94 (225)
T ss_dssp             TTTCTTHHHHHHHHS
T ss_pred             cccchhHhhHHHHhc
Confidence            999999999988764

>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=98.67  E-value=1.3e-07  Score=55.85  Aligned_cols=82  Identities=15%  Similarity=0.040  Sum_probs=48.2

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCC-CeEEEEeeCCCCCCCCCH------HHHHhhhCCCcccCcce
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRD-AVLLVFANKQDLPNAMNA------AEITDKLGLHSLRQRHW   80 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~-~~~iiv~nK~Dl~~~~~~------~~~~~~~~~~~~~~~~~   80 (110)
                      -...+|++++|+|+.+... .+....+.-.. .   .+ +.++++.||+|+.+....      .++...+....+....+
T Consensus       109 g~~~aD~ailVvda~~G~~-~Qt~e~~~~~~-~---~gv~~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i  183 (222)
T d1zunb3         109 GASTCDLAIILVDARYGVQ-TQTRRHSYIAS-L---LGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTM  183 (222)
T ss_dssp             HHTTCSEEEEEEETTTCSC-HHHHHHHHHHH-H---TTCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEE
T ss_pred             ccccCceEEEEeccccCcc-cchHHHHHHHH-H---cCCCEEEEEEEccccccccceehhhhHHHHhhhhHhhccCCCce
Confidence            4568999999999976322 22222222111 1   34 458999999998754321      11111111111233567


Q ss_pred             EEEeeecccCCCHH
Q 044598           81 YIQSTCATSGEGLY   94 (110)
Q Consensus        81 ~~~~~Sa~~~~~i~   94 (110)
                      +++++||.+|.|+.
T Consensus       184 ~~IPiSA~~G~ni~  197 (222)
T d1zunb3         184 AFVPMSALKGDNVV  197 (222)
T ss_dssp             EEEECCTTTCTTTS
T ss_pred             EEEEEEcccCccCC
Confidence            88999999999884

>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=98.53  E-value=2e-07  Score=52.79  Aligned_cols=86  Identities=12%  Similarity=0.130  Sum_probs=50.5

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH----HHHhhhCCCcccCcceEEEeee
Q 044598           11 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA----EITDKLGLHSLRQRHWYIQSTC   86 (110)
Q Consensus        11 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~S   86 (110)
                      .+..++.+.+........ ...++.... .   ...+.+++.||+|+.+.....    .+.+.+.   ......+++.+|
T Consensus        98 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~---~~~~~~~~i~vS  169 (188)
T d1puia_          98 SLQGLVVLMDIRHPLKDL-DQQMIEWAV-D---SNIAVLVLLTKADKLASGARKAQLNMVREAVL---AFNGDVQVETFS  169 (188)
T ss_dssp             TEEEEEEEEETTSCCCHH-HHHHHHHHH-H---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHG---GGCSCEEEEECB
T ss_pred             heeEEEEeecccccchhH-HHHHHHHhh-h---ccccccchhhhhhccCHHHHHHHHHHHHHHHH---hhCCCCcEEEEe
Confidence            344556666665432222 122232222 1   467899999999986532211    1122221   112345788999


Q ss_pred             cccCCCHHHHHHHHHHHH
Q 044598           87 ATSGEGLYEGLDWLSNNI  104 (110)
Q Consensus        87 a~~~~~i~~l~~~l~~~~  104 (110)
                      |++|.|++++++.|.+.+
T Consensus       170 A~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         170 SLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             TTTTBSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999987754

>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=98.42  E-value=1e-08  Score=60.80  Aligned_cols=88  Identities=14%  Similarity=0.125  Sum_probs=55.8

