Citrus Sinensis ID: 032001

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------15
Protein Sequence
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCGGT
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHcccccEEEEcccHHHHHHHHHHHHHHHHcccccEEEEEEEccccccccccccHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEHHHHHHHHHHHHHccccEEEEEEEcccccHHHHHHHHHHHHHHccHcHEEEEEcccccccHHHccccHHHHHHHHHHHcccEEEEccccHHHHHHHHHHHHHHHHcHHcccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mcylrclcfigvyppyLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVgnkadmdeskravptskgqaLADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRladtdsrsepstikinqpdqaggvgqaaqksaccggt
Flexible Loop (DISEMBL)
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGnkadmdeskravptskgqalADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLadtdsrsepstikinqpdqaggvgQAAQKSACCGGT
Low Complexity Region (SEG)
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCGGT
Disordered region (IsUnstruct)
*CYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLV********************LADEYGIKFFETSAKTNLNVEQVFFSIARDIK***************************************
Disordered Region (DISOPRED)
*CYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARD**********************************SACCG**
Disordered Region (DISEMBL)
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKAD**************ALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR**********STIKINQP*******************
Disordered Region (DISPRO)
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLA***********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCGGT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	149	2.2.26 [Sep-21-2011]
P28186	216	Ras-related protein RABE1	yes	no	0.758	0.523	0.876	3e-55
O24466	216	Ras-related protein RABE1	yes	no	0.758	0.523	0.849	2e-53
Q39433	215	Ras-related protein RAB1B	N/A	no	0.744	0.516	0.815	1e-47
Q9LZD4	216	Ras-related protein RABE1	no	no	0.744	0.513	0.758	2e-45
Q9SF91	218	Ras-related protein RABE1	no	no	0.751	0.513	0.725	4e-43
P20790	208	Ras-related protein Rab-8	yes	no	0.711	0.509	0.553	7e-28
P20791	203	Ras-related protein Rab-8	no	no	0.677	0.497	0.535	1e-27
P36861	217	GTP-binding protein yptV2	N/A	no	0.530	0.364	0.607	1e-25
P24409	200	Ras-related protein Rab-1	yes	no	0.697	0.52	0.437	1e-21
Q5R5U1	200	Ras-related protein Rab-1	yes	no	0.697	0.52	0.437	1e-21

>sp|P28186|RAE1C_ARATH Ras-related protein RABE1c OS=Arabidopsis thaliana GN=RABE1C PE=1 SV=1

 Score =  213 bits (543), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 99/113 (87%), Positives = 108/113 (95%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPT+KGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTAKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSI RDIKQRL+DTDSR+EP+TIKI+Q DQA G GQA QKSACCG
Sbjct: 163 NLNVEEVFFSIGRDIKQRLSDTDSRAEPATIKISQTDQAAGAGQATQKSACCG 215

Involved in membrane trafficking from the Golgi to the plasma membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|O24466|RAE1A_ARATH Ras-related protein RABE1a OS=Arabidopsis thaliana GN=RABE1A PE=1 SV=1

 Score =  207 bits (526), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 96/113 (84%), Positives = 105/113 (92%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASD+VNK+LVGNKADMDESKRAVP SKGQALADEYG+KFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDSVNKILVGNKADMDESKRAVPKSKGQALADEYGMKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIA+DIKQRLADTD+R+EP TIKINQ DQ  G  QA QKSACCG
Sbjct: 163 NLNVEEVFFSIAKDIKQRLADTDARAEPQTIKINQSDQGAGTSQATQKSACCG 215

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39433|RB1BV_BETVU Ras-related protein RAB1BV OS=Beta vulgaris GN=RAB1BV PE=2 SV=1

 Score =  187 bits (476), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 93/114 (81%), Positives = 102/114 (89%), Gaps = 3/114 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPT+KGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTAKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPS-TIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLAD+D+R E   +I I   DQ+G   QAA KSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADSDTRQEAQPSITIKPADQSG--NQAAAKSACCG 214

Beta vulgaris (taxid: 161934)

>sp|Q9LZD4|RAE1D_ARATH Ras-related protein RABE1d OS=Arabidopsis thaliana GN=RABE1D PE=1 SV=1

 Score =  180 bits (457), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/112 (75%), Positives = 98/112 (87%), Gaps = 1/112 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNW++NIEQHASDNVNK+LVGNKADMDESKRAVPT+KGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWMKNIEQHASDNVNKILVGNKADMDESKRAVPTAKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           NLNVE VF SIA+DIKQRL +TD+++EP  IKI + D A      A+KSACC
Sbjct: 163 NLNVENVFMSIAKDIKQRLTETDTKAEPQGIKITKQDTAAS-SSTAEKSACC 213

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SF91|RAE1E_ARATH Ras-related protein RABE1e OS=Arabidopsis thaliana GN=RABE1E PE=1 SV=1

 Score =  173 bits (438), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 82/113 (72%), Positives = 96/113 (84%), Gaps = 1/113 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNW++NIEQHASD+VNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWMKNIEQHASDSVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPD-QAGGVGQAAQKSACC 146
           N NVEQVF SIA+DIKQRL ++D+++EP  IKI + D          +KSACC
Sbjct: 163 NQNVEQVFLSIAKDIKQRLTESDTKAEPQGIKITKQDANKASSSSTNEKSACC 215

Involved in membrane trafficking from the Golgi to the plasma membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|P20790|RAB8A_DICDI Ras-related protein Rab-8A OS=Dictyostelium discoideum GN=rab8A PE=3 SV=1

 Score =  122 bits (307), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 62/112 (55%), Positives = 83/112 (74%), Gaps = 6/112 (5%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IRNWIRNIEQHA+D+VNK+L+GNK DM E K+ V +S+G++LADEYGIKF ETSAK 
Sbjct: 103 FGNIRNWIRNIEQHATDSVNKMLIGNKCDMAE-KKVVDSSRGKSLADEYGIKFLETSAKN 161

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           ++NVE+ F S+A+DIK+R+ DT +  +P  +   QP    G     +K ACC
Sbjct: 162 SINVEEAFISLAKDIKKRMIDTPNE-QPQVV---QPGTNLGANN-NKKKACC 208

Protein transport. Probably involved in vesicular traffic.

Dictyostelium discoideum (taxid: 44689)

>sp|P20791|RAB8B_DICDI Ras-related protein Rab-8B OS=Dictyostelium discoideum GN=rab8B PE=2 SV=1

 Score =  121 bits (304), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/112 (53%), Positives = 78/112 (69%), Gaps = 11/112 (9%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  IRNWIRNIEQHASD+VNK+L+GNK DM E K+ V +S+G++LADEYGIKF ETSAK 
Sbjct: 103 FGSIRNWIRNIEQHASDSVNKMLIGNKCDMTE-KKVVDSSRGKSLADEYGIKFLETSAKN 161

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           ++NVE+ F  +A+DIK+R+ DT           N PD    +    +K+ CC
Sbjct: 162 SVNVEEAFIGLAKDIKKRMIDTP----------NDPDHTICITPNNKKNTCC 203

Protein transport. Probably involved in vesicular traffic.

Dictyostelium discoideum (taxid: 44689)

>sp|P36861|YPTV2_VOLCA GTP-binding protein yptV2 OS=Volvox carteri GN=YPTV2 PE=3 SV=1

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 48/79 (60%), Positives = 67/79 (84%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+++RNW+RNIEQHASDNVNK+LVGNK D+ E KR V  ++GQALADE+G +F+ETSAK 
Sbjct: 101 FNNVRNWMRNIEQHASDNVNKILVGNKLDLAEDKRVVSIARGQALADEFGFRFYETSAKD 160

Query: 95  NLNVEQVFFSIARDIKQRL 113
           N++VE+ F ++A+D+  R+
Sbjct: 161 NVHVEEAFIAVAKDVLARM 179

Protein transport. Probably involved in vesicular traffic.

Volvox carteri (taxid: 3067)

>sp|P24409|RAB10_CANFA Ras-related protein Rab-10 OS=Canis familiaris GN=RAB10 PE=1 SV=1

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/112 (43%), Positives = 73/112 (65%), Gaps = 8/112 (7%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I  W+RNI++HA+++V ++L+GNK DMD+ KR VP  KG+ +A E+GI+FFETSAK 
Sbjct: 97  FENISKWLRNIDEHANEDVERMLLGNKCDMDD-KRVVPKGKGEQIAREHGIRFFETSAKV 155

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           N+N+E+ F ++A DI ++    +  SE         D + G G    KS CC
Sbjct: 156 NINIEKAFLTLAEDILRKTPVKEPNSE-------NVDISSGGGVTGWKSKCC 200

May be involved in vesicular trafficking and neurotransmitter release.

Canis familiaris (taxid: 9615)

>sp|Q5R5U1|RAB10_PONAB Ras-related protein Rab-10 OS=Pongo abelii GN=RAB10 PE=2 SV=1

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/112 (43%), Positives = 73/112 (65%), Gaps = 8/112 (7%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I  W+RNI++HA+++V ++L+GNK DMD+ KR VP  KG+ +A E+GI+FFETSAK 
Sbjct: 97  FENISKWLRNIDEHANEDVERMLLGNKCDMDD-KRVVPKGKGEQIAREHGIRFFETSAKA 155

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           N+N+E+ F ++A DI ++    +  SE         D + G G    KS CC
Sbjct: 156 NINIEKAFLTLAEDILRKTPVKEPNSE-------NVDISSGGGVTGWKSKCC 200

May be involved in vesicular trafficking and neurotransmitter release.

Pongo abelii (taxid: 9601)

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	149
225435058	216	PREDICTED: ras-related protein RABE1c [V	0.758	0.523	0.911	9e-56
147783308	216	hypothetical protein VITISV_022421 [Viti	0.758	0.523	0.911	1e-55
302595187	216	Rab1 [Hevea brasiliensis]	0.758	0.523	0.911	2e-55
255587494	216	protein with unknown function [Ricinus c	0.758	0.523	0.911	1e-54
363807324	214	uncharacterized protein LOC100775804 [Gl	0.751	0.523	0.920	1e-54
385888878	216	RabE1 [Nicotiana benthamiana]	0.758	0.523	0.902	2e-54
359806847	214	uncharacterized protein LOC100779203 [Gl	0.751	0.523	0.911	3e-54
359806992	216	uncharacterized protein LOC100816795 [Gl	0.758	0.523	0.902	3e-54
449460967	216	PREDICTED: ras-related protein RABE1c-li	0.758	0.523	0.902	5e-54
327505559	216	Rab3 [Hevea brasiliensis]	0.758	0.523	0.893	6e-54

>gi|225435058|ref|XP_002284365.1| PREDICTED: ras-related protein RABE1c [Vitis vinifera] gi|297746128|emb|CBI16184.3| unnamed protein product [Vitis vinifera]

 Score =  221 bits (562), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 103/113 (91%), Positives = 110/113 (97%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTDSR+EP+ I+INQPDQA GVGQ AQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDSRAEPTAIRINQPDQASGVGQTAQKSACCG 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147783308|emb|CAN64127.1| hypothetical protein VITISV_022421 [Vitis vinifera]

 Score =  220 bits (561), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 103/113 (91%), Positives = 110/113 (97%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTDSR+EP+ I+INQPDQA GVGQ AQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDSRAEPTAIRINQPDQAXGVGQTAQKSACCG 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302595187|gb|ADL59582.1| Rab1 [Hevea brasiliensis]

 Score =  219 bits (559), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 103/113 (91%), Positives = 110/113 (97%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALAD+YGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADKYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTDS++EP TIKINQPDQAGG  QAAQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDSKAEPQTIKINQPDQAGGANQAAQKSACCG 215

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587494|ref|XP_002534292.1| protein with unknown function [Ricinus communis] gi|223525564|gb|EEF28091.1| protein with unknown function [Ricinus communis]

 Score =  217 bits (553), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 103/113 (91%), Positives = 108/113 (95%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTDSR+EP TIKINQPDQAG   QAA KSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDSRAEPQTIKINQPDQAGSASQAAPKSACCG 215

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807324|ref|NP_001242369.1| uncharacterized protein LOC100775804 [Glycine max] gi|255647140|gb|ACU24038.1| unknown [Glycine max]

 Score =  217 bits (552), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 104/113 (92%), Positives = 111/113 (98%), Gaps = 1/113 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTDS++EPSTIKINQ DQ+GG GQAAQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDSKAEPSTIKINQ-DQSGGAGQAAQKSACCG 214

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|385888878|gb|AFI98561.1| RabE1 [Nicotiana benthamiana]

 Score =  216 bits (550), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 102/113 (90%), Positives = 108/113 (95%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVEQVFFSIARDIKQRLADTDS++EPST+KINQPD   G  QAAQKSACCG
Sbjct: 163 NLNVEQVFFSIARDIKQRLADTDSKAEPSTLKINQPDAGAGGSQAAQKSACCG 215

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806847|ref|NP_001241313.1| uncharacterized protein LOC100779203 [Glycine max] gi|255641310|gb|ACU20932.1| unknown [Glycine max]

 Score =  216 bits (549), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/113 (91%), Positives = 111/113 (98%), Gaps = 1/113 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIKQRLADTD+++EPSTIKINQ DQ+GG GQAAQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKQRLADTDTKAEPSTIKINQ-DQSGGAGQAAQKSACCG 214

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806992|ref|NP_001241076.1| uncharacterized protein LOC100816795 [Glycine max] gi|255638007|gb|ACU19319.1| unknown [Glycine max]

 Score =  216 bits (549), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 102/113 (90%), Positives = 108/113 (95%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           N+NVE+VFFSIARDIKQRLADTDSR+EP TIKINQPDQA   GQ AQKSACCG
Sbjct: 163 NMNVEEVFFSIARDIKQRLADTDSRAEPQTIKINQPDQATSGGQPAQKSACCG 215

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460967|ref|XP_004148215.1| PREDICTED: ras-related protein RABE1c-like [Cucumis sativus] gi|449528087|ref|XP_004171038.1| PREDICTED: ras-related protein RABE1c-like [Cucumis sativus]

 Score =  215 bits (547), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 102/113 (90%), Positives = 107/113 (94%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSI RDIKQRLADTDS++EPSTIKINQ DQ    GQAAQKSACCG
Sbjct: 163 NLNVEEVFFSIGRDIKQRLADTDSKAEPSTIKINQQDQGANAGQAAQKSACCG 215

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|327505559|gb|AEA92307.1| Rab3 [Hevea brasiliensis]

 Score =  215 bits (547), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 101/113 (89%), Positives = 109/113 (96%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct: 103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
           NLNVE+VFFSIARDIK+RLA+TDS++EP TIKINQPDQA   GQAAQKSACCG
Sbjct: 163 NLNVEEVFFSIARDIKKRLAETDSKAEPQTIKINQPDQAASGGQAAQKSACCG 215

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

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	149
TAIR|locus:2168103	216	AT5G59840 [Arabidopsis thalian	0.758	0.523	0.884	2.2e-50
TAIR|locus:2075251	216	RABE1c [Arabidopsis thaliana (	0.758	0.523	0.876	2.8e-50
TAIR|locus:2084056	216	RAB8 "RAB GTPase homolog 8" [A	0.758	0.523	0.849	1.4e-48
TAIR|locus:2142684	216	RAB8C "RAB GTPase homolog 8C"	0.744	0.513	0.758	5.2e-42
TAIR|locus:2085089	218	RABE1e "RAB GTPase homolog E1E	0.751	0.513	0.725	5.3e-40
DICTYBASE|DDB_G0280043	208	rab8A "Rab GTPase" [Dictyostel	0.711	0.509	0.553	1e-27
DICTYBASE|DDB_G0276399	203	rab8B "Rab GTPase" [Dictyostel	0.677	0.497	0.544	2.5e-26
ASPGD|ASPL0000069804	206	srgA [Emericella nidulans (tax	0.724	0.524	0.469	1.3e-22
UNIPROTKB|A6QLS9	200	RAB10 "RAB10 protein" [Bos tau	0.697	0.52	0.455	1.1e-21
UNIPROTKB|F2Z4P9	200	RAB10 "Ras-related protein Rab	0.697	0.52	0.455	1.1e-21

TAIR|locus:2168103 AT5G59840 [Arabidopsis thaliana (taxid:3702)]

 Score = 524 (189.5 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 100/113 (88%), Positives = 108/113 (95%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVP SKGQALADEYGIKFFETSAKT
Sbjct:   103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPKSKGQALADEYGIKFFETSAKT 162

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
             NLNVE+VFFSIA+DIKQRLADTDSR+EP+TIKI+Q DQA G GQA QKSACCG
Sbjct:   163 NLNVEEVFFSIAKDIKQRLADTDSRAEPATIKISQTDQAAGAGQATQKSACCG 215

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2075251 RABE1c [Arabidopsis thaliana (taxid:3702)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 99/113 (87%), Positives = 108/113 (95%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F++IRNWIRNIEQHASDNVNK+LVGNKADMDESKRAVPT+KGQALADEYGIKFFETSAKT
Sbjct:   103 FNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTAKGQALADEYGIKFFETSAKT 162

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
             NLNVE+VFFSI RDIKQRL+DTDSR+EP+TIKI+Q DQA G GQA QKSACCG
Sbjct:   163 NLNVEEVFFSIGRDIKQRLSDTDSRAEPATIKISQTDQAAGAGQATQKSACCG 215

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0009873 "ethylene mediated signaling pathway" evidence=IEP

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006007 "glucose catabolic process" evidence=RCA

GO:0042732 "D-xylose metabolic process" evidence=RCA

TAIR|locus:2084056 RAB8 "RAB GTPase homolog 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 507 (183.5 bits), Expect = 1.4e-48, P = 1.4e-48
 Identities = 96/113 (84%), Positives = 105/113 (92%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F++IRNWIRNIEQHASD+VNK+LVGNKADMDESKRAVP SKGQALADEYG+KFFETSAKT
Sbjct:   103 FNNIRNWIRNIEQHASDSVNKILVGNKADMDESKRAVPKSKGQALADEYGMKFFETSAKT 162

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCG 147
             NLNVE+VFFSIA+DIKQRLADTD+R+EP TIKINQ DQ  G  QA QKSACCG
Sbjct:   163 NLNVEEVFFSIAKDIKQRLADTDARAEPQTIKINQSDQGAGTSQATQKSACCG 215

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2142684 RAB8C "RAB GTPase homolog 8C" [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 85/112 (75%), Positives = 98/112 (87%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F++IRNW++NIEQHASDNVNK+LVGNKADMDESKRAVPT+KGQALADEYGIKFFETSAKT
Sbjct:   103 FNNIRNWMKNIEQHASDNVNKILVGNKADMDESKRAVPTAKGQALADEYGIKFFETSAKT 162

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             NLNVE VF SIA+DIKQRL +TD+++EP  IKI + D A      A+KSACC
Sbjct:   163 NLNVENVFMSIAKDIKQRLTETDTKAEPQGIKITKQDTAAS-SSTAEKSACC 213

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2085089 RABE1e "RAB GTPase homolog E1E" [Arabidopsis thaliana (taxid:3702)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 82/113 (72%), Positives = 96/113 (84%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F++IRNW++NIEQHASD+VNK+LVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT
Sbjct:   103 FNNIRNWMKNIEQHASDSVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 162

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPD-QAGGVGQAAQKSACC 146
             N NVEQVF SIA+DIKQRL ++D+++EP  IKI + D          +KSACC
Sbjct:   163 NQNVEQVFLSIAKDIKQRLTESDTKAEPQGIKITKQDANKASSSSTNEKSACC 215

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

DICTYBASE|DDB_G0280043 rab8A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 310 (114.2 bits), Expect = 1.0e-27, P = 1.0e-27
 Identities = 62/112 (55%), Positives = 83/112 (74%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F +IRNWIRNIEQHA+D+VNK+L+GNK DM E K+ V +S+G++LADEYGIKF ETSAK 
Sbjct:   103 FGNIRNWIRNIEQHATDSVNKMLIGNKCDMAE-KKVVDSSRGKSLADEYGIKFLETSAKN 161

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             ++NVE+ F S+A+DIK+R+ DT +  +P  +   QP    G     +K ACC
Sbjct:   162 SINVEEAFISLAKDIKKRMIDTPNE-QPQVV---QPGTNLGANNN-KKKACC 208

GO:0033298 "contractile vacuole organization" evidence=IGI

GO:0032794 "GTPase activating protein binding" evidence=IPI

GO:0000331 "contractile vacuole" evidence=IDA

GO:0050708 "regulation of protein secretion" evidence=IMP

GO:0031157 "regulation of aggregate size involved in sorocarp development" evidence=IMP

GO:0030036 "actin cytoskeleton organization" evidence=IMP

GO:0016339 "calcium-dependent cell-cell adhesion" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

DICTYBASE|DDB_G0276399 rab8B "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 61/112 (54%), Positives = 79/112 (70%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F  IRNWIRNIEQHASD+VNK+L+GNK DM E K+ V +S+G++LADEYGIKF ETSAK 
Sbjct:   103 FGSIRNWIRNIEQHASDSVNKMLIGNKCDMTE-KKVVDSSRGKSLADEYGIKFLETSAKN 161

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             ++NVE+ F  +A+DIK+R+ DT     P     N PD    +    +K+ CC
Sbjct:   162 SVNVEEAFIGLAKDIKKRMIDT-----P-----NDPDHTICITPNNKKNTCC 203

GO:0031157 "regulation of aggregate size involved in sorocarp development" evidence=IMP

GO:0016339 "calcium-dependent cell-cell adhesion" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ASPGD|ASPL0000069804 srgA [Emericella nidulans (taxid:162425)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 53/113 (46%), Positives = 76/113 (67%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F +IR W  N+EQHAS+ V+K+L+GNK D +E KRAV T +GQ LADE GI F E SAK 
Sbjct:    98 FQNIRTWFSNVEQHASEGVHKILIGNKCDWEE-KRAVTTEQGQQLADELGIPFLEVSAKN 156

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGV-GQAAQKSACC 146
             N+N+E+ F+++A DIK+ + D+    +  +  ++  +QA G+ G A  K  CC
Sbjct:   157 NINIEKAFYNLASDIKKGM-DSSKPEQTGSQGVSIDNQASGLSGNAGGK--CC 206

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006906 "vesicle fusion" evidence=IEA

GO:0006887 "exocytosis" evidence=IEA

GO:0006893 "Golgi to plasma membrane transport" evidence=IEA

UNIPROTKB|A6QLS9 RAB10 "RAB10 protein" [Bos taurus (taxid:9913)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 51/112 (45%), Positives = 76/112 (67%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F +I  W+RNI++HA+++V ++L+GNK DMD+ KR VP  KG+ +A E+GI+FFETSAK 
Sbjct:    97 FENISKWLRNIDEHANEDVERMLLGNKCDMDD-KRVVPKGKGEQIAREHGIRFFETSAKA 155

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             N+N+E+ F ++A DI   L  T  + EP++  +   D + G G    KS CC
Sbjct:   156 NINIEKAFLTLAEDI---LRKTPVK-EPNSENV---DISSGGGVTGWKSKCC 200

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

GO:0072372 "primary cilium" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

GO:0032869 "cellular response to insulin stimulus" evidence=IEA

GO:0032593 "insulin-responsive compartment" evidence=IEA

GO:0031489 "myosin V binding" evidence=IEA

GO:0016197 "endosomal transport" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|F2Z4P9 RAB10 "Ras-related protein Rab-10" [Canis lupus familiaris (taxid:9615)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 51/112 (45%), Positives = 76/112 (67%)

Query:    35 FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             F +I  W+RNI++HA+++V ++L+GNK DMD+ KR VP  KG+ +A E+GI+FFETSAK 
Sbjct:    97 FENISKWLRNIDEHANEDVERMLLGNKCDMDD-KRVVPKGKGEQIAREHGIRFFETSAKA 155

Query:    95 NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             N+N+E+ F ++A DI   L  T  + EP++  +   D + G G    KS CC
Sbjct:   156 NINIEKAFLTLAEDI---LRKTPVK-EPNSENV---DISSGGGVTGWKSKCC 200

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" 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)
P28186	RAE1C_ARATH	No assigned EC number	0.8761	0.7583	0.5231	yes	no
O24466	RAE1A_ARATH	No assigned EC number	0.8495	0.7583	0.5231	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	149
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-42
pfam00071	162	pfam00071, Ras, Ras family	2e-34
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	9e-33
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	5e-28
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	8e-28
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-22
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	4e-22
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	6e-21
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	7e-21
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	8e-21
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	7e-20
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-19
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	2e-19
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	4e-19
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	8e-19
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	4e-18
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	6e-17
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	8e-17
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-16
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-16
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	5e-16
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-16
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	8e-16
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-15
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-15
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-15
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	9e-15
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	1e-14
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	1e-14
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-14
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-13
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-13
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-12
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-12
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-12
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	2e-12
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	4e-12
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	5e-12
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-11
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	4e-11
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	4e-11
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	6e-11
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-10
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	4e-10
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	5e-10
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	8e-10
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	5e-09
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	6e-09
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	8e-09
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	2e-08
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-08
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	8e-08
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	2e-06
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	4e-06
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-06
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	6e-06
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	7e-06
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	7e-06
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-05
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	2e-05
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	6e-05
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	1e-04
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-04
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	4e-04
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	5e-04
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	5e-04
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	6e-04
PRK12297	424	PRK12297, obgE, GTPase CgtA; Reviewed	8e-04
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	0.001
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	0.002

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

 Score =  138 bits (349), Expect = 2e-42
 Identities = 45/78 (57%), Positives = 64/78 (82%), Gaps = 1/78 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I+NW+RNI++HAS++V ++LVGNK DM+E KR V   +G+ALA EYGIKF ETSAK 
Sbjct: 91  FENIKNWMRNIDEHASEDVERMLVGNKCDMEE-KRVVSKEEGEALAREYGIKFLETSAKA 149

Query: 95  NLNVEQVFFSIARDIKQR 112
           N+NVE+ F ++A+DI ++
Sbjct: 150 NINVEEAFLTLAKDILKK 167

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

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

 Score =  117 bits (296), Expect = 2e-34
 Identities = 39/77 (50%), Positives = 54/77 (70%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ W+  I +HA +NV  VLVGNK D+ E +R V T +G+ALA E G+ F ETSAKT
Sbjct: 87  FENVKKWLEEILRHADENVPIVLVGNKCDL-EDQRVVSTEEGEALAKELGLPFMETSAKT 145

Query: 95  NLNVEQVFFSIARDIKQ 111
           N NVE+ F  +AR+I +
Sbjct: 146 NENVEEAFEELAREILK 162

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

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

 Score =  113 bits (285), Expect = 9e-33
 Identities = 37/78 (47%), Positives = 57/78 (73%), Gaps = 1/78 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F ++ NW++ + ++AS NV  +LVGNK+D+ E +R V   + +A A+E+G+ FFETSAKT
Sbjct: 88  FENLENWLKELREYASPNVVIMLVGNKSDL-EEQRQVSREEAEAFAEEHGLPFFETSAKT 146

Query: 95  NLNVEQVFFSIARDIKQR 112
           N NVE+ F  +AR+I +R
Sbjct: 147 NTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  100 bits (253), Expect = 5e-28
 Identities = 32/73 (43%), Positives = 49/73 (67%), Gaps = 1/73 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F ++  W+  ++++A  N+  +LVGNK+D+ E +R V T + Q  A E G+ FFETSAKT
Sbjct: 88  FENLDKWLNELKEYAPPNIPIILVGNKSDL-EDERQVSTEEAQQFAKENGLLFFETSAKT 146