Q ss_pred             hcccCCEEEEEEECCChh-hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHH-HHhhhCCCcccCcceEEEee
Q 044598            8 YFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE-ITDKLGLHSLRQRHWYIQST   85 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   85 (110)
                      -..+.|.+++|+.+.+|+ +..-++.++...    ...+.+.+||+||+|+.+....++ +.....  .+...+++++.+
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a----~~~~i~pvIvlnK~DL~~~~~~~~~~~~~~~--~y~~~g~~v~~~   80 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLV----EANDIQPIICITKMDLIEDQDTEDTIQAYAE--DYRNIGYDVYLT   80 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHH----HTTTCEEEEEEECGGGCCCHHHHHHHHHHHH--HHHHHTCCEEEC
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHH----HHcCCCEEEEEecccccccHHHHHHHHHHHH--HHhhccccceee
Confidence            457899999999987653 233333333222    225789999999999965432211 111110  122345688999


Q ss_pred             ecccCCCHHHHHHHHH
Q 044598           86 CATSGEGLYEGLDWLS  101 (110)
Q Consensus        86 Sa~~~~~i~~l~~~l~  101 (110)
                      ||+++.|++++..++.
T Consensus        81 Sa~~~~gl~~L~~~l~   96 (231)
T d1t9ha2          81 SSKDQDSLADIIPHFQ   96 (231)
T ss_dssp             CHHHHTTCTTTGGGGT
T ss_pred             ecCChhHHHHHHHhhc
Confidence            9999999988876553

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.32  E-value=3.5e-06  Score=51.07  Aligned_cols=51  Identities=20%  Similarity=0.159  Sum_probs=34.8

Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            4 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         4 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      -....++-+|++|+|+|+.+.-... ....|.... .   .+.|.++++||+|...
T Consensus        87 e~~~~l~~~D~avlVvda~~Gv~~~-T~~~w~~a~-~---~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          87 EVERSMRVLDGAIVVFDSSQGVEPQ-SETVWRQAE-K---YKVPRIAFANKMDKTG  137 (276)
T ss_dssp             THHHHHHHCCEEEEEEETTTSSCHH-HHHHHHHHH-T---TTCCEEEEEECTTSTT
T ss_pred             HHHHHHHhhhheEEeccccCCcchh-HHHHHHHHH-H---cCCCEEEEEecccccc
Confidence            3455678899999999998632222 223333332 2   5899999999999854

>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=98.29  E-value=1.3e-07  Score=55.86  Aligned_cols=90  Identities=13%  Similarity=-0.034  Sum_probs=50.3

Q ss_pred             cCCEEEEEEECCC---hhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHHHHH----------hhhC-CCc--
Q 044598           11 NTQGLIFVVDSND---RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEIT----------DKLG-LHS--   74 (110)
Q Consensus        11 ~~~~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~----------~~~~-~~~--   74 (110)
                      ..+.+++++|+..   +................   ...|.+++.||+|+..........          .... ...  
T Consensus       123 ~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~---~~~~~ivvinK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (244)
T d1yrba1         123 PYPLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDLLSEEEKERHRKYFEDIDYLTARLKLDPSMQ  199 (244)
T ss_dssp             SSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGGCCHHHHHHHHHHHHCHHHHHHHHHHCCSHH
T ss_pred             cCceEEEEeccccccCchhHhhHHHHHHHHHHH---hCCCceeeeeccccccHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            3567899999753   32222221111111111   257899999999986532111110          0000 000  


Q ss_pred             ------------ccCcceEEEeeecccCCCHHHHHHHHHHH
Q 044598           75 ------------LRQRHWYIQSTCATSGEGLYEGLDWLSNN  103 (110)
Q Consensus        75 ------------~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  103 (110)
                                  ......+++++||++|+|+++++..|.+.
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         200 GLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence                        00123578899999999999999998875

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.26  E-value=4.4e-07  Score=52.79  Aligned_cols=79  Identities=19%  Similarity=0.188  Sum_probs=42.8