Query: 95  NLNVEQVFFSIAR 107
             NV++ F S+AR
Sbjct: 147 GENVDEAFESLAR 159

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

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

 Score =  100 bits (252), Expect = 8e-28
 Identities = 37/78 (47%), Positives = 58/78 (74%), Gaps = 1/78 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+   K+ V  ++ +  ADE GI F ETSAK 
Sbjct: 90  FNNVKQWLQEIDRYASENVNKLLVGNKCDLT-DKKVVDYTEAKEFADELGIPFLETSAKN 148

Query: 95  NLNVEQVFFSIARDIKQR 112
             NVE+ F ++AR+IK+R
Sbjct: 149 ATNVEEAFMTMAREIKKR 166

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

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

 Score = 86.1 bits (214), Expect = 3e-22
 Identities = 34/75 (45%), Positives = 48/75 (64%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F   ++W++ +++H   N+   L GNKAD+ ESKR V T + Q  ADE G+ F ETSAKT
Sbjct: 89  FEKAKSWVKELQEHGPPNIVIALAGNKADL-ESKRQVSTEEAQEYADENGLLFMETSAKT 147

Query: 95  NLNVEQVFFSIARDI 109
             NV ++F  IAR +
Sbjct: 148 GENVNELFTEIARKL 162

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

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

 Score = 85.7 bits (213), Expect = 4e-22
 Identities = 33/76 (43%), Positives = 51/76 (67%), Gaps = 2/76 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F +I+N    I      ++V  VLVGNK D++   R V T +G+ALA+E+G  F ETSAK
Sbjct: 86  FEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE-RQVSTEEGEALAEEWGCPFLETSAK 144

Query: 94  TNLNVEQVFFSIARDI 109
           TN+N++++F ++ R+I
Sbjct: 145 TNINIDELFNTLVREI 160

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

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

 Score = 83.0 bits (206), Expect = 6e-21
 Identities = 29/63 (46%), Positives = 45/63 (71%), Gaps = 1/63 (1%)

Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
            D+V  VLVGNK D+ ES+R V T +G+ LA ++G  F ETSAK  +NV++ F+ + R+I
Sbjct: 103 RDDVPIVLVGNKCDL-ESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREI 161

Query: 110 KQR 112
           +++
Sbjct: 162 RKK 164

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

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

 Score = 82.6 bits (205), Expect = 7e-21
 Identities = 28/63 (44%), Positives = 44/63 (69%), Gaps = 1/63 (1%)

Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
            D+V  VLVGNK D+ E++R V T +G+ LA ++G  F ETSAK  +NV++ F+ + R+I
Sbjct: 105 RDDVPIVLVGNKCDL-ENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREI 163

Query: 110 KQR 112
           ++ 
Sbjct: 164 RKS 166

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

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

 Score = 83.8 bits (207), Expect = 8e-21
 Identities = 41/118 (34%), Positives = 64/118 (54%), Gaps = 7/118 (5%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ + +W+ +  QHA+ N+  +L+GNK D+   +RAV T +G+  A E+G+ F E SAKT
Sbjct: 94  FNHLASWLEDARQHANANMTIMLIGNKCDLAH-RRAVSTEEGEQFAKEHGLIFMEASAKT 152

Query: 95  NLNVEQVFFSIARDIKQRLADT--DSRSEPSTIKIN----QPDQAGGVGQAAQKSACC 146
             NVE+ F   A  I +++ D   D  +E   IK+          G  G ++Q   CC
Sbjct: 153 AQNVEEAFIKTAAKIYKKIQDGVFDVSNESYGIKVGYGAIPGASGGRDGTSSQGGGCC 210

Length = 210

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

 Score = 80.7 bits (199), Expect = 7e-20
 Identities = 45/112 (40%), Positives = 63/112 (56%), Gaps = 9/112 (8%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IR W+  I ++A  +V  +L+GNKADM   +R V    G+ LA EYG+ F ETSAKT
Sbjct: 89  FDNIRAWLTEILEYAQSDVVIMLLGNKADM-SGERVVKREDGERLAKEYGVPFMETSAKT 147

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
            LNVE  F ++A+++K R     S  +P   K    D    V +  + S CC
Sbjct: 148 GLNVELAFTAVAKELKHR-----SVEQPDEPKFKIQDY---VEKQKKSSGCC 191

Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 191

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

 Score = 79.6 bits (197), Expect = 1e-19
 Identities = 29/75 (38%), Positives = 48/75 (64%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++ WI+ ++Q   +N++ V+VGNK D+ E +R V  S+ +  A   G K FETSAKT
Sbjct: 88  FQKVKKWIKELKQMRGNNISLVIVGNKIDL-ERQRVVSKSEAEEYAKSVGAKHFETSAKT 146

Query: 95  NLNVEQVFFSIARDI 109
              +E++F S+A+ +
Sbjct: 147 GKGIEELFLSLAKRM 161

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

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

 Score = 79.4 bits (196), Expect = 2e-19
 Identities = 32/75 (42%), Positives = 52/75 (69%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ + +W+ +  QH++ N+  +L+GNK D+ ES+R V   +G+A A E+G+ F ETSAKT
Sbjct: 92  FNHLTSWLEDARQHSNSNMTIMLIGNKCDL-ESRREVSYEEGEAFAREHGLIFMETSAKT 150

Query: 95  NLNVEQVFFSIARDI 109
             NVE+ F + A++I
Sbjct: 151 ASNVEEAFINTAKEI 165

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

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

 Score = 78.4 bits (194), Expect = 4e-19
 Identities = 29/75 (38%), Positives = 46/75 (61%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G+ F ETSA  
Sbjct: 91  FENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTEEAKAFAEKNGLSFIETSALD 149

Query: 95  NLNVEQVFFSIARDI 109
             NVE+ F  +  +I
Sbjct: 150 GTNVEEAFKQLLTEI 164

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 77.6 bits (191), Expect = 8e-19
 Identities = 32/68 (47%), Positives = 47/68 (69%), Gaps = 1/68 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK DM E +R V   +G+ LAD+ G +FFE SAK 
Sbjct: 89  FNAVQDWSTQIKTYSWDNAQVILVGNKCDM-EDERVVSAERGRQLADQLGFEFFEASAKE 147

Query: 95  NLNVEQVF 102
           N+NV+QVF
Sbjct: 148 NINVKQVF 155

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 75.5 bits (186), Expect = 4e-18
 Identities = 38/87 (43%), Positives = 53/87 (60%), Gaps = 4/87 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I S   F DI  +   I++   SD+V  VLVGNK D+  + R V T +GQ LA  Y
Sbjct: 78  CVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDL--AARTVSTRQGQDLAKSY 135

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIK 110
           GI + ETSAKT   VE+ F+++ R+I+
Sbjct: 136 GIPYIETSAKTRQGVEEAFYTLVREIR 162

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

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

 Score = 72.3 bits (178), Expect = 6e-17
 Identities = 34/90 (37%), Positives = 47/90 (52%), Gaps = 8/90 (8%)

Query: 18  AVLCRFKYCTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG 76
           AV+       Y I +   F +   WI ++     ++V  VLVGNK D+ + KR V T +G
Sbjct: 76  AVVV------YDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSD-KRQVSTEEG 128

Query: 77  QALADEYGIKFFETSAKTNLNVEQVFFSIA 106
           +  A E    F ETSAK   NV+Q+F  IA
Sbjct: 129 EKKAKENNAMFIETSAKAGHNVKQLFKKIA 158

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

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

 Score = 73.0 bits (179), Expect = 8e-17
 Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 5/104 (4%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ W++ IEQ+  D+V KVLVGNK D D  ++ V T      A + GI  FETSAK 
Sbjct: 94  FVNVKRWLQEIEQNC-DDVCKVLVGNKND-DPERKVVETEDAYKFAGQMGISLFETSAKE 151

Query: 95  NLNVEQVFFSIAR---DIKQRLADTDSRSEPSTIKINQPDQAGG 135
           N+NVE++F  I       K+       + + + +     +    
Sbjct: 152 NINVEEMFNCITELVLRAKKDNLAKQQQQQQNDVVKLPKNSKRK 195

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

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

 Score = 71.3 bits (175), Expect = 2e-16
 Identities = 29/63 (46%), Positives = 44/63 (69%), Gaps = 1/63 (1%)

Query: 49  ASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARD 108
             DNV  +LVGNK D+++ KR V   +   LA+++G+ + ETSAKT  NV++VFF + R+
Sbjct: 102 EDDNVPLLLVGNKCDLED-KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVRE 160

Query: 109 IKQ 111
           I+Q
Sbjct: 161 IRQ 163

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

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

 Score = 71.2 bits (174), Expect = 2e-16
 Identities = 34/83 (40%), Positives = 53/83 (63%), Gaps = 2/83 (2%)

Query: 25  YCTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           +  Y I+S   +  I  W+ +++++A + V K+L+GNKAD +E KR V   +G  LA EY
Sbjct: 77  FLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKAD-EEQKRQVGDEQGNKLAKEY 135

Query: 84  GIKFFETSAKTNLNVEQVFFSIA 106
           G+ FFETSA TN N+++ F  + 
Sbjct: 136 GMDFFETSACTNKNIKESFTRLT 158

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 70.0 bits (172), Expect = 5e-16
 Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 3/76 (3%)

Query: 35  FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++  W+  ++ ++ + +  K+LVGNK  +D+  R V   +GQ  A ++ + F ETSAK
Sbjct: 88  FDNLDTWLNELDTYSTNPDAVKMLVGNK--IDKENREVTREEGQKFARKHNMLFIETSAK 145

Query: 94  TNLNVEQVFFSIARDI 109
           T + V+Q F  +   I
Sbjct: 146 TRIGVQQAFEELVEKI 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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 70.7 bits (173), Expect = 6e-16
 Identities = 40/98 (40%), Positives = 59/98 (60%), Gaps = 4/98 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C Y I S   F +I ++   I +    D V  +LVGNK D+D S+R V T +GQ LA  +
Sbjct: 82  CVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD-SERQVSTGEGQELAKSF 140

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSE 121
           GI F ETSAK  +NV++ F+ + R+I++ L + D  S+
Sbjct: 141 GIPFLETSAKQRVNVDEAFYELVREIRKYLKE-DMPSQ 177

Length = 189

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

 Score = 70.7 bits (173), Expect = 8e-16
 Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 5/116 (4%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ W+R +  HA  N+  ++ GNK+D++   R+V    GQALA++ G+ F ETSA  
Sbjct: 100 FDNVQRWLRELRDHADSNIVIMMAGNKSDLNHL-RSVAEEDGQALAEKEGLSFLETSALE 158

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVG----QAAQKSACC 146
             NVE+ F +I  +I   ++     ++ +      P Q   +         K  CC
Sbjct: 159 ATNVEKAFQTILLEIYHIISKKALAAQEAAANSGLPGQGTTINVADTSGNNKRGCC 214

Length = 216

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

 Score = 69.9 bits (171), Expect = 1e-15
 Identities = 31/95 (32%), Positives = 51/95 (53%), Gaps = 1/95 (1%)

Query: 38  IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLN 97
            R  I+ ++  ++ +V  ++VGNK D     R V T +G ALA   G +F E SAKTN+N
Sbjct: 92  FREQIQRVKDESAADVPIMIVGNKCDKVYE-REVSTEEGAALARRLGCEFIEASAKTNVN 150

Query: 98  VEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQ 132
           VE+ F+++ R ++Q+           T K  +  +
Sbjct: 151 VERAFYTLVRALRQQRQGGQGPKGGPTKKKEKKKR 185

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 190

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

 Score = 69.2 bits (169), Expect = 1e-15
 Identities = 28/72 (38%), Positives = 45/72 (62%), Gaps = 1/72 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  +  W+R IEQ+A++ V  +LVGNK D+ E +R V   + +  +D   + + ETSAK 
Sbjct: 95  FRCLPEWLREIEQYANNKVITILVGNKIDLAE-RREVSQQRAEEFSDAQDMYYLETSAKE 153

Query: 95  NLNVEQVFFSIA 106
           + NVE++F  +A
Sbjct: 154 SDNVEKLFLDLA 165

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

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

 Score = 69.5 bits (170), Expect = 1e-15
 Identities = 31/67 (46%), Positives = 46/67 (68%), Gaps = 2/67 (2%)

Query: 35  FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW+  ++ HA  +N + VL+GNKAD+   +R V   + + LAD+YGI +FETSA 
Sbjct: 102 FLNVRNWMSQLQAHAYCENPDIVLIGNKADL-PDQREVSERQARELADKYGIPYFETSAA 160

Query: 94  TNLNVEQ 100
           T  NVE+
Sbjct: 161 TGQNVEK 167

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

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

 Score = 66.8 bits (163), Expect = 9e-15
 Identities = 29/73 (39%), Positives = 46/73 (63%), Gaps = 3/73 (4%)

Query: 37  DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNL 96
           D+R  I  ++   +++V  +LVGNK D+ E +R V   +GQ LA ++G  F ETSAK  +
Sbjct: 93  DLREQILRVKD--TEDVPMILVGNKCDL-EDERVVGKEQGQNLARQWGCAFLETSAKAKI 149

Query: 97  NVEQVFFSIARDI 109
           NV ++F+ + R I
Sbjct: 150 NVNEIFYDLVRQI 162

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

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

 Score = 66.9 bits (164), Expect = 1e-14
 Identities = 32/83 (38%), Positives = 45/83 (54%), Gaps = 6/83 (7%)

Query: 35  FSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFE 89
           F  + +W       AS    +N   V++GNK D++E KR V T K Q      G I +FE
Sbjct: 88  FESLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEE-KRQVSTKKAQQWCKSKGNIPYFE 146

Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           TSAK  +NV+Q F +IAR   ++
Sbjct: 147 TSAKEAINVDQAFETIARLALEQ 169

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

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

 Score = 66.4 bits (162), Expect = 1e-14
 Identities = 32/84 (38%), Positives = 50/84 (59%), Gaps = 3/84 (3%)

Query: 28  YKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
           Y + +   F DI+     I +    + V  +LVGNK D+ ES+R V +++G+ALA+E+G 
Sbjct: 80  YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDL-ESEREVSSAEGRALAEEWGC 138

Query: 86  KFFETSAKTNLNVEQVFFSIARDI 109
            F ETSAK+   V ++F  I R +
Sbjct: 139 PFMETSAKSKTMVNELFAEIVRQM 162

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

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

 Score = 65.5 bits (160), Expect = 3e-14
 Identities = 29/76 (38%), Positives = 47/76 (61%), Gaps = 2/76 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF-FETSAK 93
           F  + +WI  +E++ + NV  +L+GNK D++E +R V   +   LA+ YGI    ETSAK
Sbjct: 91  FESVPHWIEEVEKYGASNVVLLLIGNKCDLEE-QREVLFEEACTLAEHYGILAVLETSAK 149

Query: 94  TNLNVEQVFFSIARDI 109
            + NVE+ F  +A ++
Sbjct: 150 ESSNVEEAFLLMATEL 165

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 63.8 bits (156), Expect = 2e-13
 Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 3/84 (3%)

Query: 28  YKIASYHFSDIRNWIRN--IEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
           Y + S    ++   I +  ++    ++V  VLVGNK+D+   +R V   +G+ LA+ +G 
Sbjct: 80  YSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH-MERQVSAEEGKKLAESWGA 138

Query: 86  KFFETSAKTNLNVEQVFFSIARDI 109
            F E+SAK N NVE+ F  +  +I
Sbjct: 139 AFLESSAKENENVEEAFELLIEEI 162

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

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

 Score = 63.3 bits (154), Expect = 2e-13
 Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + +W+ +     + N    L+GNKAD++   R V   + +  ADE G+ F E SAKT
Sbjct: 90  YNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ-RDVTYEEAKQFADENGLLFLECSAKT 148

Query: 95  NLNVEQVFFSIARDIKQ 111
             NVE  F   A+ I Q
Sbjct: 149 GENVEDAFLETAKKIYQ 165

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

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

 Score = 62.0 bits (150), Expect = 2e-12
 Identities = 31/90 (34%), Positives = 55/90 (61%), Gaps = 2/90 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAK 93
           F D+  W++ I+++AS++   +LVGNK D  E+ R +   +G+  A +  G++F E SAK
Sbjct: 88  FDDLPKWMKMIDKYASEDAELLLVGNKLDC-ETDREITRQQGEKFAQQITGMRFCEASAK 146

Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSEPS 123
            N NV+++F  +  DI +++     R+E S
Sbjct: 147 DNFNVDEIFLKLVDDILKKMPLDILRNELS 176

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

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

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 32/83 (38%), Positives = 45/83 (54%), Gaps = 2/83 (2%)

Query: 28  YKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK 86
           Y I S   F+ + NW+ +    AS ++  +LVGNK D+++  R V   +    A E G+ 
Sbjct: 80  YDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLED-DREVTFLEASRFAQENGLL 138

Query: 87  FFETSAKTNLNVEQVFFSIARDI 109
           F ETSA T  NVE+ F   AR I
Sbjct: 139 FLETSALTGENVEEAFLKCARSI 161

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

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

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 36/93 (38%), Positives = 53/93 (56%), Gaps = 7/93 (7%)

Query: 23  FKYCTYKIASYHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81
           F Y    +AS+H   + +WI   EQH+  + V ++LVGNK D+ E  + VPT   Q  AD
Sbjct: 81  FVYDVTNMASFH--SLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQ-VPTDLAQRFAD 137

Query: 82  EYGIKFFETSAK---TNLNVEQVFFSIARDIKQ 111
            + +  FETSAK    N +VE +F ++A  +K 
Sbjct: 138 AHSMPLFETSAKDPSENDHVEAIFMTLAHKLKS 170

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

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

 Score = 60.7 bits (147), Expect = 2e-12
 Identities = 29/74 (39%), Positives = 48/74 (64%), Gaps = 4/74 (5%)

Query: 37  DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTN 95
           D+R  I  ++   +++V  +LVGNK D+ E +R V   +GQ LA ++G   F ETSAK+ 
Sbjct: 93  DLREQILRVKD--TEDVPMILVGNKCDL-EDERVVSKEEGQNLARQWGNCPFLETSAKSK 149

Query: 96  LNVEQVFFSIARDI 109
           +NV+++F+ + R I
Sbjct: 150 INVDEIFYDLVRQI 163

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

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

 Score = 60.8 bits (147), Expect = 4e-12
 Identities = 41/116 (35%), Positives = 60/116 (51%), Gaps = 11/116 (9%)

Query: 34  HFSDIRNWIRNIEQHASD-NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
           + SD+  W + +E ++++ +  K+LVGNK D  ES+R V   +G ALA E+G  F E SA
Sbjct: 103 NLSDV--WGKEVELYSTNQDCVKMLVGNKVDR-ESERDVSREEGMALAKEHGCLFLECSA 159

Query: 93  KTNLNVEQVFFSIARDIKQ--RLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           KT  NVEQ F  +A  I +   L +  S +    I   +P+      Q      CC
Sbjct: 160 KTRENVEQCFEELALKIMEVPSLLEEGSTAVKRNILKQKPEH-----QPPPNGGCC 210

Length = 211

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

 Score = 59.8 bits (145), Expect = 5e-12
 Identities = 29/61 (47%), Positives = 40/61 (65%), Gaps = 2/61 (3%)

Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD 108
           SDNV  VLVGNKAD+ E  R V    G +L+ ++G + F+ETSA+   NV++VF  + R 
Sbjct: 104 SDNVPMVLVGNKADL-EDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQ 162

Query: 109 I 109
           I
Sbjct: 163 I 163

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 168

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

 Score = 57.8 bits (140), Expect = 2e-11
 Identities = 25/55 (45%), Positives = 36/55 (65%), Gaps = 1/55 (1%)

Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
           +LVGNKAD+ E +R V   +GQ LA +  I + ETSAK  +NV++ F  + R I+
Sbjct: 111 ILVGNKADL-EHQRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLVRVIR 164

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 57.3 bits (139), Expect = 4e-11
 Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 4/80 (5%)

Query: 35  FSDIRNWIRNIEQHASD--NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
           F  +   ++ I +       +  +LVGNKAD+  S R V T +GQ LA E G  FFE SA
Sbjct: 88  FDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHS-RQVSTEEGQKLALELGCLFFEVSA 146

Query: 93  KTN-LNVEQVFFSIARDIKQ 111
             N L V+ VF  + R++++
Sbjct: 147 AENYLEVQNVFHELCREVRR 166

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

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

 Score = 57.8 bits (140), Expect = 4e-11
 Identities = 27/85 (31%), Positives = 49/85 (57%), Gaps = 8/85 (9%)

Query: 35  FSDIRNWIR----NIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET 90
           F  + +W+     +I+ H       +LVG+K D++ S+R V   + + LA + G+K+ ET
Sbjct: 91  FEHVHDWLEEARSHIQPHR---PVFILVGHKCDLE-SQRQVTREEAEKLAKDLGMKYIET 146

Query: 91  SAKTNLNVEQVFFSIARDIKQRLAD 115
           SA+T  NVE+ F  + ++I +R+  
Sbjct: 147 SARTGDNVEEAFELLTQEIYERIKR 171

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 211

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

 Score = 57.3 bits (138), Expect = 6e-11
 Identities = 31/80 (38%), Positives = 45/80 (56%), Gaps = 2/80 (2%)

Query: 33  YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
           + F  I  WI+ I++HA   V K+LVGN+  +   KR V T + QA A+  G+ FFE S 
Sbjct: 92  WSFDGIDRWIKEIDEHAP-GVPKILVGNRLHL-AFKRQVATEQAQAYAERNGMTFFEVSP 149

Query: 93  KTNLNVEQVFFSIARDIKQR 112
             N N+ + F  +AR +  R
Sbjct: 150 LCNFNITESFTELARIVLMR 169

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 189

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

 Score = 55.8 bits (135), Expect = 1e-10
 Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 6/80 (7%)

Query: 35  FSDIRNWIRNIEQH-----ASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE 89
           F  + +W++ ++Q        +N+  V+  NK D     RAV   +G+  A+  G K+FE
Sbjct: 88  FEALDSWLKEMKQEGGPHGNMENIVVVVCANKID-LTKHRAVSEDEGRLWAESKGFKYFE 146

Query: 90  TSAKTNLNVEQVFFSIARDI 109
           TSA T   V ++F ++   I
Sbjct: 147 TSACTGEGVNEMFQTLFSSI 166

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 168

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

 Score = 54.9 bits (132), Expect = 4e-10
 Identities = 24/63 (38%), Positives = 40/63 (63%), Gaps = 1/63 (1%)

Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           ++++  VLVGNK D+ E +R V T +G+ LA E+   FFETSA     ++  F  + R+I
Sbjct: 105 TEDIPLVLVGNKVDL-EQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREI 163

Query: 110 KQR 112
           +++
Sbjct: 164 RRK 166

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

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

 Score = 54.4 bits (131), Expect = 5e-10
 Identities = 26/61 (42%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 42  IRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQV 101
           I  I+ +  + +  +LVGNK D +   R V +S+G ALA  +   F ETSAKTN NV+++
Sbjct: 98  ICEIKGNNLEKIPIMLVGNKCD-ESPSREVSSSEGAALARTWNCAFMETSAKTNHNVQEL 156

Query: 102 F 102
           F
Sbjct: 157 F 157

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

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

 Score = 53.7 bits (130), Expect = 8e-10
 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 13/80 (16%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM--DESKRA--------VPTSKGQALADEY 83
           F +++  W   I+ +   NV  +LVG K D+  D +           +   +G+ LA E 
Sbjct: 87  FENVKTKWYPEIKHYCP-NVPIILVGTKIDLRDDGNTLKKLEKKQKPITPEEGEKLAKEI 145

Query: 84  G-IKFFETSAKTNLNVEQVF 102
           G +K+ E SA T   +++VF
Sbjct: 146 GAVKYMECSALTQEGLKEVF 165

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

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

 Score = 51.8 bits (124), Expect = 5e-09
 Identities = 29/74 (39%), Positives = 42/74 (56%), Gaps = 2/74 (2%)

Query: 35  FSDIRNWIRNIEQHASD-NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F++   WI  +  H+   +   VLVGNK D+   +R V  ++ QALA    +KF+ETSAK
Sbjct: 92  FNNCSRWINRVRTHSHGLHTPGVLVGNKCDL-TDRREVDAAQAQALAQANTLKFYETSAK 150

Query: 94  TNLNVEQVFFSIAR 107
             +  E  F S+AR
Sbjct: 151 EGVGYEAPFLSLAR 164

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

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

 Score = 51.3 bits (123), Expect = 6e-09
 Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             D +  I  + +   + +  +LVGNK D+ E +      + + LA   G+  FE SAKT
Sbjct: 91  EEDAKLLI--LRRLRKEGIPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVSAKT 148

Query: 95  NLNVEQVFFSIAR 107
              V+++F  +  
Sbjct: 149 GEGVDELFEKLIE 161

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

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

 Score = 52.0 bits (125), Expect = 8e-09
 Identities = 28/77 (36%), Positives = 45/77 (58%), Gaps = 3/77 (3%)

Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q   +++  +LVGNK+D+  S R V   +G+A A  +  KF ETSA   
Sbjct: 92  SELRIQLRRARQA--EDIPIILVGNKSDLVRS-REVSVQEGRACAVVFDCKFIETSAALQ 148

Query: 96  LNVEQVFFSIARDIKQR 112
            NV+++F  I R ++ R
Sbjct: 149 HNVDELFEGIVRQVRLR 165

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

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

 Score = 50.6 bits (121), Expect = 2e-08
 Identities = 34/131 (25%), Positives = 53/131 (40%), Gaps = 29/131 (22%)

Query: 30  IASYHFSDIRNW---------IRNIEQHASDNVNKVLVGNKADM---DESKRAVPTSKGQ 77
           I  Y  +D  ++         ++N+E+H        L G K+D+   D S R V     Q
Sbjct: 78  IVCYDLTDSSSFERAKFWVKELQNLEEH----CKIYLCGTKSDLIEQDRSLRQVDFHDVQ 133

Query: 78  ALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVG 137
             ADE   + FETS+KT  NV+++F  +A D   R                  ++   +G
Sbjct: 134 DFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSR-----------ANNQMNTEKGVDLG 182

Query: 138 QAAQKS--ACC 146
           Q       +CC
Sbjct: 183 QKKNSYFYSCC 193

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 193

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

 Score = 49.9 bits (120), Expect = 2e-08
 Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 14/81 (17%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADE 82
           F +++  W   ++     NV  +LVG K D+            + +  V   +GQALA  
Sbjct: 85  FENVKEKWYPEVKHFCP-NVPIILVGTKLDLRNDKSTLEELSKKKQEPVTYEQGQALAKR 143

Query: 83  YG-IKFFETSAKTNLNVEQVF 102
            G +K+ E SA T   V +VF
Sbjct: 144 IGAVKYLECSALTQEGVREVF 164

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

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

 Score = 48.8 bits (117), Expect = 8e-08
 Identities = 21/95 (22%), Positives = 41/95 (43%), Gaps = 11/95 (11%)

Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDI---KQ 111
           +L+ NK D+ + + A    +      E G I +FETSAK N+N+E+    + ++I    +
Sbjct: 114 LLLANKCDLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDK 173

Query: 112 RLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
            L   +   +       +          ++  +CC
Sbjct: 174 GLQSPEPDEDNVIDLKQET-------TTSKSKSCC 201

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

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

 Score = 45.1 bits (106), Expect = 2e-06
 Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +   WI++I      +V   LVGNK D+ +  R V   +G   A EY   F ETSAK 
Sbjct: 68  FENTTKWIQDILNERGKDVIIALVGNKTDLGDL-RKVTYEEGMQKAQEYNTMFHETSAKA 126

Query: 95  NLNVEQVFFSIA 106
             N++ +F  IA
Sbjct: 127 GHNIKVLFKKIA 138

Length = 176

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 26/81 (32%), Positives = 44/81 (54%), Gaps = 11/81 (13%)

Query: 27  TYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK 86
           TYK       ++ NW R+I +   +N+  VLVGNK D+ +  R V   +      +  ++
Sbjct: 96  TYK-------NVPNWHRDIVR-VCENIPIVLVGNKVDVKD--RQVKARQIT-FHRKKNLQ 144

Query: 87  FFETSAKTNLNVEQVFFSIAR 107
           +++ SAK+N N E+ F  +AR
Sbjct: 145 YYDISAKSNYNFEKPFLWLAR 165

Length = 215

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

 Score = 44.4 bits (105), Expect = 4e-06
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 56  VLVGNKADMDESKRAVPTSK-GQALADEYGIKFFETSAKTNLNVEQVFFSIA 106
           V+ GNKAD D   R V   +  Q +  +    +FE SAK N N++++F ++ 
Sbjct: 117 VICGNKADRDFP-REVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALF 167

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

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

 Score = 43.5 bits (103), Expect = 6e-06
 Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 14/81 (17%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADMDES-----------KRAVPTSKGQALADE 82
           F +I   WI  I +H +     +LVG +AD+              ++ V  S+ +ALA++
Sbjct: 87  FQNISEKWIPEIRKH-NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEK 145

Query: 83  YG-IKFFETSAKTNLNVEQVF 102
            G  ++ E SA T  N+++VF
Sbjct: 146 IGACEYIECSALTQKNLKEVF 166

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

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

 Score = 43.2 bits (102), Expect = 7e-06
 Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 13/74 (17%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADM--DES---------KRAVPTSKGQALADEYG-IKFF 88
           W   ++ H   NV  +LVGNK D+  DE          +  V   +G+A+A++ G   + 
Sbjct: 95  WTPEVK-HFCPNVPIILVGNKKDLRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYL 153

Query: 89  ETSAKTNLNVEQVF 102
           E SAKT   V +VF
Sbjct: 154 ECSAKTKEGVREVF 167

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

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

 Score = 43.4 bits (102), Expect = 7e-06
 Identities = 29/125 (23%), Positives = 46/125 (36%), Gaps = 20/125 (16%)

Query: 38  IRNWIRNIEQHASDNVNKVLVGNKAD-----------MDESKRAVPTSKGQALADE---Y 83
              W+  + + A D+V  +LVGNK D           +++  R V        A      
Sbjct: 97  TEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVA 156

Query: 84  GIKFFETSAK--TNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQ 141
                ETSAK  T  NV ++F  + R + + +     ++E   +            QAA 
Sbjct: 157 NPALLETSAKSLTGPNVNELFKELLRKLLEEIEKLVLKNELRQLDRLNNPIE----QAAL 212

Query: 142 KSACC 146
            S  C
Sbjct: 213 ASFNC 217

Length = 219

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

 Score = 42.3 bits (100), Expect = 1e-05
 Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 40  NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE 99
           NW R++     +N+  VL GNK D+    R V   +      +  ++++E SAK+N N E
Sbjct: 93  NWHRDL-VRVCENIPIVLCGNKVDI--KDRKVKPKQITFHR-KKNLQYYEISAKSNYNFE 148

Query: 100 QVFFSIAR 107
           + F  +AR
Sbjct: 149 KPFLWLAR 156

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

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

 Score = 41.9 bits (99), Expect = 2e-05
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 12/68 (17%)

Query: 47  QHASDNVNKVLVGNKADMDESKRA-----------VPTSKGQALADEYG-IKFFETSAKT 94
            H       VLVG K D+ + K +           V   +G+++A   G + + E SAK 
Sbjct: 103 NHFCPGTPIVLVGLKTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKL 162

Query: 95  NLNVEQVF 102
             NV++VF
Sbjct: 163 MENVDEVF 170

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

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

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADM-DESKRAVPTSKGQALADEYGIKFFETSAK 93
           F  I +W   +E    D +  VLV  K D+ D++   +   + +ALA    +  F TS K
Sbjct: 90  FEAIESWKEKVEAECGD-IPMVLVQTKIDLLDQA--VITNEEAEALAKRLQLPLFRTSVK 146

Query: 94  TNLNVEQVF 102
            + NV ++F
Sbjct: 147 DDFNVTELF 155

Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

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

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 28/126 (22%), Positives = 50/126 (39%), Gaps = 11/126 (8%)

Query: 28  YKIASYH-FSDIRNW---IRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           Y I +   F ++ +W   ++ + + +      VLVGNK D+ E  R V   K    A E 
Sbjct: 81  YDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDL-EHNRQVTAEKHARFAQEN 139

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDI------KQRLADTDSRSEPSTIKINQPDQAGGVG 137
            ++    SAKT   V   F  IA ++      +  L  +    +    + ++      V 
Sbjct: 140 DMESIFVSAKTGDRVFLCFQRIAAELLGVKLSQAELEQSQRVVKADVSRYSERTLREPVS 199

Query: 138 QAAQKS 143
           ++  K 
Sbjct: 200 RSVNKR 205

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

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

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 2/62 (3%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ 100
             + I  HA   V  +LVGNK  +D     + T      A   G      SA+T  N++ 
Sbjct: 98  QTKEIIHHAESGVPIILVGNK--IDLRDAKLKTHVAFLFAKLNGEPIIPLSAETGKNIDS 155

Query: 101 VF 102
            F
Sbjct: 156 AF 157

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

 Score = 38.5 bits (89), Expect = 4e-04
 Identities = 21/75 (28%), Positives = 42/75 (56%), Gaps = 4/75 (5%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ + K     +K      +  +++++ SAK+
Sbjct: 83  YKNVPNWHRDLVR-VCENIPIVLCGNKVDVKDRK---VKAKSITFHRKKNLQYYDISAKS 138

Query: 95  NLNVEQVFFSIARDI 109
           N N E+ F  +AR +
Sbjct: 139 NYNFEKPFLWLARKL 153

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

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

 Score = 38.4 bits (89), Expect = 5e-04
 Identities = 26/80 (32%), Positives = 34/80 (42%), Gaps = 19/80 (23%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADM-----DESKRA-------------VPTSKGQALADE 82
           W   I       V  +LVG K D+     DE  RA             +P   G+A+A E
Sbjct: 110 WYPEIRHFCPR-VPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKE 168

Query: 83  YGIKFFETSAKTNLNVEQVF 102
            GI ++ETS  T   V+ VF
Sbjct: 169 LGIPYYETSVVTQFGVKDVF 188

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

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

 Score = 38.2 bits (89), Expect = 5e-04
 Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 11/83 (13%)

Query: 27  TYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK 86
           TYK       ++  W R++ +   +N+  VL GNK D+   +     +K      +  ++
Sbjct: 100 TYK-------NVPTWHRDLCR-VCENIPIVLCGNKVDVKNRQ---VKAKQVTFHRKKNLQ 148

Query: 87  FFETSAKTNLNVEQVFFSIARDI 109
           ++E SAK+N N E+ F  +AR +
Sbjct: 149 YYEISAKSNYNFEKPFLYLARKL 171

Length = 219

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

 Score = 37.9 bits (88), Expect = 6e-04
 Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 14/93 (15%)

Query: 23  FKYCTYKIASYHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRA----------- 70
           F  C   ++   F ++R  W   +  H   N   +LVG K D+ + K             
Sbjct: 76  FLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTP 134

Query: 71  VPTSKGQALADEYG-IKFFETSAKTNLNVEQVF 102
           +   +G A+A E G +K+ E SA T   ++ VF
Sbjct: 135 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

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

>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed

 Score = 37.8 bits (89), Expect = 8e-04
 Identities = 14/79 (17%), Positives = 36/79 (45%), Gaps = 8/79 (10%)

Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIA---RDIKQR 112
           ++V NK D+ E++  +     +   ++ G K F  SA T   ++++ +++A    +  + 
Sbjct: 278 IVVANKMDLPEAEENL-----EEFKEKLGPKVFPISALTGQGLDELLYAVAELLEETPEF 332

Query: 113 LADTDSRSEPSTIKINQPD 131
             + +   E    K  + +
Sbjct: 333 PLEEEEVEEEVYYKFEEEE 351

Length = 424

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

 Score = 37.5 bits (87), Expect = 0.001
 Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 56  VLVGNKADMDESKRAVPTSKGQALAD-EYGIKFFETSAKTNLNVEQVF 102
           V+VGNK D   ++R V  +   +  + ++   F E SAK N NV +VF
Sbjct: 108 VVVGNKIDS-LAERQVEAADALSTVELDWNNGFVEASAKDNENVTEVF 154

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

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

 Score = 36.8 bits (85), Expect = 0.002
 Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 7/80 (8%)

Query: 35  FSDIRNWIRNIEQHAS-DNVNK---VLVGNKADMDESKRAVPTSKGQALADEYGIK-FFE 89
           F ++ NW +    +A          V++GNK D+   +R V T + QA   + G   +FE
Sbjct: 93  FQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI--PERQVSTEEAQAWCRDNGDYPYFE 150

Query: 90  TSAKTNLNVEQVFFSIARDI 109
           TSAK   NV   F    R +
Sbjct: 151 TSAKDATNVAAAFEEAVRRV 170

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	149
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.94
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.93
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.93
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.92
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.91
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.9
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.9
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.9
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.89
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.88
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.88
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.87
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.87
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.86
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.85
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.84
PLN03110	216	Rab GTPase; Provisional	99.84
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.84
PTZ00099	176	rab6; Provisional	99.84
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.84
KOG0394	210	consensus Ras-related GTPase [General function pre	99.84
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.84
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.83
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.82
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.82
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.82
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.81
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.81
PTZ00369	189	Ras-like protein; Provisional	99.81
PLN03108	210	Rab family protein; Provisional	99.8
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.8
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.8
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.8
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.8
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.8
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.79
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.79
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.79
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.78
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.78
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.78
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.77
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.76
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.76
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.76
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.76
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.75
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.75
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.75
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.75
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.74
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.74
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.74
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.74
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.74
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.73
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.72
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.72
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.72
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.72
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.72
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.72
PLN03118	211	Rab family protein; Provisional	99.71
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.71
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.71
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.71
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.71
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.7
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.69
KOG0395	196	consensus Ras-related GTPase [General function pre	99.69
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.69
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.68
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.68
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.68
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.68
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.67
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.67
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.66
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.66
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.66
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.66
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.66
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.65
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.65
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.64
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.64
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.63
PLN00223	181	ADP-ribosylation factor; Provisional	99.63
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.63
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.62
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.61
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.61
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.61
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.61
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.61
PTZ00133	182	ADP-ribosylation factor; Provisional	99.6
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.59
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.59
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.59
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.58
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.58
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.58
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.58
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.56
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.55
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.55
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.55
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.54
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.52
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.51
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.49
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.48
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.48
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.48
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.46
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.46
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.46
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.46
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.46
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.45
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.44
PRK12299	335	obgE GTPase CgtA; Reviewed	99.42
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.41
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.4
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.38
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.38
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.38
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.34
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.33
PLN00023	334	GTP-binding protein; Provisional	99.3
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.29
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.25
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.24
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.24
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.23
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.21
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.21
PRK04213	201	GTP-binding protein; Provisional	99.18
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.17
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.12
PRK12297	424	obgE GTPase CgtA; Reviewed	99.11
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.08
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.08
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.07
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.06
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.06
COG1100	219	GTPase SAR1 and related small G proteins [General	99.04
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.04
PRK12288	347	GTPase RsgA; Reviewed	99.03
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.01
PRK03003	472	GTP-binding protein Der; Reviewed	99.01
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.0
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.98
PRK12289	352	GTPase RsgA; Reviewed	98.98
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.98
COG2229	187	Predicted GTPase [General function prediction only	98.98
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	98.97
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.95
KOG1673	205	consensus Ras GTPases [General function prediction	98.95
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	98.92
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.92
PRK12296	500	obgE GTPase CgtA; Reviewed	98.9
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.9
cd00881	189	GTP_translation_factor GTP translation factor fami	98.89
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.89
PRK05433	600	GTP-binding protein LepA; Provisional	98.88
PRK12298	390	obgE GTPase CgtA; Reviewed	98.87
PRK00098	298	GTPase RsgA; Reviewed	98.86
PRK11058	426	GTPase HflX; Provisional	98.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.86
PRK03003	472	GTP-binding protein Der; Reviewed	98.85
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.84
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.84
PRK15494	339	era GTPase Era; Provisional	98.82
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.81
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.79
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.79
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.76
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.75
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.75
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.75
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.74
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.73
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.69
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.68
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	98.66
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.65
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.64
CHL00189	742	infB translation initiation factor 2; Provisional	98.63
PRK00089	292	era GTPase Era; Reviewed	98.62
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.61
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.6
PRK05306	787	infB translation initiation factor IF-2; Validated	98.59
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.59
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	98.58
PRK00093	435	GTP-binding protein Der; Reviewed	98.56
COG2262	411	HflX GTPases [General function prediction only]	98.56
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.52
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.52
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.51
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.5
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.48
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.46
COG1162	301	Predicted GTPases [General function prediction onl	98.45
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.43
COG0536	369	Obg Predicted GTPase [General function prediction	98.43
KOG0462	650	consensus Elongation factor-type GTP-binding prote	98.43
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.4
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.4
PRK10218	607	GTP-binding protein; Provisional	98.39
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.38
PRK13796	365	GTPase YqeH; Provisional	98.38
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.38
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.37
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.36
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.35
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.34
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.34
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.33
PRK00093	435	GTP-binding protein Der; Reviewed	98.32
COG1160	444	Predicted GTPases [General function prediction onl	98.32
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.31
PRK01889	356	GTPase RsgA; Reviewed	98.3
COG1159	298	Era GTPase [General function prediction only]	98.27
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.24
PRK14845	1049	translation initiation factor IF-2; Provisional	98.21
PRK13768	253	GTPase; Provisional	98.2
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.19
PRK09866	741	hypothetical protein; Provisional	98.19
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.19
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.14
PRK04004	586	translation initiation factor IF-2; Validated	98.13
COG1160	444	Predicted GTPases [General function prediction onl	98.1
PRK12317	425	elongation factor 1-alpha; Reviewed	98.09
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.05
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	98.05
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.03
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.0
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	98.0
cd04105	203	SR_beta Signal recognition particle receptor, beta	97.99
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.99
KOG1145	683	consensus Mitochondrial translation initiation fac	97.95
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	97.95
PRK12736	394	elongation factor Tu; Reviewed	97.94
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.9
COG1084	346	Predicted GTPase [General function prediction only	97.88
COG0486	454	ThdF Predicted GTPase [General function prediction	97.87
PLN00043	447	elongation factor 1-alpha; Provisional	97.81
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.8
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.77
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.74
COG0218	200	Predicted GTPase [General function prediction only	97.7
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.69
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	97.66
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.65
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.64
PRK13351	687	elongation factor G; Reviewed	97.57
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	97.52
PRK12735	396	elongation factor Tu; Reviewed	97.52
PRK12740	668	elongation factor G; Reviewed	97.49
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	97.48
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.46
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	97.38
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	97.37
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.37
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	97.33
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.31
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.29
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.28
CHL00071	409	tufA elongation factor Tu	97.28
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.27
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.24
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.17
PRK00049	396	elongation factor Tu; Reviewed	97.16
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.15
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.14
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.14
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	97.07
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	97.05
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.04
KOG0090	238	consensus Signal recognition particle receptor, be	97.0
PLN03127	447	Elongation factor Tu; Provisional	96.95
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.95
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	96.93
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	96.91
COG3276	447	SelB Selenocysteine-specific translation elongatio	96.88
PRK12739	691	elongation factor G; Reviewed	96.74
PF09439	181	SRPRB: Signal recognition particle receptor beta s	96.7
PTZ00141	446	elongation factor 1- alpha; Provisional	96.68
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.67
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	96.65
PLN03126	478	Elongation factor Tu; Provisional	96.64
KOG0461	522	consensus Selenocysteine-specific elongation facto	96.3
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	96.28
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.27
COG1217	603	TypA Predicted membrane GTPase involved in stress	96.18
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	96.08
COG1163	365	DRG Predicted GTPase [General function prediction	96.08
PRK00007	693	elongation factor G; Reviewed	96.0
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	95.91
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	95.75
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	95.62
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.62
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.58
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	95.55
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.52
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	95.13
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	95.06
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	95.04
PRK09602	396	translation-associated GTPase; Reviewed	94.84
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	94.79
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	94.07
COG5258	527	GTPBP1 GTPase [General function prediction only]	94.02
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	93.78
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	93.38
KOG0466	466	consensus Translation initiation factor 2, gamma s	93.16
COG1161	322	Predicted GTPases [General function prediction onl	93.1
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	92.85
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	92.76
KOG0410	410	consensus Predicted GTP binding protein [General f	92.51
PRK07560	731	elongation factor EF-2; Reviewed	92.35
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	92.2
cd03110	179	Fer4_NifH_child This protein family's function is	91.92
KOG4273	418	consensus Uncharacterized conserved protein [Funct	91.83
KOG0082	354	consensus G-protein alpha subunit (small G protein	91.74
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	91.46
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	90.61
KOG2423	572	consensus Nucleolar GTPase [General function predi	90.52
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	90.43
KOG2484	435	consensus GTPase [General function prediction only	88.91
KOG2486	320	consensus Predicted GTPase [General function predi	87.73
COG0050	394	TufB GTPases - translation elongation factors [Tra	87.65
KOG1143	591	consensus Predicted translation elongation factor	86.83
COG1149	284	MinD superfamily P-loop ATPase containing an inser	86.48
PTZ00416	836	elongation factor 2; Provisional	86.24
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	85.78
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	85.61
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	83.74
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	83.69
PLN00116	843	translation elongation factor EF-2 subunit; Provis	83.44
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	82.81
PF09419	168	PGP_phosphatase: Mitochondrial PGP phosphatase; In	81.33
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	80.53
KOG3886	295	consensus GTP-binding protein [Signal transduction	80.05

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

Probab=99.94  E-value=2.3e-26  Score=160.81  Aligned_cols=135  Identities=33%  Similarity=0.553  Sum_probs=115.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-|||+++..+||+++++ ||+|||+++ .||+.+..|+.++..+..+++|.++||||+|+. +.+.+..+++..++..+
T Consensus        67 GQERFrtit~syYR~ahG-ii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~-~~~~v~~~~a~~fa~~~  144 (205)
T KOG0084|consen   67 GQERFRTITSSYYRGAHG-IIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLT-EKRVVSTEEAQEFADEL  144 (205)
T ss_pred             ccHHHhhhhHhhccCCCe-EEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccH-hheecCHHHHHHHHHhc
Confidence            558999999999999988 799999998 999999999999999988899999999999998 78889999999999999


Q ss_pred             CCc-EEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCC--CCCCcccccCCCCCCCCCCCCCCCCccC
Q 032001           84 GIK-FFETSAKTNLNVEQVFFSIARDIKQRLADTDSR--SEPSTIKINQPDQAGGVGQAAQKSACCG  147 (149)
Q Consensus        84 ~~~-~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Cc~  147 (149)
                      +++ ++++|||.+.||++.|..|+..+..++......  ...++++++++.      ..+..++||+
T Consensus       145 ~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~~~~~~~~ql~~~p------~~~~~~~~C~  205 (205)
T KOG0084|consen  145 GIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWSTASLESVQLKGTP------VKKSNGGCCE  205 (205)
T ss_pred             CCcceeecccCCccCHHHHHHHHHHHHHHhcccCCCCCcCCCCceeeCCCC------cccccCCCCC
Confidence            998 999999999999999999999998876554222  356777777632      3344455774

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

Probab=99.93  E-value=1.7e-25  Score=155.97  Aligned_cols=135  Identities=30%  Similarity=0.498  Sum_probs=112.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.|||.++.|-|||+++. +|+|||+++ +||..++.|+.++.+..++++-+.+||||+||. ..+.+..+++..++...
T Consensus        63 GQERy~slapMYyRgA~A-AivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~-~~R~V~~~ea~~yAe~~  140 (200)
T KOG0092|consen   63 GQERYHSLAPMYYRGANA-AIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLL-ERREVEFEEAQAYAESQ  140 (200)
T ss_pred             CcccccccccceecCCcE-EEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhh-hcccccHHHHHHHHHhc
Confidence            679999999999999977 799999999 999999999999999888889999999999998 67899999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCC--CCCCCcccccCCCCCCCCCCCCCCCCccC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDS--RSEPSTIKINQPDQAGGVGQAAQKSACCG  147 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Cc~  147 (149)
                      +..++++|||||.||+++|..|++.++....+...  ...+.+..+....      +....++||+
T Consensus       141 gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~------~~~~~~~~C~  200 (200)
T KOG0092|consen  141 GLLFFETSAKTGENVNEIFQAIAEKLPCSDPQERQGLPNRRQGVDLNSNQ------EPARPSGCCA  200 (200)
T ss_pred             CCEEEEEecccccCHHHHHHHHHHhccCccccccccccccccceecccCC------CCcCcCCcCC
Confidence            99999999999999999999999999876544322  1112344444321      3445567775

>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=99.93  E-value=9.8e-25  Score=154.31  Aligned_cols=111  Identities=50%  Similarity=0.791  Sum_probs=103.5

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      .|.|||+.+...||+++.+ +++|||+++ .||+++..|+..+.++.+.++|+++||||+|+. ..+++..+...+++.+
T Consensus        69 aGQerf~ti~~sYyrgA~g-i~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~-~~R~V~~e~ge~lA~e  146 (207)
T KOG0078|consen   69 AGQERFRTITTAYYRGAMG-ILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLE-EKRQVSKERGEALARE  146 (207)
T ss_pred             ccchhHHHHHHHHHhhcCe-eEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeecccccc-ccccccHHHHHHHHHH
Confidence            4679999999999999999 799999998 999999999999999988899999999999998 7889999999999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      +|+.++++|||+|.||++.|..|++.+..+....
T Consensus       147 ~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~~  180 (207)
T KOG0078|consen  147 YGIKFFETSAKTNFNIEEAFLSLARDILQKLEDA  180 (207)
T ss_pred             hCCeEEEccccCCCCHHHHHHHHHHHHHhhcchh
Confidence            9999999999999999999999999998765543

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

Probab=99.92  E-value=1.1e-24  Score=151.22  Aligned_cols=110  Identities=33%  Similarity=0.574  Sum_probs=103.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-|+|++.+..||+++.+ +++|||++. +||+++..|+.+++++..+++.|+++|||+||. ..+.+..++...|++++
T Consensus        64 Gqe~frsv~~syYr~a~G-alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~-~rR~Vs~EEGeaFA~eh  141 (216)
T KOG0098|consen   64 GQESFRSVTRSYYRGAAG-ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLE-ARREVSKEEGEAFAREH  141 (216)
T ss_pred             CcHHHHHHHHHHhccCcc-eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhh-ccccccHHHHHHHHHHc
Confidence            568899999999999999 699999998 999999999999999887899999999999998 88899999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      ++.++++||++++||+|.|...+..+....+..
T Consensus       142 gLifmETSakt~~~VEEaF~nta~~Iy~~~q~g  174 (216)
T KOG0098|consen  142 GLIFMETSAKTAENVEEAFINTAKEIYRKIQDG  174 (216)
T ss_pred             CceeehhhhhhhhhHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999887665

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

Probab=99.91  E-value=4.3e-24  Score=149.31  Aligned_cols=108  Identities=31%  Similarity=0.461  Sum_probs=98.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCC-CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASD-NVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~-~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-|||+++.|.|+++... +|+|||+++ .||++..+|+++++...+. ++.|++||||.||. +.+++..++....+++
T Consensus        80 GQERFrslipsY~Rds~v-aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~-dkrqvs~eEg~~kAke  157 (221)
T KOG0094|consen   80 GQERFRSLIPSYIRDSSV-AVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLS-DKRQVSIEEGERKAKE  157 (221)
T ss_pred             cHHHHhhhhhhhccCCeE-EEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEccccccc-chhhhhHHHHHHHHHH
Confidence            569999999999999977 688999998 9999999999999887665 58999999999999 8888888888889999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      ++..|+++||+.|.||.++|..|+..+++...
T Consensus       158 l~a~f~etsak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  158 LNAEFIETSAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             hCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence            99999999999999999999999999987744

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

Probab=99.90  E-value=1.8e-23  Score=142.25  Aligned_cols=139  Identities=24%  Similarity=0.382  Sum_probs=111.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-||||.+++.||+++.+ +|+|||++. ++|..++.|+.++..+.. +++..++||||+|.. .++.+..++...+++.
T Consensus        69 GqErFRtLTpSyyRgaqG-iIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDke-s~R~V~reEG~kfAr~  146 (209)
T KOG0080|consen   69 GQERFRTLTPSYYRGAQG-IILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKE-SERVVDREEGLKFARK  146 (209)
T ss_pred             chHhhhccCHhHhccCce-eEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccch-hcccccHHHHHHHHHh
Confidence            579999999999999999 799999998 999999999999988764 778889999999976 7888999999999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCcccccCCCCCCCCCCCCCCCCccCC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACCGG  148 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cc~~  148 (149)
                      ++.-++++||++.+||+..|+.|++.|.+...--++.+...+..+..... . . .....++||.|
T Consensus       147 h~~LFiE~SAkt~~~V~~~FeelveKIi~tp~l~~~~n~~~~~~i~~~p~-~-~-~~~~~g~~Cs~  209 (209)
T KOG0080|consen  147 HRCLFIECSAKTRENVQCCFEELVEKIIETPSLWEEGNSSAGLDIASDPD-G-E-ASAHQGGCCSC  209 (209)
T ss_pred             hCcEEEEcchhhhccHHHHHHHHHHHHhcCcchhhccCCccccccccCCC-c-c-cccccCCccCC
Confidence            99999999999999999999999999977633223333334444443211 0 0 12344678875

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

Probab=99.90  E-value=1.4e-22  Score=138.18  Aligned_cols=110  Identities=30%  Similarity=0.459  Sum_probs=100.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      |-|||++++..||++..+ +++|||+++ +||+++..|+.+..-+..  .++-+.+||+|.||. ..+++..+++..++.
T Consensus        67 gqerfrsitksyyrnsvg-vllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~-SqRqVt~EEaEklAa  144 (213)
T KOG0091|consen   67 GQERFRSITKSYYRNSVG-VLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQ-SQRQVTAEEAEKLAA  144 (213)
T ss_pred             chHHHHHHHHHHhhcccc-eEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchh-hhccccHHHHHHHHH
Confidence            568999999999999988 799999998 999999999999876543  456668999999998 889999999999999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      .+|+.++++||++|.||++.|+.|++.++..+.+.
T Consensus       145 ~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~qG  179 (213)
T KOG0091|consen  145 SHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQG  179 (213)
T ss_pred             hcCceEEEecccCCCcHHHHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999887663