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCe-EEEEeeCCCCCCCCC-H----HHHHhhhCCCcccCcce
Q 044598            7 HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQDLPNAMN-A----AEITDKLGLHSLRQRHW   80 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~   80 (110)
                      .-++.||++|+|+|+.+.-.. +....+.-+..    .+.| ++++.||+|+.+... .    .++...+....+.....
T Consensus        86 ~~~~~aD~avlVvda~~Gv~~-qt~~~~~~~~~----~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i  160 (204)
T d2c78a3          86 TGAAQMDGAILVVSAADGPMP-QTREHILLARQ----VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEV  160 (204)
T ss_dssp             HHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHH----TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTS
T ss_pred             HHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHH----cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccc
Confidence            446789999999999753222 22222322221    3555 777899999865321 1    12222221111223445


Q ss_pred             EEEeeecccC
Q 044598           81 YIQSTCATSG   90 (110)
Q Consensus        81 ~~~~~Sa~~~   90 (110)
                      +++++||..+
T Consensus       161 ~~i~~sa~~~  170 (204)
T d2c78a3         161 PVIRGSALLA  170 (204)
T ss_dssp             CEEECCHHHH
T ss_pred             eeeeeechhh
Confidence            6778887643

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.22  E-value=8.1e-07  Score=55.14  Aligned_cols=89  Identities=15%  Similarity=0.060  Sum_probs=50.7

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCH----HHHHhhhC--CCcccCcceE
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA----AEITDKLG--LHSLRQRHWY   81 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~----~~~~~~~~--~~~~~~~~~~   81 (110)
                      +...+|.+++|.++..-+.......-+.+         .+=++|+||+|.......    .+....+.  .........+
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e---------~aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~  234 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKKGLME---------VADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPR  234 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCHHHHH---------HCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCE
T ss_pred             hhhccceEEEEecCCCchhhhhhchhhhc---------cccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcce
Confidence            45678999999876532221111111111         234888999998653211    11122111  1111234458


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++.|||.+|+|++++.+.|.++..
T Consensus       235 V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         235 VLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             EEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             eEEEEeeCCCCHHHHHHHHHHHHH
Confidence            999999999999999999987654

>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=98.10  E-value=5.4e-06  Score=49.38  Aligned_cols=85  Identities=16%  Similarity=0.209  Sum_probs=47.4

Q ss_pred             hcccCCEEEEEEECCChhhHH-------HHHHHHHHHhcCCCCCCC-eEEEEeeCCCCCCCC-CH---HHHHhhhCC--C
Q 044598            8 YFQNTQGLIFVVDSNDRDRVV-------EARDELHRMLNEDELRDA-VLLVFANKQDLPNAM-NA---AEITDKLGL--H   73 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~-------~~~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~~-~~---~~~~~~~~~--~   73 (110)
                      -...+|++++|+|+.+.. ++       +....+.-.. .   .++ +++++.||+|+.... ..   +++...+..  .
T Consensus       122 g~~~aD~ailVVda~~G~-~~~~~~~~~QT~e~l~l~~-~---~~i~~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~  196 (245)
T d1r5ba3         122 GASQADIGVLVISARRGE-FEAGFERGGQTREHAVLAR-T---QGINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLR  196 (245)
T ss_dssp             -TTSCSEEEEEEECSTTH-HHHTTSTTCCHHHHHHHHH-H---TTCSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhcceeeEEEcCCCc-cCCccccccchHHHHHHHH-H---cCCCeEEEEEEcCCCCccchhHHHHHHHHHHHHHHHH
Confidence            356799999999997521 11       1222222111 1   234 488999999987543 22   122111110  0


Q ss_pred             c---c-cCcceEEEeeecccCCCHHHHH
Q 044598           74 S---L-RQRHWYIQSTCATSGEGLYEGL   97 (110)
Q Consensus        74 ~---~-~~~~~~~~~~Sa~~~~~i~~l~   97 (110)
                      .   . ....++++++||++|+|+.+++
T Consensus       197 ~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         197 RVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             HHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHhCcCcccCCEEEEeeccCCCCcccch
Confidence            0   0 1124689999999999997653

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=98.03  E-value=1.7e-05  Score=47.74  Aligned_cols=49  Identities=12%  Similarity=0.064  Sum_probs=32.6

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP   58 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~   58 (110)
                      ....++-+|++++|+|+.+.-.. +....+....+    .++|.+++.||+|..
T Consensus        84 ~~~al~~~D~avlvvda~~Gv~~-~t~~~~~~~~~----~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          84 IRGALEAADAALVAVSAEAGVQV-GTERAWTVAER----LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHCSEEEEEEETTTCSCH-HHHHHHHHHHH----TTCCEEEEEECGGGC
T ss_pred             hhhhhcccCceEEEeeccCCccc-hhHHHHHhhhh----ccccccccccccccc
Confidence            34457789999999999853222 22233333322    479999999999964

>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=98.01  E-value=7.9e-06  Score=47.93  Aligned_cols=86  Identities=15%  Similarity=0.179  Sum_probs=47.6

Q ss_pred             HhcccCCEEEEEEECCChhh------HHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCC-CHHH-------HHhhhCC
Q 044598            7 HYFQNTQGLIFVVDSNDRDR------VVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM-NAAE-------ITDKLGL   72 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~------~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~-------~~~~~~~   72 (110)
                      .-.+-||++|+|+|+.+-..      ..+..+.+.-...   ....+++++.||+|+.... ....       +...+..
T Consensus       100 ~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~---~~~~~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~  176 (224)
T d1jnya3         100 TGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKT---MGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRS  176 (224)
T ss_dssp             HTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHH---TTCTTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhceEEEEEecccCcccccccccchhHHHHHHHHH---hCCCceEEEEEcccCCCccccHHHHHHHHHHHHhHHHh
Confidence            34667999999999986310      1112222211111   1235688899999986532 2111       1111111


Q ss_pred             CcccCcceEEEeeecccCCCHHH
Q 044598           73 HSLRQRHWYIQSTCATSGEGLYE   95 (110)
Q Consensus        73 ~~~~~~~~~~~~~Sa~~~~~i~~   95 (110)
                      ........+++++||.+|.|+.+
T Consensus       177 ~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         177 YGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cCCCcccCeEEEEEccCCCCccc
Confidence            11223456888999999998753

>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=97.98  E-value=8.2e-06  Score=50.48  Aligned_cols=88  Identities=13%  Similarity=0.089  Sum_probs=51.6

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCCCCHH-----HHHhhhCCC--cccCcceE
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAA-----EITDKLGLH--SLRQRHWY   81 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~-----~~~~~~~~~--~~~~~~~~   81 (110)
                      ..-+|..++|..+...+.....+.         ......=++|.||+|+.+.....     +....+...  .......+
T Consensus       162 ~~~~D~~v~v~~p~~GD~iQ~~k~---------gilE~aDi~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~  232 (323)
T d2qm8a1         162 ADLTDFFLVLMLPGAGDELQGIKK---------GIFELADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPP  232 (323)
T ss_dssp             HTTSSEEEEEECSCC------CCT---------THHHHCSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCC
T ss_pred             hcccceEEEEeeccchhhhhhhhh---------hHhhhhheeeEeccccccchHHHHHHHHHHHHHhhcccccccCCCCc
Confidence            345889999998765322211110         11123459999999986553211     111222211  11224457


Q ss_pred             EEeeecccCCCHHHHHHHHHHHHH
Q 044598           82 IQSTCATSGEGLYEGLDWLSNNIA  105 (110)
Q Consensus        82 ~~~~Sa~~~~~i~~l~~~l~~~~~  105 (110)
                      ++.+||++|+|++++.+++.++..
T Consensus       233 V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         233 VVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             EEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCHHHHHHHHHHHHH
Confidence            999999999999999999987764