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

Probab=99.90  E-value=2.1e-23  Score=140.19  Aligned_cols=124  Identities=29%  Similarity=0.475  Sum_probs=108.5

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      -|.|||+.|+..||++.++ +++|||+++ +||....+|+++++++. +.+|-|+||||.|.+ +.+.+..+.+..|+..
T Consensus        65 AGqErFrtitstyyrgthg-v~vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~-~RrvV~t~dAr~~A~~  141 (198)
T KOG0079|consen   65 AGQERFRTITSTYYRGTHG-VIVVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDP-ERRVVDTEDARAFALQ  141 (198)
T ss_pred             ccHHHHHHHHHHHccCCce-EEEEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCc-cceeeehHHHHHHHHh
Confidence            3679999999999999988 799999999 99999999999999877 589999999999998 7777888899999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh-cCCCCCCCCCcccccCC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL-ADTDSRSEPSTIKINQP  130 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~-~~~~~~~~~~~~~~~~~  130 (149)
                      +++..|++|||.+.|++..|.-|.+.+...+ ..+....+....++.+.
T Consensus       142 mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~~~~r~~~~~l~~n  190 (198)
T KOG0079|consen  142 MGIELFETSAKENENVEAMFHCITKQVLQAKLRESVEQQRADAVSLKDN  190 (198)
T ss_pred             cCchheehhhhhcccchHHHHHHHHHHHHHHHhhcHHHHhhcceEeccC
Confidence            9999999999999999999999999888765 33444555566666655

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

Probab=99.89  E-value=8.5e-23  Score=138.72  Aligned_cols=109  Identities=24%  Similarity=0.445  Sum_probs=101.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-|||-.+-|.||++.++ +++|||+++ .||..++.|..++++..++.+-+++||||+||. ..+.+...++..+++.-
T Consensus        71 GQErfHALGPIYYRgSnG-alLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLE-eeR~Vt~qeAe~YAesv  148 (218)
T KOG0088|consen   71 GQERFHALGPIYYRGSNG-ALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLE-EERQVTRQEAEAYAESV  148 (218)
T ss_pred             chHhhhccCceEEeCCCc-eEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHH-HhhhhhHHHHHHHHHhh
Confidence            568999999999999998 689999998 999999999999999888899999999999997 78889999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      |..++++||+.+.||.++|..|...+.+..++
T Consensus       149 GA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~  180 (218)
T KOG0088|consen  149 GALYMETSAKDNVGISELFESLTAKMIEHSSQ  180 (218)
T ss_pred             chhheecccccccCHHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999988877543

>cd04126 Rab20 Rab20 subfamily

Probab=99.88  E-value=1.7e-21  Score=141.95  Aligned_cols=111  Identities=23%  Similarity=0.292  Sum_probs=93.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------------
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------------   66 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----------------   66 (149)
                      |.++|..++..||++++. +|+|||+++ .+|+.+..|+..+.+....++|+|+|+||+|+.+                 
T Consensus        53 G~e~~~~l~~~~~~~ad~-~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~  131 (220)
T cd04126          53 GREQFHGLGSMYCRGAAA-VILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSP  131 (220)
T ss_pred             CcccchhhHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccc
Confidence            557899999999988755 789999998 8999999998888765556799999999999962                 


Q ss_pred             -CCCCCCHHHHHHHHHHhC--------------CcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           67 -SKRAVPTSKGQALADEYG--------------IKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        67 -~~~~~~~~~~~~~~~~~~--------------~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                       ..+.+..+++..+++..+              .+++++||++|.||+++|..+++.+.+...+.
T Consensus       132 ~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~  196 (220)
T cd04126         132 EDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQ  196 (220)
T ss_pred             cccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence             146677788888888876              67999999999999999999999888765443

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

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

Probab=99.88  E-value=1.3e-21  Score=138.40  Aligned_cols=109  Identities=30%  Similarity=0.526  Sum_probs=101.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-|||+.+.+.||+++.+ .++|||++. .+|+.+.+|+.+++.+..+++++++||||+||. ..+.++.+++..+++..
T Consensus        72 GQERyrAitSaYYrgAvG-AllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~-~lraV~te~~k~~Ae~~  149 (222)
T KOG0087|consen   72 GQERYRAITSAYYRGAVG-ALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN-HLRAVPTEDGKAFAEKE  149 (222)
T ss_pred             chhhhccccchhhcccce-eEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh-hccccchhhhHhHHHhc
Confidence            568999999999999988 699999998 999999999999999998999999999999997 67888999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      ++.++++||..+.||+.+|..+...|.....+
T Consensus       150 ~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~  181 (222)
T KOG0087|consen  150 GLFFLETSALDATNVEKAFERVLTEIYKIVSK  181 (222)
T ss_pred             CceEEEecccccccHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999876544

>cd04120 Rab12 Rab12 subfamily

Probab=99.87  E-value=3.7e-21  Score=138.57  Aligned_cols=107  Identities=29%  Similarity=0.565  Sum_probs=93.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+++|+.||+++++ +++|||+++ .||+.+..|+..+.+....++|+++||||+|+. ..+.+...++..+++..
T Consensus        58 Gqe~~~~l~~~y~~~ad~-iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~a~~~  135 (202)
T cd04120          58 GQERFNSITSAYYRSAKG-IILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-TDREISRQQGEKFAQQI  135 (202)
T ss_pred             CchhhHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHhc
Confidence            568999999999998866 788999998 999999999999877655789999999999997 56777777778888775


Q ss_pred             -CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 -GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 -~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                       ++.++++||++|.||+++|.++++.+....
T Consensus       136 ~~~~~~etSAktg~gV~e~F~~l~~~~~~~~  166 (202)
T cd04120         136 TGMRFCEASAKDNFNVDEIFLKLVDDILKKM  166 (202)
T ss_pred             CCCEEEEecCCCCCCHHHHHHHHHHHHHHhC
Confidence             788999999999999999999999887653

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

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

Probab=99.87  E-value=1.2e-21  Score=132.43  Aligned_cols=125  Identities=30%  Similarity=0.421  Sum_probs=114.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-|||++....||+++++ .++|||++. ++|+.+..|+.+++...++++-+|++|||.||. +.+++...++..+++++
T Consensus        67 GQErFRSVtRsYYRGAAG-AlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~-~~R~VtflEAs~FaqEn  144 (214)
T KOG0086|consen   67 GQERFRSVTRSYYRGAAG-ALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQEN  144 (214)
T ss_pred             cHHHHHHHHHHHhccccc-eEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcC-hhhhhhHHHHHhhhccc
Confidence            568999999999999999 588999998 999999999999999888999999999999998 78899999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC--CCCCCCCcccccCCC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT--DSRSEPSTIKINQPD  131 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~--~~~~~~~~~~~~~~~  131 (149)
                      .+.+.++||+||+||+|.|-..++.|..+++..  +++....+|+++...
T Consensus       145 el~flETSa~TGeNVEEaFl~c~~tIl~kIE~GElDPer~gsGIQYGdas  194 (214)
T KOG0086|consen  145 ELMFLETSALTGENVEEAFLKCARTILNKIESGELDPERMGSGIQYGDAS  194 (214)
T ss_pred             ceeeeeecccccccHHHHHHHHHHHHHHHHhhcCCCHHHcccccccchhh
Confidence            998999999999999999999999999887654  777788899998665

>cd04121 Rab40 Rab40 subfamily

Probab=99.86  E-value=7.1e-21  Score=135.77  Aligned_cols=107  Identities=33%  Similarity=0.533  Sum_probs=94.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.||+++++ +++|||+++ .||+.+..|++++.... +++|+|+||||.|+. ..+.+..+++..+++..
T Consensus        64 G~~~~~~l~~~~~~~ad~-illVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~-~~~~v~~~~~~~~a~~~  140 (189)
T cd04121          64 GQGRFCTIFRSYSRGAQG-IILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLA-FKRQVATEQAQAYAERN  140 (189)
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccch-hccCCCHHHHHHHHHHc
Confidence            558899999999987755 899999998 99999999999997765 589999999999997 55667788889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +.+++++||++|.||+++|.++++.+.....
T Consensus       141 ~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121         141 GMTFFEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999998876543

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.85  E-value=4.6e-20  Score=132.41  Aligned_cols=108  Identities=20%  Similarity=0.347  Sum_probs=91.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.++|+.+++.||+++++ +++|||+++ .+|+.+..|+.++....    ..++|+++|+||+|+. ..+.+...++..+
T Consensus        59 G~~~~~~~~~~~~~~a~~-~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~-~~~~~~~~~~~~~  136 (201)
T cd04107          59 GQERFGGMTRVYYRGAVG-AIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLK-KRLAKDGEQMDQF  136 (201)
T ss_pred             CchhhhhhHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcc-cccccCHHHHHHH
Confidence            457899999999998866 788889997 99999999999887532    2578999999999996 4456667788888


Q ss_pred             HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      ++..+ ..++++||++|.|++++|.+|++.+.+..+
T Consensus       137 ~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~  172 (201)
T cd04107         137 CKENGFIGWFETSAKEGINIEEAMRFLVKNILANDK  172 (201)
T ss_pred             HHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhch
Confidence            88888 689999999999999999999998877643

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.84  E-value=7.3e-20  Score=130.30  Aligned_cols=109  Identities=29%  Similarity=0.441  Sum_probs=91.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|+.++..||++++. +++|||+++ .+|+.+..|+..+....   ..++|+++|+||+|+. ..+.+.......++
T Consensus        56 G~~~~~~~~~~~~~~ad~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~~  133 (190)
T cd04144          56 GQEEYTALRDQWIREGEG-FILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV-YEREVSTEEGAALA  133 (190)
T ss_pred             CchhhHHHHHHHHHhCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcc-ccCccCHHHHHHHH
Confidence            457899999999998866 788889998 89999999999987643   2578999999999997 55566666677788


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +..+.+++++||++|.|++++|.++++.+.+...+
T Consensus       134 ~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~~~  168 (190)
T cd04144         134 RRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQG  168 (190)
T ss_pred             HHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhhcc
Confidence            88888999999999999999999999988766543

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.84  E-value=1e-19  Score=132.16  Aligned_cols=108  Identities=30%  Similarity=0.521  Sum_probs=93.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|.+++..|++++++ +++|||+++ .+|+.+..|+..+.+....++|+++|+||+|+. ..+.+..+.+..++..+
T Consensus        70 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~l~~~~  147 (216)
T PLN03110         70 GQERYRAITSAYYRGAVG-ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLN-HLRSVAEEDGQALAEKE  147 (216)
T ss_pred             CcHHHHHHHHHHhCCCCE-EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence            457889999999987765 788899987 899999999999988766689999999999997 55666777778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|+.|++.+.+.+.
T Consensus       148 ~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        148 GLSFLETSALEATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            8999999999999999999999999987543

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

Probab=99.84  E-value=2.5e-20  Score=126.78  Aligned_cols=111  Identities=31%  Similarity=0.501  Sum_probs=101.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +-|||++++..+|+++.+ ++++||++. .||..+..|+..++.+. .++..||++|||.||. +.+++.+.++..++.+
T Consensus        76 GQERFRSLTTAFfRDAMG-FlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~-~~R~Vs~~qa~~La~k  153 (219)
T KOG0081|consen   76 GQERFRSLTTAFFRDAMG-FLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLE-DQRVVSEDQAAALADK  153 (219)
T ss_pred             cHHHHHHHHHHHHHhhcc-ceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchh-hhhhhhHHHHHHHHHH
Confidence            568999999999999999 688889998 99999999999987743 3778999999999998 7788999999999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTD  117 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~  117 (149)
                      +++|||++||.+|.||++..+.|+..+.+++++..
T Consensus       154 yglPYfETSA~tg~Nv~kave~LldlvM~Rie~~v  188 (219)
T KOG0081|consen  154 YGLPYFETSACTGTNVEKAVELLLDLVMKRIEQCV  188 (219)
T ss_pred             hCCCeeeeccccCcCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999888773

>PTZ00099 rab6; Provisional

Probab=99.84  E-value=9.3e-20  Score=128.66  Aligned_cols=107  Identities=30%  Similarity=0.445  Sum_probs=92.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|+.+++.||++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...++..++..+
T Consensus        38 G~e~~~~~~~~~~~~ad~-~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~-~~~~v~~~e~~~~~~~~  115 (176)
T PTZ00099         38 GQERFRSLIPSYIRDSAA-AIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLG-DLRKVTYEEGMQKAQEY  115 (176)
T ss_pred             ChHHhhhccHHHhCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            558899999999987755 899999998 899999999999877655678999999999996 44556777777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +..++++||++|.||+++|++|++.+++..
T Consensus       116 ~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099        116 NTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            888999999999999999999999997754

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

Probab=99.84  E-value=1.1e-20  Score=126.92  Aligned_cols=108  Identities=35%  Similarity=0.569  Sum_probs=100.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-|||+.++..||+++.+ +|++||+++ +||+.++.|.-.|..+.-.+.|+|+|+||+|+. +++.++.+....++.+.
T Consensus        79 gqEryrtiTTayyRgamg-fiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd-~eRvis~e~g~~l~~~L  156 (193)
T KOG0093|consen   79 GQERYRTITTAYYRGAMG-FILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMD-SERVISHERGRQLADQL  156 (193)
T ss_pred             cchhhhHHHHHHhhccce-EEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCc-cceeeeHHHHHHHHHHh
Confidence            568999999999999988 799999998 999999999999998877899999999999997 88999999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      |+.+|++|||.+.||+++|..++..|-.++.
T Consensus       157 GfefFEtSaK~NinVk~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  157 GFEFFETSAKENINVKQVFERLVDIICDKMS  187 (193)
T ss_pred             ChHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999998876654

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

Probab=99.84  E-value=3.7e-20  Score=128.51  Aligned_cols=109  Identities=28%  Similarity=0.382  Sum_probs=95.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCc-CCCCCCHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDE-SKRAVPTSKGQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~-~~~~~~~~~~~~   78 (149)
                      |-|||.++...+|++++- ++++||+++ .||+.+..|.+++..+..    ...|+|++|||+|+.+ ..++++...+..
T Consensus        67 GQERFqsLg~aFYRgaDc-Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~  145 (210)
T KOG0394|consen   67 GQERFQSLGVAFYRGADC-CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQT  145 (210)
T ss_pred             cHHHhhhcccceecCCce-EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHH
Confidence            568999999998887755 899999998 999999999999977653    5689999999999973 237899999999


Q ss_pred             HHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           79 LADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        79 ~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      |+...| +|||++|||...||++.|..+++.....+.
T Consensus       146 WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  146 WCKSKGNIPYFETSAKEATNVDEAFEEIARRALANED  182 (210)
T ss_pred             HHHhcCCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence            999876 799999999999999999999999887653

>cd04111 Rab39 Rab39 subfamily

Probab=99.84  E-value=2.3e-19  Score=129.96  Aligned_cols=110  Identities=26%  Similarity=0.462  Sum_probs=92.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..||++++. +++|||+++ .+|+.+..|+.++.+... ..+|+++|+||.|+. ....+.......+++.
T Consensus        61 G~~~~~~~~~~~~~~~d~-iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~-~~~~v~~~~~~~~~~~  138 (211)
T cd04111          61 GQERFRSITRSYYRNSVG-VLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLE-SQRQVTREEAEKLAKD  138 (211)
T ss_pred             cchhHHHHHHHHhcCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccc-cccccCHHHHHHHHHH
Confidence            446788889999888755 788999998 999999999999977543 467899999999997 5556777778888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      .+.+++++||++|.|++++|+.|++.+.+.+...
T Consensus       139 ~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~~  172 (211)
T cd04111         139 LGMKYIETSARTGDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             hCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            8899999999999999999999999988775443

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.

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

Probab=99.83  E-value=1.5e-19  Score=121.06  Aligned_cols=110  Identities=30%  Similarity=0.485  Sum_probs=101.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-|||+.....||+++++ .++|||++. .+++++..|+.+.+....++..|++++||.||. +.+.+..+++..+++++
T Consensus        69 gqerfravtrsyyrgaag-almvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle-~qrdv~yeeak~faeen  146 (215)
T KOG0097|consen   69 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-SQRDVTYEEAKEFAEEN  146 (215)
T ss_pred             cHHHHHHHHHHHhccccc-eeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhh-hcccCcHHHHHHHHhhc
Confidence            568999999999999999 588999998 899999999999988777888999999999997 77889999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      |+-++++|||+|.||++.|-..++.+.+.+++.
T Consensus       147 gl~fle~saktg~nvedafle~akkiyqniqdg  179 (215)
T KOG0097|consen  147 GLMFLEASAKTGQNVEDAFLETAKKIYQNIQDG  179 (215)
T ss_pred             CeEEEEecccccCcHHHHHHHHHHHHHHhhhcC
Confidence            999999999999999999999999999887664

>cd04112 Rab26 Rab26 subfamily

Probab=99.82  E-value=4.2e-19  Score=126.51  Aligned_cols=107  Identities=39%  Similarity=0.608  Sum_probs=91.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...+...++..+
T Consensus        59 G~~~~~~~~~~~~~~ad~-~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~l~~~~  136 (191)
T cd04112          59 GQERFRSVTHAYYRDAHA-LLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMS-GERVVKREDGERLAKEY  136 (191)
T ss_pred             CcHHHHHhhHHHccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccch-hccccCHHHHHHHHHHc
Confidence            457788888888887755 788889997 899999999999988765689999999999996 44556666777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +.+++++||++|.|++++|.+|++.+.+..
T Consensus       137 ~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112         137 GVPFMETSAKTGLNVELAFTAVAKELKHRK  166 (191)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            889999999999999999999999987764

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.82  E-value=3.1e-19  Score=125.30  Aligned_cols=108  Identities=27%  Similarity=0.462  Sum_probs=92.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|++++..||++++. +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||.|+. ..+.+...++..+++.
T Consensus        59 G~~~~~~l~~~~~~~~d~-~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~-~~~~v~~~~~~~~a~~  136 (172)
T cd04141          59 GQAEFTAMRDQYMRCGEG-FIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLE-SQRQVTTEEGRNLARE  136 (172)
T ss_pred             CchhhHHHhHHHhhcCCE-EEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhh-hcCccCHHHHHHHHHH
Confidence            457899999999998755 788899998 99999999998887643 3579999999999997 5566777788888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .+.+++++||++|.||+++|.+|++.+.+.++
T Consensus       137 ~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~  168 (172)
T cd04141         137 FNCPFFETSAALRHYIDDAFHGLVREIRRKES  168 (172)
T ss_pred             hCCEEEEEecCCCCCHHHHHHHHHHHHHHhcc
Confidence            89999999999999999999999998877544

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.82  E-value=7.2e-19  Score=128.99  Aligned_cols=107  Identities=20%  Similarity=0.280  Sum_probs=91.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|.++++.||+++++ +++|||+++ .||+.+ ..|+.++.... +++|+|+||||+||...           .+.+
T Consensus        70 G~e~~~~~~~~~~~~ad~-vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~V  147 (232)
T cd04174          70 GSPYYDNVRPLCYSDSDA-VLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPI  147 (232)
T ss_pred             CchhhHHHHHHHcCCCcE-EEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcC
Confidence            568899999999998876 799999998 999984 89999998765 57899999999998621           2457


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCC-CHHHHHHHHHHHHHHHh
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNL-NVEQVFFSIARDIKQRL  113 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~-~i~el~~~l~~~i~~~~  113 (149)
                      ..+++..+++..+. .++++||++|. ||+++|..++..+.+..
T Consensus       148 s~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~  191 (232)
T cd04174         148 SYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKL  191 (232)
T ss_pred             CHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhc
Confidence            78889999999998 69999999998 89999999999887653

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.

>cd04133 Rop_like Rop subfamily

Probab=99.81  E-value=3e-19  Score=126.10  Aligned_cols=102  Identities=24%  Similarity=0.377  Sum_probs=88.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK----------RAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~----------~~~~   72 (149)
                      |.++|+++++.||+++++ +++|||+++ +||+.+ ..|+.++.+.. +++|+++||||.||. +.          +.+.
T Consensus        58 G~~~~~~~~~~~~~~a~~-~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~-~~~~~~~~~~~~~~v~  134 (176)
T cd04133          58 GQEDYNRLRPLSYRGADV-FVLAFSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLR-DDKQYLADHPGASPIT  134 (176)
T ss_pred             CCccccccchhhcCCCcE-EEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhc-cChhhhhhccCCCCCC
Confidence            558999999999997755 899999998 999998 68999997765 579999999999996 32          2467


Q ss_pred             HHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        73 ~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ..++..+++.++. .++++||++|.||+++|+.+++.+
T Consensus       135 ~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~  172 (176)
T cd04133         135 TAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVV  172 (176)
T ss_pred             HHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHH
Confidence            7888899999887 699999999999999999999876

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,

>cd04110 Rab35 Rab35 subfamily

Probab=99.81  E-value=1e-18  Score=125.35  Aligned_cols=107  Identities=33%  Similarity=0.506  Sum_probs=90.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|+.++..|++++++ +++|||+++ ++|..+..|+..+.... ..+|+++|+||+|+. ....+....+..++...
T Consensus        64 G~~~~~~~~~~~~~~a~~-iilv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~-~~~~~~~~~~~~~~~~~  140 (199)
T cd04110          64 GQERFRTITSTYYRGTHG-VIVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDP-ERKVVETEDAYKFAGQM  140 (199)
T ss_pred             CchhHHHHHHHHhCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            347788899999988765 788899987 99999999999987755 578999999999997 54556667777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +.+++++||++|.||+++|++|++.+.....
T Consensus       141 ~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         141 GISLFETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             CCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            8999999999999999999999998876543

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.81  E-value=8e-19  Score=124.87  Aligned_cols=108  Identities=36%  Similarity=0.597  Sum_probs=90.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.++ +++|||+++ .+|+.+..|+..+.+... .++|+++|+||.|+. ..+.+...++..+++.
T Consensus        62 G~~~~~~l~~~~~~~~d~-iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~i~~~~~~~~~~~  139 (189)
T PTZ00369         62 GQEEYSAMRDQYMRTGQG-FLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD-SERQVSTGEGQELAKS  139 (189)
T ss_pred             CCccchhhHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHH
Confidence            567899999999887755 788889998 899999999999876543 578999999999986 4455666667777777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .+.+++++||++|.|++++|.+|++.+.+..+
T Consensus       140 ~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~~  171 (189)
T PTZ00369        140 FGIPFLETSAKQRVNVDEAFYELVREIRKYLK  171 (189)
T ss_pred             hCCEEEEeeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            88899999999999999999999998876543

>PLN03108 Rab family protein; Provisional

Probab=99.80  E-value=3.8e-18  Score=123.42  Aligned_cols=110  Identities=33%  Similarity=0.548  Sum_probs=92.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||.|+. ..+.+...+...+++.+
T Consensus        64 G~~~~~~~~~~~~~~ad~-~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~~~~~~  141 (210)
T PLN03108         64 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA-HRRAVSTEEGEQFAKEH  141 (210)
T ss_pred             CcHHHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-cccCCCHHHHHHHHHHc
Confidence            456788889999887655 788889997 899999999998877655679999999999997 55566777788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      +++++++||+++.|++++|.++++.+.+..++.
T Consensus       142 ~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~~~~  174 (210)
T PLN03108        142 GLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDG  174 (210)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhhc
Confidence            999999999999999999999999988765433

>cd01875 RhoG RhoG subfamily

Probab=99.80  E-value=9.1e-19  Score=124.90  Aligned_cols=105  Identities=24%  Similarity=0.348  Sum_probs=87.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~   71 (149)
                      |.++|+.+++.||+++++ +++|||+++ .||+.+. .|..++.+.. +++|+++||||.||.+..           +.+
T Consensus        60 G~e~~~~l~~~~~~~a~~-~ilvydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v  137 (191)
T cd01875          60 GQEEYDRLRTLSYPQTNV-FIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPI  137 (191)
T ss_pred             CchhhhhhhhhhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCC
Confidence            568999999999998765 788999998 9999996 6988887654 579999999999996211           235


Q ss_pred             CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ...++..+++..+ .+++++||++|.||+++|.++++.+..
T Consensus       138 ~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         138 TPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence            5667788888888 589999999999999999999987744

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.80  E-value=1.2e-18  Score=121.11  Aligned_cols=105  Identities=30%  Similarity=0.481  Sum_probs=91.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|++++++ +++|||+++ .+|+.+..|+.++.....++.|+++|+||+|+. ..+.+...++..+++..
T Consensus        60 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~-~~~~~~~~~~~~~~~~~  137 (166)
T cd04122          60 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-AQRDVTYEEAKQFADEN  137 (166)
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCcCHHHHHHHHHHc
Confidence            457888999999987765 788899998 999999999999877655678999999999997 55666777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|..+++.+.+
T Consensus       138 ~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         138 GLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            8999999999999999999999987754

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.80  E-value=3.2e-18  Score=121.46  Aligned_cols=107  Identities=31%  Similarity=0.497  Sum_probs=91.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+.++......++|+++|+||.|+. ....+....+..++...
T Consensus        58 g~~~~~~~~~~~~~~~d~-iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~-~~~~v~~~~~~~~~~~~  135 (188)
T cd04125          58 GQERFRSLNNSYYRGAHG-YLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLV-NNKVVDSNIAKSFCDSL  135 (188)
T ss_pred             CcHHHHhhHHHHccCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCc-ccccCCHHHHHHHHHHc
Confidence            456788888888887765 788889987 999999999999987665678999999999997 55556667777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|.+|++.+....
T Consensus       136 ~~~~~evSa~~~~~i~~~f~~l~~~~~~~~  165 (188)
T cd04125         136 NIPFFETSAKQSINVEEAFILLVKLIIKRL  165 (188)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            889999999999999999999999987654

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.

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

Probab=99.80  E-value=2e-19  Score=119.25  Aligned_cols=106  Identities=36%  Similarity=0.561  Sum_probs=97.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-|||++.+..||++++. ++++||+.+ .||++++.|+.+|.++....+.+.+++||+|+. .++.+..+....+++.+
T Consensus        56 gqerfrsvt~ayyrda~a-llllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a-~er~v~~ddg~kla~~y  133 (192)
T KOG0083|consen   56 GQERFRSVTHAYYRDADA-LLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLA-HERAVKRDDGEKLAEAY  133 (192)
T ss_pred             chHHHhhhhHhhhcccce-eeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccc-hhhccccchHHHHHHHH
Confidence            578999999999999866 799999998 999999999999999887889999999999997 56778888889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++|+.++|||||.||+..|-.|++.+...
T Consensus       134 ~ipfmetsaktg~nvd~af~~ia~~l~k~  162 (192)
T KOG0083|consen  134 GIPFMETSAKTGFNVDLAFLAIAEELKKL  162 (192)
T ss_pred             CCCceeccccccccHhHHHHHHHHHHHHh
Confidence            99999999999999999999999988654

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.80  E-value=8.9e-19  Score=124.27  Aligned_cols=103  Identities=20%  Similarity=0.339  Sum_probs=88.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..+++.||++++. +++|||+++ .||+.+ ..|+.++.+.. ++.|+++||||.||.+.           .+.+
T Consensus        62 G~e~~~~~~~~~~~~ad~-~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v  139 (182)
T cd04172          62 GSPYYDNVRPLSYPDSDA-VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPV  139 (182)
T ss_pred             CchhhHhhhhhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCC
Confidence            568899999999998866 788999998 999997 79999998765 57899999999998621           2357


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDI  109 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i  109 (149)
                      ..+++..+++..+. +++++||++|.| |+++|..+++..
T Consensus       140 ~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~  179 (182)
T cd04172         140 SYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  179 (182)
T ss_pred             CHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHH
Confidence            78889999999995 899999999998 999999998854

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.79  E-value=4.8e-18  Score=120.89  Aligned_cols=131  Identities=23%  Similarity=0.378  Sum_probs=96.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC---CCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES---KRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~---~~~~~~~~~~~~~   80 (149)
                      |.++|..++..+|++++. +++|||+++ .+|+.+..|+..+.... .++|+++|+||+|+.+.   ...+...++..++
T Consensus        59 G~~~~~~~~~~~~~~~d~-iilv~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~  136 (193)
T cd04118          59 GSERYEAMSRIYYRGAKA-AIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFA  136 (193)
T ss_pred             CchhhhhhhHhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHH
Confidence            457888898888876654 788999987 89999999999987653 47899999999998621   1234445566677


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCcccccCCCCCCCCCCCCCCCCcc
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC  146 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cc  146 (149)
                      ...+.+++++||++|.|++++|+++++.+.....+....  .++++++..       +.+..++||
T Consensus       137 ~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~~~~~~~--~~~~~~~~~-------~~~~~~~~~  193 (193)
T cd04118         137 DEIKAQHFETSSKTGQNVDELFQKVAEDFVSRANNQMNT--EKGVDLGQK-------KNSYFYSCC  193 (193)
T ss_pred             HHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhcccccCC--CCccccCCc-------CCCCCCCCC
Confidence            777888999999999999999999999887653222111  144444433       235667888

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

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

Probab=99.79  E-value=1.7e-19  Score=121.68  Aligned_cols=106  Identities=32%  Similarity=0.508  Sum_probs=94.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-|||++++..||+.++. +|+|||++= ++|+.+..|+.+|.++...++-.|+||||+|+. +.++++......+.+..
T Consensus        65 gqerfrsitqsyyrsaha-lilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~-drrevp~qigeefs~~q  142 (213)
T KOG0095|consen   65 GQERFRSITQSYYRSAHA-LILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLA-DRREVPQQIGEEFSEAQ  142 (213)
T ss_pred             chHHHHHHHHHHhhhcce-EEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchh-hhhhhhHHHHHHHHHhh
Confidence            568999999999999866 799999996 899999999999999988888999999999997 77788888888888887


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+-++++||+...|++.||..++..+...
T Consensus       143 dmyfletsakea~nve~lf~~~a~rli~~  171 (213)
T KOG0095|consen  143 DMYFLETSAKEADNVEKLFLDLACRLISE  171 (213)
T ss_pred             hhhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            77889999999999999999999766544

>cd04109 Rab28 Rab28 subfamily

Probab=99.79  E-value=2.8e-18  Score=124.49  Aligned_cols=106  Identities=22%  Similarity=0.297  Sum_probs=89.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|..++..|+++++. +++|||+++ ++|+.+..|+..+.+...   .++|+++|+||.|+. ..+.+.......++
T Consensus        59 G~~~~~~l~~~~~~~ad~-iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~-~~~~v~~~~~~~~~  136 (215)
T cd04109          59 GQSIGGKMLDKYIYGAHA-VFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLE-HNRTVKDDKHARFA  136 (215)
T ss_pred             CcHHHHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccc-cccccCHHHHHHHH
Confidence            346778889999887755 788999998 899999999999987542   457899999999997 55667777888888


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.++.+++++||++|.|++++|++|++.+...
T Consensus       137 ~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         137 QANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             HHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            88889999999999999999999999988754

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd04131 Rnd Rnd subfamily

Probab=99.78  E-value=2.4e-18  Score=121.62  Aligned_cols=104  Identities=21%  Similarity=0.324  Sum_probs=88.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|.++++.||++++. +++|||+++ .||+.+ ..|+.++.+.. +++|+++||||.||.+.           .+.+
T Consensus        58 G~~~~~~~~~~~~~~a~~-~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v  135 (178)
T cd04131          58 GSPYYDNVRPLCYPDSDA-VLICFDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPV  135 (178)
T ss_pred             CchhhhhcchhhcCCCCE-EEEEEECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCC
Confidence            567899999999988866 789999998 999996 79999998765 57899999999999621           2347


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDIK  110 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i~  110 (149)
                      ..+++..+++.++. +++++||++|.+ |+++|..+++...
T Consensus       136 ~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         136 SYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            77889999999996 899999999995 9999999998543

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04117 Rab15 Rab15 subfamily

Probab=99.78  E-value=3.2e-18  Score=118.73  Aligned_cols=102  Identities=33%  Similarity=0.568  Sum_probs=88.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..+++.|+++++. +++|||+++ .+|+.+..|+.++......++|+++|+||.|+. ..+.+...++..+++..
T Consensus        58 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~~~~~~~~~~~  135 (161)
T cd04117          58 GQERYQTITKQYYRRAQG-IFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEE-QKRQVGDEQGNKLAKEY  135 (161)
T ss_pred             CcHhHHhhHHHHhcCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            457889999999987755 789999998 899999999999887665679999999999997 55667778888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +.+++++||++|.|++++|.+|+++
T Consensus       136 ~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         136 GMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            8999999999999999999999875

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

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

Probab=99.78  E-value=4.4e-18  Score=122.40  Aligned_cols=103  Identities=23%  Similarity=0.416  Sum_probs=87.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.+++.||++++. +++|||+++ .+|..+..|+.++.+.. .++|+++||||+|+. . +.+.... ..++...
T Consensus        53 G~e~~~~l~~~~~~~ad~-~ilV~D~t~~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~-~-~~v~~~~-~~~~~~~  127 (200)
T smart00176       53 GQEKFGGLRDGYYIQGQC-AIIMFDVTARVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVK-D-RKVKAKS-ITFHRKK  127 (200)
T ss_pred             CchhhhhhhHHHhcCCCE-EEEEEECCChHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-c-ccCCHHH-HHHHHHc
Confidence            568999999999998866 788899998 89999999999998765 579999999999986 3 3344433 3567778


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++.++++||++|.||.++|.+|++.+.+.
T Consensus       128 ~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176      128 NLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            89999999999999999999999988654

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.77  E-value=4.6e-18  Score=119.52  Aligned_cols=106  Identities=32%  Similarity=0.539  Sum_probs=90.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|++++++ +++|||+++ .+|..+..|+.++.... ..+.|+++|+||+|+. ..+.+...++..+++.
T Consensus        72 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~v~~~~~~~~~~~  149 (180)
T cd04127          72 GQERFRSLTTAFFRDAMG-FLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLE-DQRQVSEEQAKALADK  149 (180)
T ss_pred             ChHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccch-hcCccCHHHHHHHHHH
Confidence            346788899999988755 789999997 99999999999987754 3578999999999997 5556667778888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+.+++++||++|.|++++|++|++.+.++
T Consensus       150 ~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         150 YGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            899999999999999999999999888654

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.76  E-value=1.2e-17  Score=116.07  Aligned_cols=105  Identities=33%  Similarity=0.532  Sum_probs=88.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|+.+..|+..+.+.....+|+++|+||+|+. ..+.+.......++...
T Consensus        59 g~~~~~~~~~~~~~~~~~-~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~-~~~~~~~~~~~~~~~~~  136 (165)
T cd01865          59 GQERYRTITTAYYRGAMG-FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDME-DERVVSSERGRQLADQL  136 (165)
T ss_pred             ChHHHHHHHHHHccCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccC-cccccCHHHHHHHHHHc
Confidence            457788899999888766 788889987 999999999999977665678999999999997 44555566777778888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++++++||++|.|++++|+++++.+.+
T Consensus       137 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         137 GFEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            8899999999999999999999987653

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.76  E-value=1.7e-17  Score=114.46  Aligned_cols=103  Identities=36%  Similarity=0.545  Sum_probs=86.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|++++++ +++|||+++ .+|+.+..|+..+..... .++|+++|+||+|+. ..+.+.......+++.
T Consensus        58 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  135 (163)
T cd04136          58 GTEQFTAMRDLYIKNGQG-FVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLE-DERVVSREEGQALARQ  135 (163)
T ss_pred             CccccchHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceecHHHHHHHHHH
Confidence            457899999999988766 788889987 899999999999877543 578999999999997 4455555666677777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ++.+++++||++|.|++++|.++++.+
T Consensus       136 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         136 WGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             cCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            788999999999999999999998754

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.

>cd04128 Spg1 Spg1p

Probab=99.76  E-value=1.6e-17  Score=117.77  Aligned_cols=106  Identities=16%  Similarity=0.248  Sum_probs=84.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC----CCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES----KRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~----~~~~~~~~~~~~   79 (149)
                      +.++|.++++.|+++++. +++|||+++ .+|+.+..|+.++.+.....+| ++|+||+|+...    .......+...+
T Consensus        58 G~~~~~~~~~~~~~~a~~-iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~  135 (182)
T cd04128          58 GQREFINMLPLVCNDAVA-ILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKY  135 (182)
T ss_pred             CchhHHHhhHHHCcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHH
Confidence            567899999999888755 788899998 8999999999999876545567 678999998511    111123455667


Q ss_pred             HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           80 ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++..+.+++++||++|.|++++|.++++.+.+.
T Consensus       136 a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~~  168 (182)
T cd04128         136 AKAMKAPLIFCSTSHSINVQKIFKIVLAKAFDL  168 (182)
T ss_pred             HHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            778888999999999999999999999988754

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.76  E-value=2e-17  Score=114.64  Aligned_cols=103  Identities=31%  Similarity=0.530  Sum_probs=86.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|.+++..|+++++. +++|||+++ .+|+.+..|+..+.... ..++|+++|+||.|+. ....+....+..+++.
T Consensus        58 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  135 (164)
T cd04175          58 GTEQFTAMRDLYMKNGQG-FVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQ  135 (164)
T ss_pred             CcccchhHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcch-hccEEcHHHHHHHHHH
Confidence            457899999999999876 688889987 89999999999987643 3679999999999997 4445555666677778


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||++|.|++++|.++++.+
T Consensus       136 ~~~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         136 WGCAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             hCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            888999999999999999999999765

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

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

Probab=99.75  E-value=2.8e-17  Score=113.52  Aligned_cols=104  Identities=24%  Similarity=0.473  Sum_probs=93.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|.+++..++++.+. ++++||+++ .||+.+..|+..+....+.++|+++||||.|+. ..+.+..+++..++..+
T Consensus        57 g~~~~~~~~~~~~~~~~~-~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~-~~~~v~~~~~~~~~~~~  134 (162)
T PF00071_consen   57 GQERFDSLRDIFYRNSDA-IIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLS-DEREVSVEEAQEFAKEL  134 (162)
T ss_dssp             TSGGGHHHHHHHHTTESE-EEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGG-GGSSSCHHHHHHHHHHT
T ss_pred             cccccccccccccccccc-ccccccccccccccccccccccccccccccccceeeecccccc-ccccchhhHHHHHHHHh
Confidence            567888889888888876 789999998 999999999999998876679999999999997 56778888899999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.+++++||+++.||.++|..+++.+.
T Consensus       135 ~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  135 GVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             TSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999998774

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 ....

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.75  E-value=2.8e-17  Score=116.35  Aligned_cols=108  Identities=20%  Similarity=0.327  Sum_probs=87.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC---CCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES---KRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~---~~~~~~~~~~~~   79 (149)
                      |.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+...   .+.+...++..+
T Consensus        58 G~~~~~~~~~~~~~~ad~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~  135 (187)
T cd04132          58 GQEEYDRLRPLSYPDVDV-LLICYAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESV  135 (187)
T ss_pred             CchhHHHHHHHhCCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHH
Confidence            457788898888887765 788899998 8999985 6988876543 57899999999998621   123556677788


Q ss_pred             HHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           80 ADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        80 ~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +...+. +++++||++|.|++++|..+++.+.....
T Consensus       136 ~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~  171 (187)
T cd04132         136 AKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEG  171 (187)
T ss_pred             HHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhh
Confidence            888887 89999999999999999999998876643

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.75  E-value=2.6e-17  Score=114.61  Aligned_cols=105  Identities=50%  Similarity=0.819  Sum_probs=89.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..+++..
T Consensus        61 g~~~~~~~~~~~~~~ad~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~  138 (167)
T cd01867          61 GQERFRTITTAYYRGAMG-IILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDME-EKRVVSKEEGEALADEY  138 (167)
T ss_pred             chHHHHHHHHHHhCCCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            346788888888877655 888999987 999999999999987665679999999999997 45556667777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|.++++.+..
T Consensus       139 ~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         139 GIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            8899999999999999999999988754

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.75  E-value=1.7e-17  Score=120.83  Aligned_cols=104  Identities=23%  Similarity=0.407  Sum_probs=86.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..||++++. +++|||+++ .+|..+..|+.++.+.. +++|+++||||+|+. . +.+..... .+.+..
T Consensus        71 G~~~~~~~~~~~~~~~~~-~ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~-~-~~v~~~~~-~~~~~~  145 (219)
T PLN03071         71 GQEKFGGLRDGYYIHGQC-AIIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVK-N-RQVKAKQV-TFHRKK  145 (219)
T ss_pred             CchhhhhhhHHHcccccE-EEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhh-h-ccCCHHHH-HHHHhc
Confidence            457899999999888766 788899998 99999999999998765 579999999999986 2 33334444 566777


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|.+|++.+.+..
T Consensus       146 ~~~~~e~SAk~~~~i~~~f~~l~~~~~~~~  175 (219)
T PLN03071        146 NLQYYEISAKSNYNFEKPFLYLARKLAGDP  175 (219)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHHHHcCc
Confidence            889999999999999999999999886553

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.74  E-value=3.2e-17  Score=113.81  Aligned_cols=104  Identities=41%  Similarity=0.645  Sum_probs=88.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||.++ ++|..+..|+.++......+.|+++|+||.|+. ....+....+..++...
T Consensus        60 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~  137 (166)
T cd01869          60 GQERFRTITSSYYRGAHG-IIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-DKRVVDYSEAQEFADEL  137 (166)
T ss_pred             CcHhHHHHHHHHhCcCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence            457888899888887655 788889987 899999999999877654678999999999987 55556667778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.+++++||++|.|++++|..+++.+.
T Consensus       138 ~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869         138 GIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             CCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            899999999999999999999998774

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.74  E-value=3.3e-17  Score=116.61  Aligned_cols=104  Identities=24%  Similarity=0.325  Sum_probs=83.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR------------A   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~   70 (149)
                      |.++|..+++.||++++. +++|||+++ .+|+.+. .|+..+.... ++.|+++|+||+|+. ...            .
T Consensus        57 G~~~~~~l~~~~~~~a~~-~ilv~dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~-~~~~~~~~~~~~~~~~  133 (189)
T cd04134          57 GQEEFDRLRSLSYADTDV-IMLCFSVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLR-EARNERDDLQRYGKHT  133 (189)
T ss_pred             CChhccccccccccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhc-cChhhHHHHhhccCCC
Confidence            457899999998877655 889999998 8999886 6999887654 578999999999996 222            2


Q ss_pred             CCHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        71 ~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +...+...++...+ .+++++||++|.|++++|.+|++.+..
T Consensus       134 v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         134 ISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVALN  175 (189)
T ss_pred             CCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence            34455566777766 689999999999999999999988853

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.74  E-value=2.5e-17  Score=118.08  Aligned_cols=96  Identities=27%  Similarity=0.390  Sum_probs=80.6

Q ss_pred             ccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC------------------CCC
Q 032001           11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES------------------KRA   70 (149)
Q Consensus        11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~------------------~~~   70 (149)
                      .+++.||++++. +++|||+++ .||+.+. .|+.++.... +++|+++||||+||...                  .+.
T Consensus        79 ~~~~~~~~~ad~-iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~  156 (195)
T cd01873          79 KDRRFAYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADI  156 (195)
T ss_pred             hhhcccCCCCCE-EEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCc
Confidence            456677776655 899999998 8999996 6999987765 57899999999998621                  356


Q ss_pred             CCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +..+++..+++.++.+++++||++|.||+++|..+++.
T Consensus       157 V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         157 LPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             cCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            77888999999999999999999999999999999863

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.74  E-value=3.2e-17  Score=115.42  Aligned_cols=102  Identities=20%  Similarity=0.353  Sum_probs=84.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..++..||++++. +++|||+++ .+|+.+. .|+.++.... +++|+++|+||.|+...           .+.+
T Consensus        58 G~~~~~~~~~~~~~~a~~-~ilv~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v  135 (175)
T cd01874          58 GQEDYDRLRPLSYPQTDV-FLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPI  135 (175)
T ss_pred             CccchhhhhhhhcccCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCc
Confidence            558899999999988755 899999998 8999996 6988887654 57899999999998621           1455


Q ss_pred             CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ..+++..+++..+ ..++++||++|.|++++|+.++..
T Consensus       136 ~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~  173 (175)
T cd01874         136 TPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILA  173 (175)
T ss_pred             CHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHH
Confidence            6677777888777 689999999999999999999874

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.74  E-value=4.9e-17  Score=112.46  Aligned_cols=103  Identities=32%  Similarity=0.483  Sum_probs=85.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|++++++ +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||+|+. ....+.......++..
T Consensus        58 G~~~~~~~~~~~~~~ad~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~-~~~~~~~~~~~~~~~~  135 (163)
T cd04176          58 GTEQFASMRDLYIKNGQG-FIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLE-SEREVSSAEGRALAEE  135 (163)
T ss_pred             CcccccchHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccch-hcCccCHHHHHHHHHH
Confidence            457899999999998766 778889998 89999999999987743 2679999999999986 4445555566677777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||++|.|++++|.++++.+
T Consensus       136 ~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         136 WGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             hCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            788999999999999999999998754

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.73  E-value=8.7e-17  Score=111.75  Aligned_cols=102  Identities=27%  Similarity=0.344  Sum_probs=83.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|..++..++..++. +++|||+++ .+|+.+..|+..+.+...   .++|+++|+||.|+. ..+.+....+..++
T Consensus        58 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~  135 (165)
T cd04140          58 GSHQFPAMQRLSISKGHA-FILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDES-HKREVSSNEGAACA  135 (165)
T ss_pred             CCCcchHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECcccc-ccCeecHHHHHHHH
Confidence            567888888888887655 788899998 999999999988876432   578999999999997 44555666666777


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ...+.+++++||++|.|++++|++|+++
T Consensus       136 ~~~~~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         136 TEWNCAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             HHhCCcEEEeecCCCCCHHHHHHHHHhc
Confidence            7778899999999999999999999853

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

>cd01868 Rab11_like Rab11-like

Probab=99.72  E-value=7.9e-17  Score=111.64  Aligned_cols=103  Identities=31%  Similarity=0.548  Sum_probs=86.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..+++.++.+++. +++|||+++ .+|..+..|+.++.+....++|+++|+||.|+. ..+.+..++...++...
T Consensus        61 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~-~~~~~~~~~~~~~~~~~  138 (165)
T cd01868          61 GQERYRAITSAYYRGAVG-ALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTEEAKAFAEKN  138 (165)
T ss_pred             ChHHHHHHHHHHHCCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccccCCHHHHHHHHHHc
Confidence            345678888888886654 788889987 899999999999988765679999999999997 54556666777777777


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.|++++|+++++.+
T Consensus       139 ~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         139 GLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            88999999999999999999998765

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.72  E-value=2.1e-16  Score=115.39  Aligned_cols=107  Identities=21%  Similarity=0.296  Sum_probs=86.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~   71 (149)
                      |.+.|..+++.||++++. +++|||+++ ++|+.+ ..|..++.... +++|+|+||||+||....           ..+
T Consensus        58 G~e~~~~l~~~~~~~~d~-illvfdis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pI  135 (222)
T cd04173          58 GSSYYDNVRPLAYPDSDA-VLICFDISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPV  135 (222)
T ss_pred             CcHHHHHHhHHhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCcc
Confidence            457899999999988866 789999998 999998 56777765544 679999999999996210           125


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHHHHHh
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDIKQRL  113 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i~~~~  113 (149)
                      ..++...+++..+. +|+++||+++.+ |+++|..++.....+.
T Consensus       136 s~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         136 THEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             CHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence            56778889999885 899999999985 9999999998776654

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

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

Probab=99.72  E-value=1.4e-16  Score=109.54  Aligned_cols=102  Identities=36%  Similarity=0.594  Sum_probs=85.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.+... .++|+++|+||+|+. . +.+....+..+++.
T Consensus        58 G~~~~~~l~~~~~~~~~~-~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~-~-~~~~~~~~~~~~~~  134 (162)
T cd04138          58 GQEEYSAMRDQYMRTGEG-FLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLA-A-RTVSSRQGQDLAKS  134 (162)
T ss_pred             CCcchHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-c-ceecHHHHHHHHHH
Confidence            457899999999998765 788889987 899999999999877543 578999999999997 3 44555666777777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||++|.|++++|+++++.+
T Consensus       135 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         135 YGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             hCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            888999999999999999999998754

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.

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

Probab=99.72  E-value=1.6e-16  Score=110.85  Aligned_cols=102  Identities=26%  Similarity=0.425  Sum_probs=83.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..++..+|..+++ +++|||+++ .+|..+..|+.++....+ ++|+++|+||+|+. . +.+. .....+.+..
T Consensus        58 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~-~-~~~~-~~~~~~~~~~  132 (166)
T cd00877          58 GQEKFGGLRDGYYIGGQC-AIIMFDVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIK-D-RKVK-AKQITFHRKK  132 (166)
T ss_pred             CChhhccccHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcc-c-ccCC-HHHHHHHHHc
Confidence            456788888888887655 788889998 999999999999988663 79999999999996 2 3333 3344566667


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|++|++.+.+
T Consensus       133 ~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877         133 NLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             CCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            7899999999999999999999988864

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.72  E-value=9.1e-17  Score=113.01  Aligned_cols=102  Identities=25%  Similarity=0.389  Sum_probs=83.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..+++.||++++. +++|||+++ ++|+.+. .|+..+.... +++|+++|+||+|+.+.           .+.+
T Consensus        58 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v  135 (174)
T cd01871          58 GQEDYDRLRPLSYPQTDV-FLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPI  135 (174)
T ss_pred             CchhhhhhhhhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCC
Confidence            457899999999887655 889999998 9999995 6988887654 57999999999999621           1246


Q ss_pred             CHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        72 ~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ...++..+++.++ .+++++||++|.|++++|+.+++.
T Consensus       136 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         136 TYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             CHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            6777888888888 489999999999999999999864

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.72  E-value=1.5e-16  Score=111.40  Aligned_cols=105  Identities=20%  Similarity=0.286  Sum_probs=85.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRA--VPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~   80 (149)
                      |.++|..++..+|++++. +++|||+++ .+|..+..|+.++.+. .+.++|+++|+||.|+. ....  .....+..++
T Consensus        58 G~~~~~~~~~~~~~~ad~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~-~~~~~~~~~~~~~~~~  135 (170)
T cd04108          58 GQERFKCIASTYYRGAQA-IIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLS-SPAQYALMEQDAIKLA  135 (170)
T ss_pred             ChHHHHhhHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcC-ccccccccHHHHHHHH
Confidence            457899999999998766 788899987 8999999999998664 33457899999999986 3222  2345566777


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ...+.+++++||++|.|++++|+.|++.+.+
T Consensus       136 ~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         136 AEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             HHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            7778899999999999999999999988754

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.72  E-value=1.8e-16  Score=110.57  Aligned_cols=105  Identities=33%  Similarity=0.574  Sum_probs=89.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++.+. +++|||+++ .+|..+..|+.+++....+++|+++|+||+|+. ....+.......++...
T Consensus        62 G~~~~~~~~~~~~~~~d~-il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~-~~~~~~~~~~~~~~~~~  139 (168)
T cd01866          62 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE-SRREVSYEEGEAFAKEH  139 (168)
T ss_pred             CcHHHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            456788889989887655 788889987 999999999999987665689999999999987 44556667777788888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +..++++||+++.|++++|..+++.+.+
T Consensus       140 ~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         140 GLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            8999999999999999999999988754

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

>PLN03118 Rab family protein; Provisional

Probab=99.71  E-value=5.4e-16  Score=112.10  Aligned_cols=106  Identities=33%  Similarity=0.447  Sum_probs=85.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      |.++|..++..|+++++. +++|||.++ .+|..+.. |...+.... ..+.|+++|+||+|+. ..+.+.......++.
T Consensus        71 G~~~~~~~~~~~~~~~d~-~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~-~~~~i~~~~~~~~~~  148 (211)
T PLN03118         71 GQERFRTLTSSYYRNAQG-IILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRE-SERDVSREEGMALAK  148 (211)
T ss_pred             CchhhHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccCccCHHHHHHHHH
Confidence            457888999999988755 788889998 89999875 666655433 2467999999999997 445566667777777


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+.+++++||+++.|++++|++|++.+.+.
T Consensus       149 ~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        149 EHGCLFLECSAKTRENVEQCFEELALKIMEV  179 (211)
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            8888999999999999999999999988764

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.71  E-value=2.5e-16  Score=108.90  Aligned_cols=104  Identities=34%  Similarity=0.554  Sum_probs=86.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|..++..+++++++ +++|||+++ ++|+.+..|...+.+.. ..++|+++|+||+|+. ..+.+....+..+++.
T Consensus        57 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~-~~~~~~~~~~~~~~~~  134 (164)
T smart00173       57 GQEEFSAMRDQYMRTGEG-FLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLE-SERVVSTEEGKELARQ  134 (164)
T ss_pred             CcccchHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceEcHHHHHHHHHH
Confidence            346888999999998766 688889987 89999999998886643 2578999999999997 4445556666777788


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+.+++++||++|.|++++|++|++.+.
T Consensus       135 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      135 WGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             cCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            8899999999999999999999998764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.71  E-value=1.6e-16  Score=109.60  Aligned_cols=101  Identities=22%  Similarity=0.346  Sum_probs=86.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.... .++|+++|+||+|+. ....+...++..+++..
T Consensus        60 G~~~~~~~~~~~~~~~~~-~v~v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~-~~~~v~~~~~~~~~~~~  136 (162)
T cd04106          60 GQEEFDAITKAYYRGAQA-CILVFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLL-DQAVITNEEAEALAKRL  136 (162)
T ss_pred             chHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcc-cccCCCHHHHHHHHHHc
Confidence            457899999999987755 788889987 89999999999987654 579999999999997 45566667777888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +.+++++||++|.|++++|++|+..
T Consensus       137 ~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         137 QLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            9999999999999999999999864

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.71  E-value=1.9e-16  Score=109.39  Aligned_cols=104  Identities=25%  Similarity=0.445  Sum_probs=86.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-----CCCeEEEEeeCCCCCcCCCCCCHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-----DNVNKVLVGNKADMDESKRAVPTSKGQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-----~~~~iilv~nK~Dl~~~~~~~~~~~~~~   78 (149)
                      |.++|..+++.+++++++ +++|||.++ .+|..+..|+.++.....     .+.|+++|+||+|+. ....+.......
T Consensus        58 G~~~~~~~~~~~~~~~d~-~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~  135 (168)
T cd04119          58 GHPEYLEVRNEFYKDTQG-VLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLT-KHRAVSEDEGRL  135 (168)
T ss_pred             ccHHHHHHHHHHhccCCE-EEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcc-cccccCHHHHHH
Confidence            346788888888888765 788889987 899999999999987653     468999999999986 445556667777


Q ss_pred             HHHHhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           79 LADEYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        79 ~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++...+.+++++||++|.|++++|++|++.+.
T Consensus       136 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         136 WAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             HHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            78888889999999999999999999998764

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.