>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=97.96  E-value=3.7e-06  Score=49.97  Aligned_cols=83  Identities=11%  Similarity=0.082  Sum_probs=46.2

Q ss_pred             HhcccCCEEEEEEECCChhhH-------HHHHHHHHHHhcCCCCCCC-eEEEEeeCCCCCCCCCH--HH----HHhhhCC
Q 044598            7 HYFQNTQGLIFVVDSNDRDRV-------VEARDELHRMLNEDELRDA-VLLVFANKQDLPNAMNA--AE----ITDKLGL   72 (110)
Q Consensus         7 ~~~~~~~~~i~v~d~~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~~~~--~~----~~~~~~~   72 (110)
                      .-.+.+|++|+|+|+.+- .+       .+....+.-...    .++ +++++.||+|+.+....  ++    +...+..
T Consensus       103 ~g~~~~D~ailvvda~~G-~~e~g~~~~~QT~eh~~~~~~----~gv~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~  177 (239)
T d1f60a3         103 TGTSQADCAILIIAGGVG-EFEAGISKDGQTREHALLAFT----LGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKK  177 (239)
T ss_dssp             HSSSCCSEEEEEEECSHH-HHHHHTCTTSHHHHHHHHHHH----TTCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCEEEEEEECCCC-ccccccCchHhHHHHHHHHHH----cCCCeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHh
Confidence            346789999999999742 11       122222221111    344 57889999998654321  11    1111110


Q ss_pred             CcccCcceEEEeeecccCCCHH
Q 044598           73 HSLRQRHWYIQSTCATSGEGLY   94 (110)
Q Consensus        73 ~~~~~~~~~~~~~Sa~~~~~i~   94 (110)
                      .......++++++||.+|.|+.
T Consensus       178 ~~~~~~~i~~ipiSa~~G~ni~  199 (239)
T d1f60a3         178 VGYNPKTVPFVPISGWNGDNMI  199 (239)
T ss_dssp             HTCCGGGCCEEECCTTTCBTTT
T ss_pred             cCCCCCcEEEEEEEccCCCcce
Confidence            0112234678899999998864

>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=97.82  E-value=4.2e-05  Score=43.76  Aligned_cols=55  Identities=25%  Similarity=0.298  Sum_probs=35.3

Q ss_pred             hcccCCEEEEEEECCC-hhhHHHHHHHHHHHh---cCCCCCCCeEEEEeeCCCCCCCCC
Q 044598            8 YFQNTQGLIFVVDSND-RDRVVEARDELHRML---NEDELRDAVLLVFANKQDLPNAMN   62 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~-~~~~~~~~~~~~~~~---~~~~~~~~~~iiv~nK~Dl~~~~~   62 (110)
                      ....++.+++++|+.+ ..++.+...++...+   ......++|+++|+||+|+.+...
T Consensus        70 ~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~  128 (209)
T d1nrjb_          70 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  128 (209)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             HhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCc
Confidence            3556689999999764 334444444443322   222235799999999999976543

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.99  E-value=0.00068  Score=42.02  Aligned_cols=48  Identities=25%  Similarity=0.228  Sum_probs=32.7

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCC
Q 044598            5 WRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDL   57 (110)
Q Consensus         5 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl   57 (110)
                      ....++-+|++++|+|+.+.-... ....+.....    .+.|.+++.||+|.
T Consensus       113 v~~al~~~D~allVVda~eGv~~q-T~~~~~~a~~----~~~p~i~viNKiDr  160 (341)
T d1n0ua2         113 VTAALRVTDGALVVVDTIEGVCVQ-TETVLRQALG----ERIKPVVVINKVDR  160 (341)
T ss_dssp             HHHHHHTCSEEEEEEETTTBSCHH-HHHHHHHHHH----TTCEEEEEEECHHH
T ss_pred             HHHHHhhcCceEEEEecccCcchh-HHHHHHHHHH----cCCCeEEEEECccc
Confidence            344567899999999998632222 2233333332    47899999999996