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

Probab=99.71  E-value=2.7e-16  Score=108.59  Aligned_cols=103  Identities=29%  Similarity=0.437  Sum_probs=85.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+.+.. ..++|+++|+||+|+. ....+.......+++.
T Consensus        59 G~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~-~~~~~~~~~~~~~~~~  136 (164)
T cd04145          59 GQEEFSAMREQYMRTGEG-FLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLE-HQRKVSREEGQELARK  136 (164)
T ss_pred             CCcchhHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccc-ccceecHHHHHHHHHH
Confidence            446888999999988765 778889987 89999999999987643 3578999999999997 4445556667777777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||++|.|++++|++|++.+
T Consensus       137 ~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         137 LKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             cCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            888999999999999999999998754

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

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

Probab=99.70  E-value=2.7e-16  Score=109.85  Aligned_cols=104  Identities=25%  Similarity=0.360  Sum_probs=84.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+...           ...+
T Consensus        55 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  132 (174)
T smart00174       55 GQEDYDRLRPLSYPDTDV-FLICFSVDSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPV  132 (174)
T ss_pred             CCcccchhchhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCc
Confidence            457788889888887655 889999998 8999985 6999887755 57999999999998621           1225


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ...++..+++..+. +++++||++|.|++++|+.+++.+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      133 TYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             cHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            56667778888885 8999999999999999999998763

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.69  E-value=3.1e-16  Score=108.24  Aligned_cols=102  Identities=32%  Similarity=0.467  Sum_probs=86.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++.+. +++|||+++ .+|..+..|+..+.....+++|+++|+||.|+. ..+.+...++..++...
T Consensus        58 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~  135 (161)
T cd04113          58 GQERFRSVTRSYYRGAAG-ALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLA-DQREVTFLEASRFAQEN  135 (161)
T ss_pred             chHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-hhccCCHHHHHHHHHHc
Confidence            346778888888887755 788889997 899999999999877666789999999999997 45556677778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +.+++++||+++.|++++|+++++.
T Consensus       136 ~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         136 GLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            8999999999999999999999875

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

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

Probab=99.69  E-value=6.9e-16  Score=110.60  Aligned_cols=104  Identities=33%  Similarity=0.517  Sum_probs=93.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      +.|..|+..|++++++ +++||++++ .||+.+..+++.|.+ .....+|+++||||+|+. ..+.+..++...++..++
T Consensus        62 ~~~~~~~~~~~~~~~g-F~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~-~~R~V~~eeg~~la~~~~  139 (196)
T KOG0395|consen   62 EEFSAMRDLYIRNGDG-FLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLE-RERQVSEEEGKALARSWG  139 (196)
T ss_pred             ccChHHHHHhhccCcE-EEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccch-hccccCHHHHHHHHHhcC
Confidence            5788899999999977 699999998 999999999999955 334678999999999998 668999999999999999


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+++++||+.+.+++++|..|++.+...
T Consensus       140 ~~f~E~Sak~~~~v~~~F~~L~r~~~~~  167 (196)
T KOG0395|consen  140 CAFIETSAKLNYNVDEVFYELVREIRLP  167 (196)
T ss_pred             CcEEEeeccCCcCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999988764

>cd01864 Rab19 Rab19 subfamily

Probab=99.69  E-value=4e-16  Score=108.24  Aligned_cols=102  Identities=29%  Similarity=0.483  Sum_probs=84.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..+++..
T Consensus        61 G~~~~~~~~~~~~~~~d~-~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~-~~~~~~~~~~~~~~~~~  138 (165)
T cd01864          61 GQERFRTITQSYYRSANG-AIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLE-EQREVLFEEACTLAEKN  138 (165)
T ss_pred             ChHHHHHHHHHHhccCCE-EEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            346788888888887755 788889998 899999999999987655689999999999997 44555666777777777


Q ss_pred             CC-cEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GI-KFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~-~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +. .++++||++|.|++++|..+++.
T Consensus       139 ~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         139 GMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            75 78999999999999999999864

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.68  E-value=7e-16  Score=106.92  Aligned_cols=101  Identities=17%  Similarity=0.289  Sum_probs=83.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.|+++++. +++|||.++ .+|..+..|+..+.+.. +++|+++|+||+|+. .  .. ......++...
T Consensus        58 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~-~--~~-~~~~~~~~~~~  131 (161)
T cd04124          58 GQERFQTMHASYYHKAHA-CILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLD-P--SV-TQKKFNFAEKH  131 (161)
T ss_pred             CchhhhhhhHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCc-h--hH-HHHHHHHHHHc
Confidence            568899999999998866 788889987 89999999999997654 578999999999985 2  11 23344556667


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|+.+++.+.+
T Consensus       132 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  159 (161)
T cd04124         132 NLPLYYVSAADGTNVVKLFQDAIKLAVS  159 (161)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            7899999999999999999999988765

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.68  E-value=5.6e-16  Score=107.93  Aligned_cols=101  Identities=29%  Similarity=0.403  Sum_probs=84.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.++|..++..|+++++. +++|||+++ .+|+.+..|..++....    ..++|+++|+||+|+.  .+.+...++..+
T Consensus        63 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~  139 (170)
T cd04116          63 GQERFRSLRTPFYRGSDC-CLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP--ERQVSTEEAQAW  139 (170)
T ss_pred             ChHHHHHhHHHHhcCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc--ccccCHHHHHHH
Confidence            457899999999987765 789999997 89999999999887643    2568999999999986  355666777888


Q ss_pred             HHHhC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           80 ADEYG-IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ++.++ .+++++||++|.|+.++|..+++.
T Consensus       140 ~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         140 CRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             HHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            88877 479999999999999999999864

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.68  E-value=1.2e-15  Score=108.35  Aligned_cols=106  Identities=25%  Similarity=0.396  Sum_probs=83.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC---------CCCCCH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES---------KRAVPT   73 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~---------~~~~~~   73 (149)
                      +.++|..+++.++++++ +++++|++++ ++|..+. .|+..+.+.. +++|+++|+||+|+...         .+.+..
T Consensus        58 g~~~~~~~~~~~~~~a~-~~llv~~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~  135 (187)
T cd04129          58 GQEEYERLRPLSYSKAH-VILIGFAVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPI  135 (187)
T ss_pred             CChhccccchhhcCCCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCH
Confidence            45667777777776665 4788899997 8999986 6999887655 46999999999998521         233445


Q ss_pred             HHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           74 SKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        74 ~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+..+++..+. ++|++||++|.|++++|+++++.+...
T Consensus       136 ~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  175 (187)
T cd04129         136 QQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALLV  175 (187)
T ss_pred             HHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhcc
Confidence            667778888885 899999999999999999999877544

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).

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.68  E-value=9.3e-16  Score=105.77  Aligned_cols=104  Identities=37%  Similarity=0.608  Sum_probs=87.2

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      .++|..++..++++++. +++|||+++ .+++.+..|+..+..+..+++|+++|+||+|+. ....+.......+.+..+
T Consensus        59 ~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~-~~~~~~~~~~~~~~~~~~  136 (164)
T smart00175       59 QERFRSITSSYYRGAVG-ALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLE-DQRQVSREEAEAFAEEHG  136 (164)
T ss_pred             hHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-cccCCCHHHHHHHHHHcC
Confidence            45677888888877655 788889987 899999999999888765689999999999987 434556666777788888


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++||++|.|++++|+.+.+.+.+
T Consensus       137 ~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      137 LPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999999999999999988754

Rab GTPases are implicated in vesicle trafficking.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.67  E-value=7.7e-16  Score=106.78  Aligned_cols=93  Identities=19%  Similarity=0.388  Sum_probs=76.0

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCc-CCCCCCHHHHHHHHHHh-CCcEEEe
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDE-SKRAVPTSKGQALADEY-GIKFFET   90 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~-~~~~~~~~~~~~~~~~~-~~~~~~~   90 (149)
                      .|++ ..+++++|||+++ .||..+..|+.++..... .++|+++||||.|+.. ..+.+...++..+++.. +..++++
T Consensus        61 ~~~~-~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~  139 (158)
T cd04103          61 QFAS-WVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYET  139 (158)
T ss_pred             hHHh-cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEE
Confidence            3444 4566899999998 999999999999987643 5789999999999841 24567777777888776 4899999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~  108 (149)
                      ||++|.||+++|..+++.
T Consensus       140 SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         140 CATYGLNVERVFQEAAQK  157 (158)
T ss_pred             ecCCCCCHHHHHHHHHhh
Confidence            999999999999999864

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.67  E-value=1.2e-15  Score=105.33  Aligned_cols=103  Identities=39%  Similarity=0.602  Sum_probs=87.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++.+. +++|+|.++ .+|.....|+..+.......+|+++++||+|+. ..+.........+....
T Consensus        59 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~~~~~~~~~~~~~~  136 (163)
T cd01860          59 GQERYRSLAPMYYRGAAA-AIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE-SKRQVSTEEAQEYADEN  136 (163)
T ss_pred             chHHHHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-ccCcCCHHHHHHHHHHc
Confidence            457888899888887755 788889887 899999999999987665679999999999987 44555666777778888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.|++++|++|++.+
T Consensus       137 ~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         137 GLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            89999999999999999999999875

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.66  E-value=2.4e-15  Score=111.43  Aligned_cols=104  Identities=21%  Similarity=0.225  Sum_probs=82.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh---------cCCCCeEEEEeeCCCCCcCCCCCCHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH---------ASDNVNKVLVGNKADMDESKRAVPTS   74 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~---------~~~~~~iilv~nK~Dl~~~~~~~~~~   74 (149)
                      |.+.|..++..|+.+++. +|+|||+++ ++|+.+..|++++...         ...++|+|+|+||+|+. ..+.+...
T Consensus        57 G~~~~~~~~~~~~~~ad~-iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~-~~~~v~~~  134 (247)
T cd04143          57 GNHPFPAMRRLSILTGDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRD-FPREVQRD  134 (247)
T ss_pred             CChhhhHHHHHHhccCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccch-hccccCHH
Confidence            446777888888777654 789999998 9999999999998653         22578999999999997 44556666


Q ss_pred             HHHHHHHH-hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           75 KGQALADE-YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        75 ~~~~~~~~-~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++..++.. .+..++++||++|.|++++|++|++...
T Consensus       135 ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~~  171 (247)
T cd04143         135 EVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAK  171 (247)
T ss_pred             HHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHhc
Confidence            66666553 3578999999999999999999998663

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.66  E-value=1.3e-15  Score=105.27  Aligned_cols=102  Identities=26%  Similarity=0.428  Sum_probs=83.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++.+++. +++|||+++ .+|..+..|+..+.+.. .++|+++|+||+|+. ....+....+..+....
T Consensus        61 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~  137 (164)
T cd04101          61 GQELYSDMVSNYWESPSV-FILVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLA-DKAEVTDAQAQAFAQAN  137 (164)
T ss_pred             CHHHHHHHHHHHhCCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            346778888888876655 788899997 89999999999987754 568999999999996 44555555556666677


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.|++++|..+++.+
T Consensus       138 ~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         138 QLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             CCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            78899999999999999999999764

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.66  E-value=2.6e-15  Score=104.59  Aligned_cols=104  Identities=31%  Similarity=0.497  Sum_probs=86.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|..++..+++++++ +++|||+++ ++|+....|...+.+.. ..+.|+++++||.|+. ..+.+.......+++.
T Consensus        58 G~~~~~~~~~~~~~~~~~-~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~  135 (168)
T cd04177          58 GTEQFTAMRELYIKSGQG-FLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLE-DDRQVSREDGVSLSQQ  135 (168)
T ss_pred             CcccchhhhHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhcc-ccCccCHHHHHHHHHH
Confidence            457899999999999866 677889987 89999999999987643 3579999999999997 4455556666677777


Q ss_pred             hC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YG-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+ .+++++||++|.|++++|.+++..+.
T Consensus       136 ~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         136 WGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             cCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            77 78999999999999999999998664

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.66  E-value=2.6e-15  Score=103.11  Aligned_cols=103  Identities=31%  Similarity=0.526  Sum_probs=85.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..+++.++.+.+ ++++|||+++ .++.....|+.++.+....++|+++|+||+|+. ....+.......+....
T Consensus        58 g~~~~~~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~-~~~~~~~~~~~~~~~~~  135 (162)
T cd04123          58 GQERYHALGPIYYRDAD-GAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE-RQRVVSKSEAEEYAKSV  135 (162)
T ss_pred             chHHHHHhhHHHhccCC-EEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            34678888998887665 5788889987 899999999999988665679999999999997 44555566666677777


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||+++.|++++|+++++.+
T Consensus       136 ~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         136 GAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            88899999999999999999998764

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.66  E-value=1.8e-15  Score=104.20  Aligned_cols=102  Identities=33%  Similarity=0.519  Sum_probs=85.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++.+.+. +++|||.++ .+|..+..|+..+....+.+.|+++|+||+|+. ..+.....+...+++..
T Consensus        58 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-~~~~~~~~~~~~~~~~~  135 (161)
T cd01861          58 GQERFRSLIPSYIRDSSV-AVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS-DKRQVSTEEGEKKAKEL  135 (161)
T ss_pred             CcHHHHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc-ccCccCHHHHHHHHHHh
Confidence            457788888888887754 888999998 899999999999877654579999999999996 44555666677777777


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +.+++++||+++.|++++|.++.+.
T Consensus       136 ~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         136 NAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            8899999999999999999999864

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.65  E-value=2e-15  Score=105.46  Aligned_cols=102  Identities=32%  Similarity=0.546  Sum_probs=84.7

Q ss_pred             ccccc-ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            6 CLCFI-GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         6 ~~~~~-~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      .++|+ .++..|+++.+. +++|||+++ .+|..+..|+.++.... ..++|+++|+||+|+. ..+.+....+..+++.
T Consensus        61 ~~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~~~~~~~~~~~~~~~  138 (170)
T cd04115          61 QERFRKSMVQHYYRNVHA-VVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR-EQIQVPTDLAQRFADA  138 (170)
T ss_pred             hHHHHHhhHHHhhcCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccch-hhcCCCHHHHHHHHHH
Confidence            35676 577888877755 788999997 89999999999987754 3679999999999997 5566667777778888


Q ss_pred             hCCcEEEecCCC---CCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKT---NLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~---~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||++   +.+++++|..+++.+
T Consensus       139 ~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         139 HSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             cCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            888999999999   889999999998765

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.65  E-value=3.4e-15  Score=103.56  Aligned_cols=99  Identities=29%  Similarity=0.396  Sum_probs=81.0

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~--~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      ..++..++++++ ++++|||+++ .+|+.+..|+..+....  ..++|+++|+||+|+. ..+.+...++..+++..+.+
T Consensus        62 ~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~~~~  139 (165)
T cd04146          62 TEQLERSIRWAD-GFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLL-HYRQVSTEEGEKLASELGCL  139 (165)
T ss_pred             cchHHHHHHhCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchH-HhCccCHHHHHHHHHHcCCE
Confidence            445667777654 5789999998 99999999999887753  3579999999999986 44556667777788888899


Q ss_pred             EEEecCCCC-CCHHHHHHHHHHHHH
Q 032001           87 FFETSAKTN-LNVEQVFFSIARDIK  110 (149)
Q Consensus        87 ~~~~Sak~~-~~i~el~~~l~~~i~  110 (149)
                      ++++||++| .|++++|..+++.+.
T Consensus       140 ~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         140 FFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             EEEeCCCCCchhHHHHHHHHHHHHh
Confidence            999999999 599999999998764

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.64  E-value=3.3e-15  Score=104.58  Aligned_cols=100  Identities=26%  Similarity=0.402  Sum_probs=81.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..+++.++++++. +++|||+++ .+|+.+. .|+..+.... +++|+++|+||.|+...           .+.+
T Consensus        57 G~~~~~~~~~~~~~~a~~-~i~v~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  134 (173)
T cd04130          57 GQDEFDKLRPLCYPDTDV-FLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPV  134 (173)
T ss_pred             CChhhccccccccCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCc
Confidence            457899999998887755 789999997 8999884 7998887543 46899999999998621           2355


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~  106 (149)
                      ...++..+++..+. +++++||++|.|++++|+.++
T Consensus       135 ~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         135 SQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             CHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHH
Confidence            66677888888887 899999999999999998876

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,

>cd04142 RRP22 RRP22 subfamily

Probab=99.64  E-value=3.7e-15  Score=106.99  Aligned_cols=96  Identities=24%  Similarity=0.260  Sum_probs=76.8

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-HhCCcEEE
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-EYGIKFFE   89 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~   89 (149)
                      .++++ .+++++|||+++ .||+.+..|+..+.+..   ..++|+++|+||+|+. ..+.+.......++. ..+.++++
T Consensus        76 ~~~~~-ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~e  153 (198)
T cd04142          76 RGLRN-SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQ-RHRFAPRHVLSVLVRKSWKCGYLE  153 (198)
T ss_pred             hhhcc-CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccc-ccccccHHHHHHHHHHhcCCcEEE
Confidence            34554 466899999998 89999999999987753   3679999999999997 445555555555554 45789999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +||++|.|++++|..+++.+...
T Consensus       154 ~Sak~g~~v~~lf~~i~~~~~~~  176 (198)
T cd04142         154 CSAKYNWHILLLFKELLISATTR  176 (198)
T ss_pred             ecCCCCCCHHHHHHHHHHHhhcc
Confidence            99999999999999999887654

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.63  E-value=2.7e-15  Score=104.77  Aligned_cols=103  Identities=9%  Similarity=0.031  Sum_probs=79.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      .++|+.+|..|+++++. +++|||.++ .+|..+..|+..+.+.. ..+.|+++|+||+|+.   ..+...+...++...
T Consensus        53 ~~~~~~~~~~~~~~ad~-ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~---~~~~~~~~~~~~~~~  128 (169)
T cd04158          53 KHKLRPLWKHYYLNTQA-VVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA---GALSVEEMTELLSLH  128 (169)
T ss_pred             ChhcchHHHHHhccCCE-EEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcc---cCCCHHHHHHHhCCc
Confidence            36788899999988766 788889887 88999999999887543 2468999999999996   234455555544322


Q ss_pred             C------CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 G------IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~------~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +      +.++++||++|.||+++|++|++.+.+.
T Consensus       129 ~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         129 KLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             cccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            2      2577899999999999999999877654

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.63  E-value=2.3e-15  Score=106.57  Aligned_cols=103  Identities=9%  Similarity=0.012  Sum_probs=75.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|+.+|+.||++++. +|+|||+++ .++.....|+..+.+. ...++|+++|+||+|+. .  .....+.......
T Consensus        70 Gq~~~~~~~~~~~~~a~~-iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~-~--~~~~~~~~~~l~l  145 (181)
T PLN00223         70 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLP-N--AMNAAEITDKLGL  145 (181)
T ss_pred             CCHHHHHHHHHHhccCCE-EEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence            447899999999998866 788889987 8888888777776542 22578999999999997 2  2233332222211


Q ss_pred             hC-----CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YG-----IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~-----~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ..     +.++++||++|+|+.++|++|++.+.+
T Consensus       146 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        146 HSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             cccCCCceEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            11     235579999999999999999987754

>cd04135 Tc10 TC10 subfamily

Probab=99.63  E-value=7.1e-15  Score=102.64  Aligned_cols=103  Identities=22%  Similarity=0.361  Sum_probs=83.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~   71 (149)
                      |.++|..+++.++.+++. +++|||+++ .+|+.+. .|...+... .+++|+++|+||+|+....           ..+
T Consensus        57 G~~~~~~~~~~~~~~~~~-~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v  134 (174)
T cd04135          57 GQEDYDRLRPLSYPMTDV-FLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPV  134 (174)
T ss_pred             CcccccccccccCCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCC
Confidence            567788999998888765 788889987 8999885 788888765 4679999999999986211           245


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ...++..+++..+. +++++||++|.|++++|+.+++.+
T Consensus       135 ~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         135 TVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             CHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            55667778888875 799999999999999999998765

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.62  E-value=2.4e-15  Score=105.17  Aligned_cols=99  Identities=10%  Similarity=-0.004  Sum_probs=75.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|+.+|+.||++++. +++|||+++ .+|.....|+.++.... ..++|+++|+||.|+. .  .+..+++..+...
T Consensus        62 G~~~~~~~~~~~~~~a~~-ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~  137 (168)
T cd04149          62 GQDKIRPLWRHYYTGTQG-LIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLP-D--AMKPHEIQEKLGL  137 (168)
T ss_pred             CCHHHHHHHHHHhccCCE-EEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCc-c--CCCHHHHHHHcCC
Confidence            457899999999998766 788889987 78999888887775432 2568999999999987 2  2344444443321


Q ss_pred             -----hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 -----YGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 -----~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                           ...+++++||++|.|++++|++|++
T Consensus       138 ~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         138 TRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             CccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence                 2246899999999999999999874

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.61  E-value=1.3e-14  Score=100.74  Aligned_cols=103  Identities=31%  Similarity=0.498  Sum_probs=83.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.+.|..++..++..++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+.......+.+..
T Consensus        65 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~-~~~~i~~~~~~~~~~~~  142 (169)
T cd04114          65 GQERFRSITQSYYRSANA-LILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLA-ERREVSQQRAEEFSDAQ  142 (169)
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            345688888888877655 788889987 899999999998877655679999999999987 44555555556666666


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ..+++++||++|.|++++|+++++.+
T Consensus       143 ~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         143 DMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            67899999999999999999999754

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.61  E-value=1.6e-14  Score=99.50  Aligned_cols=104  Identities=30%  Similarity=0.466  Sum_probs=84.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.++|..++..++++.+. ++++|++++ .+|.....|+..+.... ..++|+++|+||+|+. ............+...
T Consensus        57 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~-~~~~~~~~~~~~~~~~  134 (164)
T cd04139          57 GQEDYAAIRDNYHRSGEG-FLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLE-DKRQVSSEEAANLARQ  134 (164)
T ss_pred             ChhhhhHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccc-cccccCHHHHHHHHHH
Confidence            456788889999988876 677778886 88999999999887753 3579999999999997 3334455566667777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+.+++++||++|.|++++|+.+++.+.
T Consensus       135 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         135 WGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             hCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            8889999999999999999999998764

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

>cd04148 RGK RGK subfamily

Probab=99.61  E-value=1.7e-14  Score=105.21  Aligned_cols=100  Identities=25%  Similarity=0.344  Sum_probs=81.0

Q ss_pred             chhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe
Q 032001           13 YPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET   90 (149)
Q Consensus        13 ~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (149)
                      ...++....+++++|||+++ .+|+.+..|+..+.+.. ..++|+|+|+||+|+. ..+.+...+...++..++.+++++
T Consensus        65 ~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~a~~~~~~~~e~  143 (221)
T cd04148          65 EDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLA-RSREVSVQEGRACAVVFDCKFIET  143 (221)
T ss_pred             HhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcc-ccceecHHHHHHHHHHcCCeEEEe
Confidence            34444414566899999998 89999999999987754 2579999999999997 455566666777888888899999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHh
Q 032001           91 SAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ||++|.||+++|+++++.+....
T Consensus       144 SA~~~~gv~~l~~~l~~~~~~~~  166 (221)
T cd04148         144 SAGLQHNVDELLEGIVRQIRLRR  166 (221)
T ss_pred             cCCCCCCHHHHHHHHHHHHHhhh
Confidence            99999999999999999886543

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.61  E-value=5.3e-15  Score=103.45  Aligned_cols=102  Identities=16%  Similarity=0.128  Sum_probs=79.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|+.++..||++++. +++|||.++ .+|+.+..|+..+...  .++|+++|+||.|+. ....+.......+++..
T Consensus        63 g~~~~~~~~~~~~~~~d~-~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~  138 (169)
T cd01892          63 EDEVAILLNDAELAACDV-ACLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLD-EQQQRYEVQPDEFCRKL  138 (169)
T ss_pred             CcccccccchhhhhcCCE-EEEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEccccc-ccccccccCHHHHHHHc
Confidence            456788899999877655 788889987 8999999999876432  368999999999996 33333233445566777


Q ss_pred             CC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GI-KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~-~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +. .++++||++|.|++++|+.+++.+.
T Consensus       139 ~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         139 GLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             CCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            76 4699999999999999999998764

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.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.61  E-value=3.3e-15  Score=103.80  Aligned_cols=108  Identities=19%  Similarity=0.340  Sum_probs=95.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-+.|..++..||+++.. .++||+.++ .||+....|++++.... .++|.|+|-||+||. +..++...+...+++..
T Consensus        78 gqeEfDaItkAyyrgaqa-~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlv-eds~~~~~evE~lak~l  154 (246)
T KOG4252|consen   78 GQEEFDAITKAYYRGAQA-SVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLV-EDSQMDKGEVEGLAKKL  154 (246)
T ss_pred             cchhHHHHHHHHhccccc-eEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhh-HhhhcchHHHHHHHHHh
Confidence            456788899999999877 788889988 99999999999998765 689999999999998 66777888888899999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +.+++++|++...||.++|..|++.+.+.+.+
T Consensus       155 ~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  155 HKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             hhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999988877655

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.60  E-value=9.3e-15  Score=103.51  Aligned_cols=105  Identities=11%  Similarity=0.061  Sum_probs=76.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|+.+|+.||++++. +|+|||+++ .+|.....|+.++... ...++|+++|+||.|+. .  .....+...... 
T Consensus        70 G~~~~~~~~~~~~~~ad~-iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~l~~  145 (182)
T PTZ00133         70 GQDKLRPLWRHYYQNTNG-LIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLP-N--AMSTTEVTEKLGL  145 (182)
T ss_pred             CCHhHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCC-C--CCCHHHHHHHhCC
Confidence            447889999999998766 688889987 8899888777776442 22468999999999986 2  222222221111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                          ...+.++++||++|.|++++|++|++.+..++
T Consensus       146 ~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        146 HSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             CcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence                11234668999999999999999999887654

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.59  E-value=2.8e-14  Score=102.18  Aligned_cols=105  Identities=27%  Similarity=0.317  Sum_probs=80.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|..++..|+.+++. +++|||+++ .+|+.+..|+..+..... .++|+++|+||+|+......+.......... 
T Consensus        56 G~~~~~~~~~~~~~~ad~-vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~  134 (198)
T cd04147          56 GSYSFPAMRKLSIQNSDA-FALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVEL  134 (198)
T ss_pred             CchhhhHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHh
Confidence            446778888888888765 788889987 899999999999877543 5799999999999862233343333333332 


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..+.+++++||++|.|++++|+++++.+.
T Consensus       135 ~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         135 DWNCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             hcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            34568999999999999999999998775

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.59  E-value=3.2e-14  Score=98.07  Aligned_cols=101  Identities=27%  Similarity=0.431  Sum_probs=82.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.++|..++..++++.+. +++|||.++ .+|..+..|+..+..... .++|+++|+||+|+.  ...........++..
T Consensus        58 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~--~~~~~~~~~~~~~~~  134 (161)
T cd01863          58 GQERFRTLTSSYYRGAQG-VILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE--NREVTREEGLKFARK  134 (161)
T ss_pred             CchhhhhhhHHHhCCCCE-EEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc--ccccCHHHHHHHHHH
Confidence            345677888888876655 788889987 899999999999887643 678999999999986  234445666777777


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      .+.+++++||++|.|++++++.+.+.
T Consensus       135 ~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         135 HNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             cCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            88999999999999999999998864

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.59  E-value=1e-14  Score=100.99  Aligned_cols=99  Identities=9%  Similarity=0.037  Sum_probs=72.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSK-GQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~   81 (149)
                      |.++|+.+|+.||++++. +++|||.++ .+|.....|+..+... ...++|+++++||+|+. .  .....+ ...+..
T Consensus        53 G~~~~~~~~~~~~~~ad~-~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~  128 (159)
T cd04150          53 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLP-N--AMSAAEVTDKLGL  128 (159)
T ss_pred             CCHhHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence            446789999999988866 788889987 8899998888777542 22468999999999996 2  222222 222211


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                          ..++.++++||++|.|++++|++|++
T Consensus       129 ~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         129 HSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             cccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence                11235779999999999999999874

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.58  E-value=4.4e-14  Score=98.17  Aligned_cols=106  Identities=32%  Similarity=0.440  Sum_probs=84.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.+.|..++..++++.+. ++++||+++ .+|.....|..++.....    .++|+++|+||+|+. ............+
T Consensus        58 g~~~~~~~~~~~~~~~d~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~  135 (172)
T cd01862          58 GQERFQSLGVAFYRGADC-CVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLE-EKRQVSTKKAQQW  135 (172)
T ss_pred             ChHHHHhHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccc-cccccCHHHHHHH
Confidence            345778888888887765 788889987 889999999988766432    378999999999997 3344455666667


Q ss_pred             HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+..+ .+++++||++|.|++++|+++++.+.+.
T Consensus       136 ~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         136 CQSNGNIPYFETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             HHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            77776 6899999999999999999999888765

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-

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.58  E-value=3.7e-15  Score=103.76  Aligned_cols=100  Identities=16%  Similarity=0.128  Sum_probs=76.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH----HHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT----SKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~----~~~~~~   79 (149)
                      |.++|+.+|..||++++. +++|||.++ .+|.....|+.++.... .++|+++|+||+|+. ....+..    ..+..+
T Consensus        53 G~~~~~~~~~~~~~~ad~-ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~-~~~~~~~i~~~~~~~~~  129 (164)
T cd04162          53 GSQNLRKYWKRYLSGSQG-LIFVVDSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLP-AARSVQEIHKELELEPI  129 (164)
T ss_pred             CCcchhHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCc-CCCCHHHHHHHhCChhh
Confidence            456899999999999877 678888887 88999999998886543 579999999999987 3332221    122344


Q ss_pred             HHHhCCcEEEecCCC------CCCHHHHHHHHHH
Q 032001           80 ADEYGIKFFETSAKT------NLNVEQVFFSIAR  107 (149)
Q Consensus        80 ~~~~~~~~~~~Sak~------~~~i~el~~~l~~  107 (149)
                      ++..++.++++||++      ++||+++|+.++.
T Consensus       130 ~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162         130 ARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             cCCCceEEEEeeecCCCChhHHHHHHHHHHHHhc
Confidence            455677889999888      9999999998864

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.