>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=96.81  E-value=0.00074  Score=42.66  Aligned_cols=91  Identities=9%  Similarity=0.023  Sum_probs=49.5

Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCC---------CCCCHHH----HHhhh--CCC
Q 044598            9 FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP---------NAMNAAE----ITDKL--GLH   73 (110)
Q Consensus         9 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~---------~~~~~~~----~~~~~--~~~   73 (110)
                      +..+|++|++.|..-.    .....+...+..   .++|+++|.||+|..         ...+.+.    +.+.+  .+.
T Consensus       133 ~~~~d~~l~~~~~~~~----~~d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~  205 (400)
T d1tq4a_         133 FYEYDFFIIISATRFK----KNDIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFR  205 (400)
T ss_dssp             GGGCSEEEEEESSCCC----HHHHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             hhcceEEEEecCCCCC----HHHHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHH
Confidence            5678999888875421    112222223322   479999999999952         0111111    11110  000


Q ss_pred             cccCcceEEEeeeccc--CCCHHHHHHHHHHHHHh
Q 044598           74 SLRQRHWYIQSTCATS--GEGLYEGLDWLSNNIAN  106 (110)
Q Consensus        74 ~~~~~~~~~~~~Sa~~--~~~i~~l~~~l~~~~~~  106 (110)
                      .......+++.+|+.+  ..|+.++.+.+.+.++.
T Consensus       206 ~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         206 ENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             HTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             HcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            0011223567777654  45899999999888754

>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=93.22  E-value=0.05  Score=32.53  Aligned_cols=53  Identities=15%  Similarity=0.154  Sum_probs=31.6

Q ss_pred             chHHHhcccCCEEEEEE-ECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598            3 PLWRHYFQNTQGLIFVV-DSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~v~-d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      .++..|+.+++.+++++ ++...........+...+ .   ....++++|.||+|...
T Consensus       159 ~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~-~---~~~~r~i~Vitk~D~~~  212 (306)
T d1jwyb_         159 RMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV-D---PEGKRTIGVITKLDLMD  212 (306)
T ss_dssp             HHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH-C---SSCSSEEEEEECTTSSC
T ss_pred             HHHHHHHhCCCceeEEeecccccccccHHHHHHHHh-C---cCCCeEEEEEecccccc
Confidence            46788999999876665 443321111222233332 1   13468999999999854

>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=92.93  E-value=0.14  Score=29.31  Aligned_cols=43  Identities=16%  Similarity=0.247  Sum_probs=25.9

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598           12 TQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus        12 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .+.++.|+|+............+...++..+      +++.||+|+.+.
T Consensus       122 l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~AD------~ivlNK~Dl~~~  164 (222)
T d1nija1         122 LDGVIALVDAVHADEQMNQFTIAQSQVGYAD------RILLTKTDVAGE  164 (222)
T ss_dssp             EEEEEEEEETTTHHHHHHHCHHHHHHHHTCS------EEEEECTTTCSC
T ss_pred             ccchhhhhhhhhhhhhhhhhHHHHHHHHhCC------cccccccccccH
Confidence            5788999999865433222222333333322      788999998653

>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=92.81  E-value=0.079  Score=31.47  Aligned_cols=54  Identities=15%  Similarity=0.161  Sum_probs=31.8

Q ss_pred             chHHHhcccCCEEEE-EEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCCC
Q 044598            3 PLWRHYFQNTQGLIF-VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA   60 (110)
Q Consensus         3 ~~~~~~~~~~~~~i~-v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~   60 (110)
                      .++..|+...+.+++ |.++...........+...+ ..   ...++++|.||+|....
T Consensus       153 ~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~-~~---~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         153 DMLMQFVTKENCLILAVSPANSDLANSDALKIAKEV-DP---QGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHH-CT---TCSSEEEEEECGGGSCT
T ss_pred             HHHHHHhcCccceeeeecccccchhhhHHHHHHHHh-Cc---CCCceeeEEeccccccc
Confidence            456778888886554 55555432322323333332 11   34689999999998653

>d1s2da_ c.23.14.1 (A:) Purine transdeoxyribosylase {Lactobacillus helveticus [TaxId: 1587]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N-(deoxy)ribosyltransferase-like
family: N-deoxyribosyltransferase
domain: Purine transdeoxyribosylase
species: Lactobacillus helveticus [TaxId: 1587]

Probab=85.62  E-value=1.4  Score=23.85  Aligned_cols=41  Identities=12%  Similarity=0.074  Sum_probs=25.7

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeC
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANK   54 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK   54 (110)
                      .+++||++|.++|...+++-.....-+...      .++|++++..-
T Consensus        78 ~i~~sD~vIA~ldg~~~D~GTa~EiG~A~a------~gKPvi~~~~d  118 (167)
T d1s2da_          78 GISNATCGVFLYDMDQLDDGSAFEIGFMRA------MHKPVILVPFT  118 (167)
T ss_dssp             HHHHCSEEEEEEESSSCCHHHHHHHHHHHH------TTCCEEEEEEC
T ss_pred             HHHHCCEEEEEeCCCCCCccHHHHHHHHHH------CCCeEEEEecC
Confidence            456899999999987654433332222221      47899888643

>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=83.74  E-value=0.64  Score=26.98  Aligned_cols=48  Identities=6%  Similarity=-0.005  Sum_probs=27.8

Q ss_pred             ccCCEEEEEEECCChh---hHHHHHHHHHHHhcCCCCCCCeEEEEeeCCCCCC
Q 044598           10 QNTQGLIFVVDSNDRD---RVVEARDELHRMLNEDELRDAVLLVFANKQDLPN   59 (110)
Q Consensus        10 ~~~~~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~   59 (110)
                      ...++++||++.+...   .-......+.......  -..++++|+||+|...
T Consensus       111 ~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~--~~~~~ivv~t~~D~~~  161 (257)
T d1h65a_         111 KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKG--IWNKAIVALTHAQFSP  161 (257)
T ss_dssp             CEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGG--GGGGEEEEEECCSCCC
T ss_pred             CCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchh--hhhCEEEEEECcccCC
Confidence            3568899998876431   1112223333333221  2357999999999854

>d1f8ya_ c.23.14.1 (A:) Nucleoside 2-deoxyribosyltransferase {Lactobacillus leichmannii [TaxId: 28039]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N-(deoxy)ribosyltransferase-like
family: N-deoxyribosyltransferase
domain: Nucleoside 2-deoxyribosyltransferase
species: Lactobacillus leichmannii [TaxId: 28039]

Probab=83.31  E-value=1  Score=24.19  Aligned_cols=43  Identities=14%  Similarity=0.146  Sum_probs=26.8

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHhcCCCCCCCeEEEEeeCCC
Q 044598            8 YFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQD   56 (110)
Q Consensus         8 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~D   56 (110)
                      .+++||++|.++|...+++.....  +.-...    .++|++++.+...
T Consensus        74 ~i~~aD~via~ldg~~~D~Gta~E--iG~A~a----~gKpvi~~~~~~~  116 (156)
T d1f8ya_          74 GIKTNDIMLGVYIPDEEDVGLGME--LGYALS----QGKYVLLVIPDED  116 (156)
T ss_dssp             HHHTSSEEEEECCGGGCCHHHHHH--HHHHHH----TTCEEEEEECGGG
T ss_pred             HHHHCCEEEEEeCCCCCCCCHHHH--HHHHHH----cCCcEEEEecCCc
Confidence            467899999999975443332222  211111    5799999987643