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

Probab=99.58  E-value=1.8e-14  Score=101.28  Aligned_cols=101  Identities=7%  Similarity=0.018  Sum_probs=74.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|+.+|..||++++. +++|||+++ .+++....|+..+.+.. ..++|+++|+||.|+. ..  ....+...... 
T Consensus        66 G~~~~~~~~~~~~~~ad~-ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~-~~--~~~~~i~~~~~~  141 (175)
T smart00177       66 GQDKIRPLWRHYYTNTQG-LIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP-DA--MKAAEITEKLGL  141 (175)
T ss_pred             CChhhHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcc-cC--CCHHHHHHHhCc
Confidence            457899999999988865 788889987 88999988888875432 2568999999999997 21  22222222111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                          ...+.++++||++|.|++++|++|.+.+
T Consensus       142 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      142 HSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             cccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence                1123467899999999999999998764

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).

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

Probab=99.58  E-value=8e-14  Score=97.94  Aligned_cols=106  Identities=28%  Similarity=0.400  Sum_probs=85.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.++|+.++..++...++ ++++||+++ .+|+.+..|+..+.+... .+.|+++|+||+|+. ..+.+.......+++.
T Consensus        58 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~  135 (180)
T cd04137          58 GQDEYSILPQKYSIGIHG-YILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH-TQRQVSTEEGKELAES  135 (180)
T ss_pred             ChHhhHHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhh-hcCccCHHHHHHHHHH
Confidence            345677788888887766 688889987 899999999888876543 578999999999987 4444455555666677


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+.+++++||+++.|+.++|.++.+.+...
T Consensus       136 ~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  165 (180)
T cd04137         136 WGAAFLESSARENENVEEAFELLIEEIEKV  165 (180)
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            778899999999999999999999988654

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.56  E-value=4e-14  Score=100.19  Aligned_cols=105  Identities=11%  Similarity=0.079  Sum_probs=78.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|+.+|..+++++++ +++|+|.++ .++.....|+.++.... ..++|+++|+||+|+. .  .........+...
T Consensus        61 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~-~--~~~~~~~~~~~~~  136 (183)
T cd04152          61 GQEKLRPLWKSYTRCTDG-IVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLP-N--ALSVSEVEKLLAL  136 (183)
T ss_pred             CcHhHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcc-c--cCCHHHHHHHhCc
Confidence            346788999998887766 677888887 78999999988876643 2578999999999986 2  2223333333221


Q ss_pred             ------hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           83 ------YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        83 ------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                            .+.+++++||++|.|++++|++|++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~  173 (183)
T cd04152         137 HELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRR  173 (183)
T ss_pred             cccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence                  1245789999999999999999999886553

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.55  E-value=9.6e-14  Score=96.98  Aligned_cols=103  Identities=25%  Similarity=0.365  Sum_probs=78.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC-----------CCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK-----------RAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-----------~~~   71 (149)
                      |.++|..+++.++.+.+. +++||++++ .+|+.+. .|...+.+.. .++|+++|+||.|+....           ..+
T Consensus        58 G~~~~~~~~~~~~~~~d~-~i~v~~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v  135 (175)
T cd01870          58 GQEDYDRLRPLSYPDTDV-ILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPV  135 (175)
T ss_pred             CchhhhhccccccCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCc
Confidence            456788888888776654 788899997 8998885 6888887644 578999999999986211           123


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .......++...+. +++++||++|.|++++|+++++..
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         136 KPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             cHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            34455666666664 799999999999999999998653

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

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.55  E-value=2.6e-14  Score=105.79  Aligned_cols=95  Identities=13%  Similarity=0.163  Sum_probs=75.7

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      |||..+.+.|+++++. +++|||++ + .+|..+..|+..+..   .++|+++|+||+||. +.+.+..+....+ ...+
T Consensus        24 eR~~~L~r~~~~n~D~-viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~-~~~~~~~~~~~~~-~~~g   97 (245)
T TIGR00157        24 ERKNELTRPIVANIDQ-IVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLL-DDEDMEKEQLDIY-RNIG   97 (245)
T ss_pred             cccceEECcccccCCE-EEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccC-CCHHHHHHHHHHH-HHCC
Confidence            7999999999999877 68888887 4 489999999987754   568999999999996 3333222333333 3477


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      .+++++||++|.|++++|..+..
T Consensus        98 ~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        98 YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CeEEEEecCCchhHHHHHhhhcC
Confidence            89999999999999999998875

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.55  E-value=3e-14  Score=99.71  Aligned_cols=98  Identities=10%  Similarity=0.063  Sum_probs=74.1

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH--
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD--   81 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~--   81 (149)
                      .++|+++|..||++.+. +++|||.++ .+|.....|+..+... ...++|+++|+||+|+. ..  ....+...+..  
T Consensus        68 ~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~--~~~~~~~~~~~~~  143 (173)
T cd04154          68 QKTLRPYWRNYFESTDA-LIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLP-GA--LSEEEIREALELD  143 (173)
T ss_pred             CHHHHHHHHHHhCCCCE-EEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccc-cC--CCHHHHHHHhCcc
Confidence            45678889999887766 678889987 7899988888887542 23579999999999997 22  23334443332  


Q ss_pred             ---HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           82 ---EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        82 ---~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                         ..+.+++++||++|.|++++|+++++
T Consensus       144 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         144 KISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             ccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence               23468999999999999999999874

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.

>cd00876 Ras Ras family

Probab=99.54  E-value=1.2e-13  Score=94.54  Aligned_cols=101  Identities=33%  Similarity=0.503  Sum_probs=83.0

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      .+.|..++..++.+.+ ++++|||.++ .++.....|+..+.+... ...|+++|+||+|+. .........+..+....
T Consensus        57 ~~~~~~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~~  134 (160)
T cd00876          57 QEEFSAMRDLYIRQGD-GFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLE-NERQVSKEEGKALAKEW  134 (160)
T ss_pred             hHHHHHHHHHHHhcCC-EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccc-ccceecHHHHHHHHHHc
Confidence            3456777888888765 5788889987 899999999999887654 579999999999997 44555566777777777


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +.+++++||+++.|++++|++|++.
T Consensus       135 ~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         135 GCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCcEEEeccCCCCCHHHHHHHHHhh
Confidence            7899999999999999999999875

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.52  E-value=8.3e-14  Score=95.88  Aligned_cols=99  Identities=12%  Similarity=0.130  Sum_probs=72.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|+.+|..||++++. +++|+|.++ .+|.....|+..+.+..   ..++|+++|+||+|+. ...  ...+.....
T Consensus        54 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~-~~~--~~~~~~~~l  129 (162)
T cd04157          54 GQGKYRGLWEHYYKNIQG-IIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLP-DAL--TAVKITQLL  129 (162)
T ss_pred             CCHhhHHHHHHHHccCCE-EEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCcccc-CCC--CHHHHHHHh
Confidence            456788999999988766 677888887 88888888888876532   2579999999999987 221  222222111


Q ss_pred             H-----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           81 D-----EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        81 ~-----~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      .     ....+++++||++|.|++++|++|++
T Consensus       130 ~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         130 GLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            1     11245899999999999999999864

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

>cd00154 Rab Rab family

Probab=99.51  E-value=2.4e-13  Score=92.49  Aligned_cols=99  Identities=36%  Similarity=0.610  Sum_probs=81.3

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      .++|..++..++++.+. +++|+|.++ +++..+..|+..+......+.|+++++||+|+. ............+....+
T Consensus        59 ~~~~~~~~~~~~~~~d~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~~~  136 (159)
T cd00154          59 QERFRSITPSYYRGAHG-AILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE-DQRQVSTEEAQQFAKENG  136 (159)
T ss_pred             hHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc-ccccccHHHHHHHHHHcC
Confidence            35566778888877655 788889887 889999999999988665678999999999985 334555667777777788


Q ss_pred             CcEEEecCCCCCCHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~  106 (149)
                      .+++++||+++.|++++|.+|+
T Consensus       137 ~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         137 LLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             CeEEEEecCCCCCHHHHHHHHh
Confidence            8999999999999999999886

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.49  E-value=6.4e-13  Score=96.23  Aligned_cols=103  Identities=26%  Similarity=0.450  Sum_probs=82.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..++..|+...+. +++|||+++ .+|..+..|+..+.... .++|+++++||.|+. . +.+.. ....++...
T Consensus        67 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~-~-~~~~~-~~~~~~~~~  141 (215)
T PTZ00132         67 GQEKFGGLRDGYYIKGQC-AIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVK-D-RQVKA-RQITFHRKK  141 (215)
T ss_pred             CchhhhhhhHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCc-c-ccCCH-HHHHHHHHc
Confidence            456788889888887755 788999997 99999999999987654 578999999999986 2 22322 233566677


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++.++++||++|.|++++|.+|++.+...
T Consensus       142 ~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~  170 (215)
T PTZ00132        142 NLQYYDISAKSNYNFEKPFLWLARRLTND  170 (215)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence            88999999999999999999999988654

>cd00879 Sar1 Sar1 subfamily

Probab=99.48  E-value=1.7e-13  Score=97.08  Aligned_cols=99  Identities=15%  Similarity=0.137  Sum_probs=75.4

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE-   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-   82 (149)
                      .++|+.+|..|+++.+. +++|+|.++ .+|.....|+..+.+... .+.|+++++||+|+.   ..+.......+... 
T Consensus        73 ~~~~~~~~~~~~~~ad~-iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~---~~~~~~~~~~~~~~~  148 (190)
T cd00879          73 HEQARRLWKDYFPEVDG-IVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLP---GAVSEEELRQALGLY  148 (190)
T ss_pred             CHHHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCC---CCcCHHHHHHHhCcc
Confidence            45677888888888755 788889987 789888888888765332 568999999999986   34445555554432 


Q ss_pred             ---------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 ---------------YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ---------------~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                                     ...+++++||++|.|++++|++|++.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         149 GTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             cccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence                           12468999999999999999999864

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.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.48  E-value=2.5e-13  Score=96.54  Aligned_cols=107  Identities=28%  Similarity=0.393  Sum_probs=90.4

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCC
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRA   70 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~   70 (149)
                      .|.|.|.++|+..|...+. +++.|++++ .||+.+ .+|+.+++.+. +++|+|+||+|.||..+           ...
T Consensus        61 AGqedYDrlRplsY~~tdv-fl~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~  138 (198)
T KOG0393|consen   61 AGQEDYDRLRPLSYPQTDV-FLLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEP  138 (198)
T ss_pred             CCCcccccccccCCCCCCE-EEEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCc
Confidence            4678899999999998866 577899987 999997 59999999887 78999999999999721           124


Q ss_pred             CCHHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        71 ~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +...+...++++.| ..++++||++..|+.++|+..+......
T Consensus       139 Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  139 VTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             ccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence            56677788899988 5899999999999999999999877654

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.48  E-value=3e-13  Score=94.90  Aligned_cols=99  Identities=11%  Similarity=0.063  Sum_probs=72.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHH-HHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKG-QALA-   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~-~~~~-   80 (149)
                      |.++|..+|..||.+++. +++|+|.++ ++|.....|+..+.+... .++|+++++||+|+. .  .....+. ..+. 
T Consensus        68 G~~~~~~~~~~~~~~~d~-vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~-~--~~~~~~i~~~l~~  143 (174)
T cd04153          68 GQESLRSSWNTYYTNTDA-VILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLK-G--AMTPAEISESLGL  143 (174)
T ss_pred             CCHHHHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence            345788889999987765 788889987 788888887777755322 568999999999987 2  2222322 2221 


Q ss_pred             ---HHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           81 ---DEYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        81 ---~~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                         +..+.+++++||++|.|++++|++|++
T Consensus       144 ~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         144 TSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             ccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence               123356899999999999999999975

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.46  E-value=1.8e-13  Score=95.53  Aligned_cols=101  Identities=14%  Similarity=0.113  Sum_probs=73.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHH----HHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSK----GQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~----~~~   78 (149)
                      |.++|+.+|..||+++++ +++|||.++ .+|..+..|+..+.+... .++|+++|+||+|+. .........    +..
T Consensus        52 G~~~~~~~~~~~~~~a~~-ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~-~~~~~~~i~~~~~l~~  129 (167)
T cd04161          52 GGANFRGIWVNYYAEAHG-LVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKK-NALLGADVIEYLSLEK  129 (167)
T ss_pred             CcHHHHHHHHHHHcCCCE-EEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCc-CCCCHHHHHHhcCccc
Confidence            346788999999988866 677789887 889999999998876432 578999999999997 322111111    112


Q ss_pred             HHHHhC--CcEEEecCCCC------CCHHHHHHHHHH
Q 032001           79 LADEYG--IKFFETSAKTN------LNVEQVFFSIAR  107 (149)
Q Consensus        79 ~~~~~~--~~~~~~Sak~~------~~i~el~~~l~~  107 (149)
                      +++..+  ..++.+||++|      .|+.+.|+||++
T Consensus       130 ~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         130 LVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             ccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            222222  45778999998      899999999974

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.46  E-value=7.5e-13  Score=92.03  Aligned_cols=103  Identities=21%  Similarity=0.281  Sum_probs=74.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~   80 (149)
                      |.++|+.++..++.+++ ++++|||+++ .+|+.+. .|...++... .++|+++|+||+|+. +.....  ......+.
T Consensus        56 G~~~~~~~~~~~~~~ad-~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~-~~~~~~~~~~~~~~~~  132 (166)
T cd01893          56 SRPQDRANLAAEIRKAN-VICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLR-DGSSQAGLEEEMLPIM  132 (166)
T ss_pred             CchhhhHHHhhhcccCC-EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcc-cccchhHHHHHHHHHH
Confidence            34556677777776655 5788999987 8999975 6888877654 479999999999997 322211  22233333


Q ss_pred             HHh-C-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           81 DEY-G-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        81 ~~~-~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..+ + .+++++||++|.|++++|+.+++.+.
T Consensus       133 ~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~  164 (166)
T cd01893         133 NEFREIETCVECSAKTLINVSEVFYYAQKAVL  164 (166)
T ss_pred             HHHhcccEEEEeccccccCHHHHHHHHHHHhc
Confidence            333 2 37999999999999999999988664

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.

>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=99.46  E-value=1.8e-12  Score=91.28  Aligned_cols=101  Identities=13%  Similarity=0.153  Sum_probs=75.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++++.+|+.||.+.++ +|+|.|..+ ..+......+.++.... -.++|+++++||.|++   ......+.......
T Consensus        67 G~~~~~~~w~~y~~~~~~-iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~---~~~~~~~i~~~l~l  142 (175)
T PF00025_consen   67 GQESFRPLWKSYFQNADG-IIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLP---DAMSEEEIKEYLGL  142 (175)
T ss_dssp             SSGGGGGGGGGGHTTESE-EEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTST---TSSTHHHHHHHTTG
T ss_pred             ccccccccceeeccccce-eEEEEecccceeecccccchhhhcchhhcccceEEEEecccccc---CcchhhHHHhhhhh
Confidence            456789999999999877 566667776 77888877777776532 2579999999999987   23334444433221


Q ss_pred             ------hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 ------YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ------~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                            ..+.++.+||.+|+|+.+.|+||.+.+
T Consensus       143 ~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  143 EKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             GGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             hhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence                  234588999999999999999999764

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 ....

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.46  E-value=5.4e-13  Score=92.41  Aligned_cols=98  Identities=11%  Similarity=0.137  Sum_probs=73.0

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE-   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-   82 (149)
                      -++|..++..++.+.+. +++|+|.++ .++.....|+..+.+.. ..++|+++|+||+|+. .  .....+...+... 
T Consensus        60 ~~~~~~~~~~~~~~~~~-~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~-~--~~~~~~~~~~~~~~  135 (167)
T cd04160          60 QESLRSLWDKYYAECHA-IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLP-D--ALSVEEIKEVFQDK  135 (167)
T ss_pred             ChhhHHHHHHHhCCCCE-EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccc-c--CCCHHHHHHHhccc
Confidence            35678888888887765 677788886 78888888888876532 2578999999999987 2  2333333333322 


Q ss_pred             ------hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 ------YGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 ------~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                            .+.+++++||++|.|+++++++|++
T Consensus       136 ~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         136 AEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             cccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence                  2357999999999999999999975

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.46  E-value=2.3e-13  Score=93.64  Aligned_cols=98  Identities=16%  Similarity=0.128  Sum_probs=71.4

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQAL----   79 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~----   79 (149)
                      -++|..+|..++.+.+. +++|+|.++ .++.....|+.++.+.. ..+.|+++|+||+|+. .  .....+....    
T Consensus        54 ~~~~~~~~~~~~~~~~~-iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~--~~~~~~i~~~~~~~  129 (160)
T cd04156          54 QEKMRTVWKCYLENTDG-LVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLP-G--ALTAEEITRRFKLK  129 (160)
T ss_pred             CHhHHHHHHHHhccCCE-EEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccc-c--CcCHHHHHHHcCCc
Confidence            35678888888888765 778889887 78999988888876532 2578999999999986 2  1122222211    


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                        ....+.+++++||++|.|++++|++|++
T Consensus       130 ~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         130 KYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             ccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence              1112346899999999999999999874

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.45  E-value=6.8e-13  Score=91.42  Aligned_cols=99  Identities=10%  Similarity=0.044  Sum_probs=69.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~   81 (149)
                      |.++|+.+|..|+.+++. +++|+|.++ .++.....|+..+.+ ....++|+++|+||+|+. ...  ...+.. .+..
T Consensus        52 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~--~~~~i~~~~~~  127 (158)
T cd04151          52 GQTSIRPYWRCYYSNTDA-IIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMP-GAL--SEAEISEKLGL  127 (158)
T ss_pred             CCHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCC-CCC--CHHHHHHHhCc
Confidence            345788899999988766 678889887 677777666655433 222468999999999986 221  122221 1111


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                          ..+.+++++||++|.|++++|++|++
T Consensus       128 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         128 SELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             cccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence                11246999999999999999999975

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.44  E-value=1.1e-12  Score=94.48  Aligned_cols=89  Identities=6%  Similarity=0.095  Sum_probs=69.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-------------------CCCCeEEEEeeCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-------------------SDNVNKVLVGNKADM   64 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-------------------~~~~~iilv~nK~Dl   64 (149)
                      |.++|+++++.||+++++ +|+|||+++ .||+.+..|+.++.+..                   +.++|+++||||.|+
T Consensus        63 G~e~~~~l~~~~yr~ad~-iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl  141 (202)
T cd04102          63 GSESVKSTRAVFYNQVNG-IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQ  141 (202)
T ss_pred             CchhHHHHHHHHhCcCCE-EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccc
Confidence            457899999999998766 799999998 99999999999997631                   247899999999999


Q ss_pred             CcCCCCCCHH----HHHHHHHHhCCcEEEecCCCC
Q 032001           65 DESKRAVPTS----KGQALADEYGIKFFETSAKTN   95 (149)
Q Consensus        65 ~~~~~~~~~~----~~~~~~~~~~~~~~~~Sak~~   95 (149)
                      . +.+.+...    ....++.+.+.+.+..++..+
T Consensus       142 ~-~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~  175 (202)
T cd04102         142 I-PEKESSGNLVLTARGFVAEQGNAEEINLNCTNG  175 (202)
T ss_pred             h-hhcccchHHHhhHhhhHHHhcCCceEEEecCCc
Confidence            7 44444333    234567788888888887655

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.42  E-value=2.4e-12  Score=99.25  Aligned_cols=101  Identities=16%  Similarity=0.175  Sum_probs=75.1

Q ss_pred             ccchhhhhh--cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001           11 GVYPPYLAV--LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus        11 ~~~~~~~~~--~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      .+...+++.  ..+++++|+|+++ .+++....|.+++..+..  .++|+++|+||+|+. ....+.......+....+.
T Consensus       225 gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~-~~~~~~~~~~~~~~~~~~~  303 (335)
T PRK12299        225 GLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLL-DEEEEREKRAALELAALGG  303 (335)
T ss_pred             cHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccC-CchhHHHHHHHHHHHhcCC
Confidence            344454444  2356888999987 689999999999987643  468999999999987 3332222333344455567


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++||+++.|+++++++|.+.+.+.
T Consensus       304 ~i~~iSAktg~GI~eL~~~L~~~l~~~  330 (335)
T PRK12299        304 PVFLISAVTGEGLDELLRALWELLEEA  330 (335)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhh
Confidence            899999999999999999999887653

>cd00157 Rho Rho (Ras homology) family

Probab=99.41  E-value=3.8e-12  Score=88.29  Aligned_cols=99  Identities=26%  Similarity=0.431  Sum_probs=75.7

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC----------CCCHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR----------AVPTS   74 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~   74 (149)
                      ++|..++..++..+ +++++|||.++ .+|.... .|+..+.... .++|+++|+||+|+.....          .+...
T Consensus        59 ~~~~~~~~~~~~~~-~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~  136 (171)
T cd00157          59 EEYDRLRPLSYPNT-DVFLICFSVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPE  136 (171)
T ss_pred             ccccccchhhcCCC-CEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHH
Confidence            45667777777665 45888999997 8888865 6887776654 4799999999999872221          23355


Q ss_pred             HHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHH
Q 032001           75 KGQALADEYGI-KFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        75 ~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      ....+....+. +++++||++|.|++++|+++++
T Consensus       137 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         137 EGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             HHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            56667777776 8999999999999999999875

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

>cd01890 LepA LepA subfamily

Probab=99.40  E-value=2.5e-12  Score=90.06  Aligned_cols=96  Identities=24%  Similarity=0.246  Sum_probs=70.2

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      -++|..++..++++++. +++|+|.++ .++.....|.... .   .++|+++|+||+|+. ...  .......+.+..+
T Consensus        77 ~~~~~~~~~~~~~~ad~-~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~-~~~--~~~~~~~~~~~~~  148 (179)
T cd01890          77 HVDFSYEVSRSLAACEG-ALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLP-SAD--PERVKQQIEDVLG  148 (179)
T ss_pred             ChhhHHHHHHHHHhcCe-EEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCC-cCC--HHHHHHHHHHHhC
Confidence            35677888888888765 688889886 6677777675433 2   468999999999986 221  2223344555555


Q ss_pred             C---cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           85 I---KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        85 ~---~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .   .++++||++|.|++++|++|++.+
T Consensus       149 ~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         149 LDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             CCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence            4   489999999999999999998765

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.

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

Probab=99.38  E-value=2.1e-12  Score=91.46  Aligned_cols=100  Identities=11%  Similarity=0.072  Sum_probs=73.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++++.+|..||.+++. +++|+|.++ .++.....|+.++.+.. ..++|+++|+||+|++   ..+...+.......
T Consensus        70 G~~~~~~~~~~~~~~ad~-ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~---~~~~~~~i~~~l~l  145 (184)
T smart00178       70 GHQQARRLWKDYFPEVNG-IVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP---YAASEDELRYALGL  145 (184)
T ss_pred             CCHHHHHHHHHHhCCCCE-EEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc---CCCCHHHHHHHcCC
Confidence            345778899999988766 677778876 78888888888775432 2568999999999986   23334443332211


Q ss_pred             ------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 ------------YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ------------~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                                  ....++.+||++|.|+++++++|.+.
T Consensus       146 ~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      146 TNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             CcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence                        12358999999999999999999764

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

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.38  E-value=2.1e-12  Score=90.38  Aligned_cols=114  Identities=19%  Similarity=0.267  Sum_probs=89.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      +-|||..|...||+...+ .++|||++. -+|+...+|.+++....    +.++|+|+.+||+|...............+
T Consensus        84 gQerfg~mtrVyykea~~-~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f  162 (229)
T KOG4423|consen   84 GQERFGNMTRVYYKEAHG-AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNF  162 (229)
T ss_pred             hhhhhcceEEEEecCCcc-eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHH
Confidence            457999999999999988 577889998 89999999999986632    367899999999998621111223455667


Q ss_pred             HHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHhcCCCCC
Q 032001           80 ADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRLADTDSR  119 (149)
Q Consensus        80 ~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~~~~  119 (149)
                      .+++|+ ..+++|+|.+.|+.|+-..|++++...-++....
T Consensus       163 ~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~q~~~s  203 (229)
T KOG4423|consen  163 KKENGFEGWTETSAKENKNIPEAQRELVEKILVNDEQPIKS  203 (229)
T ss_pred             HhccCccceeeeccccccChhHHHHHHHHHHHhhccCCccc
Confidence            788886 7899999999999999999999887664444333

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

Probab=99.38  E-value=5.9e-12  Score=86.50  Aligned_cols=99  Identities=9%  Similarity=-0.008  Sum_probs=73.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|.+++..++.+.+. +++|||+++ .++.....|+..+.... ..+.|+++|+||+|+. ...  ...+.......
T Consensus        52 G~~~~~~~~~~~~~~~~~-~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~-~~~--~~~~~~~~~~~  127 (158)
T cd00878          52 GQDKIRPLWKHYYENTNG-IIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLP-GAL--SVSELIEKLGL  127 (158)
T ss_pred             CChhhHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCc-ccc--CHHHHHHhhCh
Confidence            345778888888888755 788889997 78999988888876633 3578999999999987 222  22233332221


Q ss_pred             -----hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 -----YGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 -----~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                           ...+++++||++|.|++++|++|.+
T Consensus       128 ~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         128 EKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             hhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence                 2357999999999999999999875

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

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

Probab=99.34  E-value=9.7e-12  Score=86.17  Aligned_cols=86  Identities=14%  Similarity=0.087  Sum_probs=63.7

Q ss_pred             cCeEEEEEeeCCh-hh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCC
Q 032001           20 LCRFKYCTYKIAS-YH--FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNL   96 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s--~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~   96 (149)
                      ..+++++|+|.++ .+  +.....|+..+.... .++|+++|+||+|+. ....+.  ....+....+.+++++||++|.
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~-~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~  154 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLL-TFEDLS--EIEEEEELEGEEVLKISTLTEE  154 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccC-chhhHH--HHHHhhhhccCceEEEEecccC
Confidence            3567889999986 43  456667888886643 478999999999987 322221  2334444456789999999999


Q ss_pred             CHHHHHHHHHHHH
Q 032001           97 NVEQVFFSIARDI  109 (149)
Q Consensus        97 ~i~el~~~l~~~i  109 (149)
                      |++++|+++.+.+
T Consensus       155 gi~~l~~~l~~~~  167 (168)
T cd01897         155 GVDEVKNKACELL  167 (168)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998865

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd01898 Obg Obg subfamily

Probab=99.33  E-value=1.6e-11  Score=85.19  Aligned_cols=99  Identities=17%  Similarity=0.145  Sum_probs=71.4

Q ss_pred             cccccchhhhhh--cCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            8 CFIGVYPPYLAV--LCRFKYCTYKIAS--YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         8 ~~~~~~~~~~~~--~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      ++..++..+++.  ..+++++|+|.++  .+++....|.+++.....  .++|+++|+||+|+. .... .......+..
T Consensus        64 ~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~-~~~~-~~~~~~~~~~  141 (170)
T cd01898          64 EGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL-DEEE-LFELLKELLK  141 (170)
T ss_pred             ccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC-Cchh-hHHHHHHHHh
Confidence            334556666554  3456888889985  478899999999876542  368999999999986 3222 2233334444


Q ss_pred             H-hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           82 E-YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        82 ~-~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      . .+.+++.+||+++.|++++|+++++.
T Consensus       142 ~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         142 ELWGKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             hCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence            4 36789999999999999999999864

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.30  E-value=4.9e-11  Score=91.03  Aligned_cols=79  Identities=11%  Similarity=0.237  Sum_probs=64.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC------------CCCeEEEEeeCCCCCcCCC--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS------------DNVNKVLVGNKADMDESKR--   69 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~------------~~~~iilv~nK~Dl~~~~~--   69 (149)
                      |.++|+++++.||+++++ +|+|||+++ .+|+.+..|++++.....            .++|+++||||+||. ...  
T Consensus        92 GqErfrsL~~~yyr~Adg-iILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~-~~~~~  169 (334)
T PLN00023         92 GHERYKDCRSLFYSQING-VIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIA-PKEGT  169 (334)
T ss_pred             CChhhhhhhHHhccCCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccc-ccccc
Confidence            457999999999998766 789999998 999999999999987531            358999999999996 321  


Q ss_pred             -C---CCHHHHHHHHHHhCC
Q 032001           70 -A---VPTSKGQALADEYGI   85 (149)
Q Consensus        70 -~---~~~~~~~~~~~~~~~   85 (149)
                       .   +..+++..|++.+++
T Consensus       170 r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        170 RGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             cccccccHHHHHHHHHHcCC
Confidence             2   356788899988773

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.29  E-value=3.6e-11  Score=81.78  Aligned_cols=100  Identities=20%  Similarity=0.261  Sum_probs=81.8

Q ss_pred             ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      .+-.+||. ..|++++||+..+ +||+.+.-+..+|..... ..+||++++||.|+. +.+++....+..|+....+..+
T Consensus        76 eLprhy~q-~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~-~p~~vd~d~A~~Wa~rEkvkl~  153 (198)
T KOG3883|consen   76 ELPRHYFQ-FADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRA-EPREVDMDVAQIWAKREKVKLW  153 (198)
T ss_pred             hhhHhHhc-cCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcc-cchhcCHHHHHHHHhhhheeEE
Confidence            34445554 4555899999998 999988776666655332 569999999999997 5677888899999999999999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++|++...+-|.|..|+..+...
T Consensus       154 eVta~dR~sL~epf~~l~~rl~~p  177 (198)
T KOG3883|consen  154 EVTAMDRPSLYEPFTYLASRLHQP  177 (198)
T ss_pred             EEEeccchhhhhHHHHHHHhccCC
Confidence            999999999999999999888655

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

Probab=99.25  E-value=1.2e-10  Score=81.25  Aligned_cols=104  Identities=9%  Similarity=0.060  Sum_probs=75.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.+++|.+|++||.+.+++|++|.+.+.+.+...+..+..+..... .+.|+++.+||.|++   ...+..+........
T Consensus        70 Gq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~---~als~~ei~~~L~l~  146 (181)
T KOG0070|consen   70 GQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLP---GALSAAEITNKLGLH  146 (181)
T ss_pred             CCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcc---ccCCHHHHHhHhhhh
Confidence            4589999999999999996666644444777777766666655433 578999999999998   223333333333222


Q ss_pred             -----CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 -----GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 -----~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                           ...+..++|.+|+|+.|.++++.+.+..
T Consensus       147 ~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~  179 (181)
T KOG0070|consen  147 SLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKK  179 (181)
T ss_pred             ccCCCCcEEeeccccccccHHHHHHHHHHHHhc
Confidence                 2346689999999999999999987753

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.24  E-value=7.1e-11  Score=80.29  Aligned_cols=98  Identities=12%  Similarity=0.192  Sum_probs=69.9

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHH--
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQ-ALA--   80 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~--   80 (149)
                      .++|+.++..++.+.+. +++|+|.++ .++.....|+.++.... ..++|+++|+||.|+. ...  ...... .+.  
T Consensus        54 ~~~~~~~~~~~~~~~d~-ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~-~~~--~~~~~~~~~~~~  129 (159)
T cd04159          54 QPRFRSMWERYCRGVNA-IVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLP-GAL--SVDELIEQMNLK  129 (159)
T ss_pred             CHhHHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc-CCc--CHHHHHHHhCcc
Confidence            35677888888888765 778889887 78888888877765422 2578999999999986 322  111111 111  


Q ss_pred             --HHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           81 --DEYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        81 --~~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                        .....+++++||++|.|+++++++|++
T Consensus       130 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         130 SITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             cccCCceEEEEEEeccCCChHHHHHHHhh
Confidence              112357899999999999999999875

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.24  E-value=2e-11  Score=82.57  Aligned_cols=87  Identities=11%  Similarity=0.040  Sum_probs=61.3

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-c
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-K   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~   86 (149)
                      |+.+.+ ++++++ ++++|||+++ .++.. ..|...+      ..|+++|+||+|+. + .....+....+++..+. +
T Consensus        53 ~~~~~~-~~~~ad-~vilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~-~-~~~~~~~~~~~~~~~~~~~  121 (142)
T TIGR02528        53 YSALIV-TAADAD-VIALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLA-E-ADVDIERAKELLETAGAEP  121 (142)
T ss_pred             HHHHHH-HhhcCC-EEEEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccC-C-cccCHHHHHHHHHHcCCCc
Confidence            444443 455554 5788899987 66654 3454422      24999999999986 3 33344555666666665 7


Q ss_pred             EEEecCCCCCCHHHHHHHHH
Q 032001           87 FFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~  106 (149)
                      ++++||++|.|++++|++++
T Consensus       122 ~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       122 IFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             EEEEecCCCCCHHHHHHHHh
Confidence            99999999999999999875

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.

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

Probab=99.23  E-value=1.7e-10  Score=79.17  Aligned_cols=101  Identities=12%  Similarity=0.138  Sum_probs=74.6

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHH------HHHH
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSK------GQAL   79 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~------~~~~   79 (149)
                      .++++|++||...+++ |+|+|..+ ..++.....+.++.. ..-...|+++++||.|++   .....+.      +..+
T Consensus        72 ~lr~~W~nYfestdgl-IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~---~~l~~~~i~~~~~L~~l  147 (185)
T KOG0073|consen   72 TLRSYWKNYFESTDGL-IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLP---GALSLEEISKALDLEEL  147 (185)
T ss_pred             hhHHHHHHhhhccCeE-EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCc---cccCHHHHHHhhCHHHh
Confidence            4689999999999885 55556665 788887766666543 222458999999999997   2222222      2334


Q ss_pred             HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           80 ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++...++++.|||.+|+++.+-++||...+.++
T Consensus       148 ~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  148 AKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             ccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence            456678999999999999999999999888664

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.21  E-value=1.5e-10  Score=89.09  Aligned_cols=97  Identities=16%  Similarity=0.201  Sum_probs=70.7

Q ss_pred             ccchhhhhh--cCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001           11 GVYPPYLAV--LCRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus        11 ~~~~~~~~~--~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      .+...+++.  ..+++++|+|+++    .+++....|.+++..+..  .+.|+++|+||+|+. ... ........+.+.
T Consensus       224 gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~-~~~-~~~~~~~~l~~~  301 (329)
T TIGR02729       224 GLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLL-DEE-ELAELLKELKKA  301 (329)
T ss_pred             cHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCC-ChH-HHHHHHHHHHHH
Confidence            455555554  2355888889874    477888899988876532  468999999999997 321 122333445555


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .+.+++++||+++.|+++++++|.+.+
T Consensus       302 ~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       302 LGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             cCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            677899999999999999999998754

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.21  E-value=9.8e-11  Score=81.54  Aligned_cols=97  Identities=11%  Similarity=0.077  Sum_probs=66.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      .+|..++..++.+.+. +++|+|..+ .++.....|+..+... ...++|+++++||.|+. ..  ..............
T Consensus        69 ~~~~~~~~~~~~~~~~-ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~--~~~~~i~~~l~~~~  144 (173)
T cd04155          69 RAIRPYWRNYFENTDC-LIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLA-TA--APAEEIAEALNLHD  144 (173)
T ss_pred             HHHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCc-cC--CCHHHHHHHcCCcc
Confidence            3566677777776655 788889987 7888888777766542 22568999999999986 21  11222211111111


Q ss_pred             -----CcEEEecCCCCCCHHHHHHHHHH
Q 032001           85 -----IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        85 -----~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                           .+++++||++|.|++++|++|++
T Consensus       145 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         145 LRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             cCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence                 24689999999999999999975

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.18  E-value=2e-11  Score=87.31  Aligned_cols=96  Identities=17%  Similarity=0.177  Sum_probs=63.3

Q ss_pred             cccccccchhhhhh-cC--eEEEEEeeCChhhHHHH-HHH------------HHHHHHhcCCCCeEEEEeeCCCCCcCCC
Q 032001            6 CLCFIGVYPPYLAV-LC--RFKYCTYKIASYHFSDI-RNW------------IRNIEQHASDNVNKVLVGNKADMDESKR   69 (149)
Q Consensus         6 ~~~~~~~~~~~~~~-~~--~~vi~v~~~~~~s~~~~-~~~------------~~~i~~~~~~~~~iilv~nK~Dl~~~~~   69 (149)
                      .++|+.++..|+.. ++  +++++|+|.+.  +... ..|            ...+..   .++|+++|+||+|+. ...
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~-~~~  146 (201)
T PRK04213         73 QEKIKDEIVRYIEDNADRILAAVLVVDGKS--FIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKI-KNR  146 (201)
T ss_pred             HHHHHHHHHHHHHhhhhhheEEEEEEeCcc--ccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECcccc-CcH
Confidence            36788888888873 33  45666666542  2222 233            222222   468999999999986 221


Q ss_pred             CCCHHHHHHHHHHhCC---------cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           70 AVPTSKGQALADEYGI---------KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        70 ~~~~~~~~~~~~~~~~---------~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                         ......+.+..+.         +++++||++| |++++|++|++.+.+
T Consensus       147 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        147 ---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             ---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence               2334455555554         4799999999 999999999987643

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

Probab=99.17  E-value=1.9e-10  Score=77.81  Aligned_cols=102  Identities=13%  Similarity=0.161  Sum_probs=71.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALA---   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~---   80 (149)
                      |..||++||..|+++.+.++++|...+++.+......+..+.. ..-..+|+++.|||.|++ +  ......+....   
T Consensus        74 Gq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~-~--AL~~~~li~rmgL~  150 (186)
T KOG0075|consen   74 GQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLP-G--ALSKIALIERMGLS  150 (186)
T ss_pred             CCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCc-c--cccHHHHHHHhCcc
Confidence            5789999999999999887666655555656666555555443 222689999999999997 2  12222221111   


Q ss_pred             --HHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           81 --DEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        81 --~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                        ....+..|.+|++...|++.+++||.+..
T Consensus       151 sitdREvcC~siScke~~Nid~~~~Wli~hs  181 (186)
T KOG0075|consen  151 SITDREVCCFSISCKEKVNIDITLDWLIEHS  181 (186)
T ss_pred             ccccceEEEEEEEEcCCccHHHHHHHHHHHh
Confidence              11224689999999999999999998754

>cd01878 HflX HflX subfamily

Probab=99.12  E-value=3.9e-10  Score=80.85  Aligned_cols=82  Identities=13%  Similarity=0.077  Sum_probs=61.5

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE   99 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~   99 (149)
                      .+++++|+|.++ .++.....|...+......++|+++|+||+|+. ....     ........+.+++++||+++.|++
T Consensus       121 ~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~-~~~~-----~~~~~~~~~~~~~~~Sa~~~~gi~  194 (204)
T cd01878         121 ADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLL-DDEE-----LEERLEAGRPDAVFISAKTGEGLD  194 (204)
T ss_pred             CCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccC-ChHH-----HHHHhhcCCCceEEEEcCCCCCHH
Confidence            455888889986 777778788877766444568999999999987 2211     112333445689999999999999


Q ss_pred             HHHHHHHHH
Q 032001          100 QVFFSIARD  108 (149)
Q Consensus       100 el~~~l~~~  108 (149)
                      +++++|...
T Consensus       195 ~l~~~L~~~  203 (204)
T cd01878         195 ELLEAIEEL  203 (204)
T ss_pred             HHHHHHHhh
Confidence            999999864

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.11  E-value=1.5e-09  Score=86.00  Aligned_cols=98  Identities=15%  Similarity=0.283  Sum_probs=73.2

Q ss_pred             cccchhhhhhc--CeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001           10 IGVYPPYLAVL--CRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus        10 ~~~~~~~~~~~--~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      ..+...|++..  .+++++|+|+++    .++++...|.+++..+.+  .+.|+++|+||+|+. ..    ......+.+
T Consensus       224 ~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~-~~----~e~l~~l~~  298 (424)
T PRK12297        224 VGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP-EA----EENLEEFKE  298 (424)
T ss_pred             chHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCc-CC----HHHHHHHHH
Confidence            34556666553  466888889863    567888889998887643  468999999999985 21    233445555


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+.+++.+||+++.|+++++++|.+.+.+.
T Consensus       299 ~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        299 KLGPKVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             HhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            5667899999999999999999999887654

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.08  E-value=7.9e-10  Score=76.62  Aligned_cols=83  Identities=18%  Similarity=0.116  Sum_probs=60.9

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC--cEEEecCCCCC
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI--KFFETSAKTNL   96 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~Sak~~~   96 (149)
                      ..+++++|+|.++ .++  ...|+.++.    .+.|+++++||+|+. ..   .......+....+.  +++++||++|.
T Consensus        64 ~ad~il~v~d~~~~~s~--~~~~~~~~~----~~~~ii~v~nK~Dl~-~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~  133 (158)
T PRK15467         64 DVDMLIYVHGANDPESR--LPAGLLDIG----VSKRQIAVISKTDMP-DA---DVAATRKLLLETGFEEPIFELNSHDPQ  133 (158)
T ss_pred             cCCEEEEEEeCCCcccc--cCHHHHhcc----CCCCeEEEEEccccC-cc---cHHHHHHHHHHcCCCCCEEEEECCCcc
Confidence            4466888899986 544  334555432    357899999999986 31   23455566666664  89999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 032001           97 NVEQVFFSIARDIKQR  112 (149)
Q Consensus        97 ~i~el~~~l~~~i~~~  112 (149)
                      |++++|+.+++.+.+.
T Consensus       134 gi~~l~~~l~~~~~~~  149 (158)
T PRK15467        134 SVQQLVDYLASLTKQE  149 (158)
T ss_pred             CHHHHHHHHHHhchhh
Confidence            9999999999877543

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

Probab=99.08  E-value=2.4e-09  Score=73.09  Aligned_cols=90  Identities=16%  Similarity=0.100  Sum_probs=62.7

Q ss_pred             cchhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe
Q 032001           12 VYPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET   90 (149)
Q Consensus        12 ~~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (149)
                      ++..++. ...+++++|+|..+  ......|...+..   .++|+++|+||+|+. ....+.. ....+....+.+++++
T Consensus        65 ~~~~~~~~~~~d~vi~v~d~~~--~~~~~~~~~~~~~---~~~~~iiv~NK~Dl~-~~~~~~~-~~~~~~~~~~~~~~~i  137 (158)
T cd01879          65 VARDFLLGEKPDLIVNVVDATN--LERNLYLTLQLLE---LGLPVVVALNMIDEA-EKRGIKI-DLDKLSELLGVPVVPT  137 (158)
T ss_pred             HHHHHhcCCCCcEEEEEeeCCc--chhHHHHHHHHHH---cCCCEEEEEehhhhc-ccccchh-hHHHHHHhhCCCeEEE
Confidence            3555554 34456788888885  2223345555544   368999999999997 3332222 2345666678899999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~  108 (149)
                      ||.+|.|+.++++.+.+.
T Consensus       138 Sa~~~~~~~~l~~~l~~~  155 (158)
T cd01879         138 SARKGEGIDELKDAIAEL  155 (158)
T ss_pred             EccCCCCHHHHHHHHHHH
Confidence            999999999999998875

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.07  E-value=8.2e-10  Score=78.74  Aligned_cols=91  Identities=14%  Similarity=0.037  Sum_probs=59.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-CCHHHHHHHHH--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-VPTSKGQALAD--   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-~~~~~~~~~~~--   81 (149)
                      |-++|..++..|+++++. +++|+|+++..+.....|+..+..   .++|+++|+||+|+. .... ....+...+..  
T Consensus        74 G~~~~~~~~~~~~~~~d~-~ilV~d~~~~~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~~  148 (194)
T cd01891          74 GHADFGGEVERVLSMVDG-VLLLVDASEGPMPQTRFVLKKALE---LGLKPIVVINKIDRP-DARPEEVVDEVFDLFIEL  148 (194)
T ss_pred             CcHHHHHHHHHHHHhcCE-EEEEEECCCCccHHHHHHHHHHHH---cCCCEEEEEECCCCC-CCCHHHHHHHHHHHHHHh
Confidence            345788888999988876 677888876334444555555443   468999999999996 2221 11122233332  


Q ss_pred             -----HhCCcEEEecCCCCCCHHH
Q 032001           82 -----EYGIKFFETSAKTNLNVEQ  100 (149)
Q Consensus        82 -----~~~~~~~~~Sak~~~~i~e  100 (149)
                           ..+.+++++||++|.|+.+
T Consensus       149 ~~~~~~~~~~iv~~Sa~~g~~~~~  172 (194)
T cd01891         149 GATEEQLDFPVLYASAKNGWASLN  172 (194)
T ss_pred             CCccccCccCEEEeehhccccccc
Confidence                 2257899999999977643

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

>cd04171 SelB SelB subfamily

Probab=99.06  E-value=8e-10  Score=75.87  Aligned_cols=97  Identities=14%  Similarity=0.035  Sum_probs=57.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH--
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE--   82 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~--   82 (149)
                      ++|......++++++ ++++|+|.++........++..+...  ...|+++|+||+|+. ....  ............  
T Consensus        62 ~~~~~~~~~~~~~ad-~ii~V~d~~~~~~~~~~~~~~~~~~~--~~~~~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~  137 (164)
T cd04171          62 EKFIKNMLAGAGGID-LVLLVVAADEGIMPQTREHLEILELL--GIKRGLVVLTKADLV-DEDWLELVEEEIRELLAGTF  137 (164)
T ss_pred             HHHHHHHHhhhhcCC-EEEEEEECCCCccHhHHHHHHHHHHh--CCCcEEEEEECcccc-CHHHHHHHHHHHHHHHHhcC
Confidence            445555555555554 57888898752112222222222221  124899999999997 2111  111222233333  


Q ss_pred             -hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 -YGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 -~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                       .+.+++++||++|.|++++|+.+.+
T Consensus       138 ~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         138 LADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             cCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence             3578999999999999999998864

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

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

Probab=99.06  E-value=1.2e-09  Score=75.97  Aligned_cols=90  Identities=17%  Similarity=0.100  Sum_probs=61.9

Q ss_pred             hhhcCeEEEEEeeCCh-h------hHHHHHHHHHHHHHhcC-------CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001           17 LAVLCRFKYCTYKIAS-Y------HFSDIRNWIRNIEQHAS-------DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~-~------s~~~~~~~~~~i~~~~~-------~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.+ .+++++|+|.++ .      ++.....|..++.....       .+.|+++|+||+|+. ................
T Consensus        72 ~~~-~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~-~~~~~~~~~~~~~~~~  149 (176)
T cd01881          72 IRR-ADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLD-DAEELEEELVRELALE  149 (176)
T ss_pred             Hhc-cCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcC-chhHHHHHHHHHHhcC
Confidence            444 456788888875 2      67777788888765432       368999999999987 3222211111222333


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      .+.+++.+||+++.|++++++++...
T Consensus       150 ~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         150 EGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             CCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            45679999999999999999998764

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

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.04  E-value=3.3e-09  Score=76.60  Aligned_cols=107  Identities=23%  Similarity=0.264  Sum_probs=78.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKR------------A   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~   70 (149)
                      +-++|+.+|+.|+++.+++ +++||...  .+++....|..++....+...|+++|+||+|+. ...            .
T Consensus        63 gq~~~~~~~~~y~~~~~~~-l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~~~  140 (219)
T COG1100          63 GQEEYRSLRPEYYRGANGI-LIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLF-DEQSSSEEILNQLNRE  140 (219)
T ss_pred             CHHHHHHHHHHHhcCCCEE-EEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccc-cchhHHHHHHhhhhcC
Confidence            4578899999999999995 66666664  556667899999887665579999999999997 332            2


Q ss_pred             CCHHHHHHHHHH---hCCcEEEecCC--CCCCHHHHHHHHHHHHHHHh
Q 032001           71 VPTSKGQALADE---YGIKFFETSAK--TNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        71 ~~~~~~~~~~~~---~~~~~~~~Sak--~~~~i~el~~~l~~~i~~~~  113 (149)
                      ............   ....++.+||+  ++.++.++|..+...+.+..
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         141 VVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             cchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence            222222222222   23348999999  99999999999999886553

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.04  E-value=1.3e-09  Score=89.77  Aligned_cols=98  Identities=19%  Similarity=0.215  Sum_probs=71.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      .+|...+..+++.++. +++|+|.++ .++.....|...+.    .++|+++|+||+|+. ..  ........+....+.
T Consensus        81 ~dF~~~v~~~l~~aD~-aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~-~~--~~~~~~~el~~~lg~  152 (595)
T TIGR01393        81 VDFSYEVSRSLAACEG-ALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLP-SA--DPERVKKEIEEVIGL  152 (595)
T ss_pred             HHHHHHHHHHHHhCCE-EEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCC-cc--CHHHHHHHHHHHhCC
Confidence            4677788888888766 677778886 66777777765443    367999999999986 21  122233445555554


Q ss_pred             ---cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 ---KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ---~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                         .++.+||++|.|++++|++|++.++..
T Consensus       153 ~~~~vi~vSAktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       153 DASEAILASAKTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             CcceEEEeeccCCCCHHHHHHHHHHhCCCC
Confidence               489999999999999999999877543

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=99.03  E-value=1.8e-09  Score=83.71  Aligned_cols=86  Identities=13%  Similarity=0.137  Sum_probs=63.0

Q ss_pred             hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-CHHHHHHHHHHhCCcEEEecCCCC
Q 032001           18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-PTSKGQALADEYGIKFFETSAKTN   95 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~Sak~~   95 (149)
                      +|++. +++|+++++ .++..++.|+..+..   .++|.++|+||+||. +.... ............+.+++.+||+++
T Consensus       119 ANvD~-vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~-~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg  193 (347)
T PRK12288        119 ANIDQ-IVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLL-DDEGRAFVNEQLDIYRNIGYRVLMVSSHTG  193 (347)
T ss_pred             EEccE-EEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCC-CcHHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence            44655 788889887 889999999886654   468999999999997 22110 011122233456789999999999


Q ss_pred             CCHHHHHHHHHHH
Q 032001           96 LNVEQVFFSIARD  108 (149)
Q Consensus        96 ~~i~el~~~l~~~  108 (149)
                      .|+++|+..|...
T Consensus       194 ~GideL~~~L~~k  206 (347)
T PRK12288        194 EGLEELEAALTGR  206 (347)
T ss_pred             cCHHHHHHHHhhC
Confidence            9999999988753

>cd01855 YqeH YqeH

Probab=99.01  E-value=1.8e-09  Score=76.84  Aligned_cols=94  Identities=18%  Similarity=0.197  Sum_probs=61.2

Q ss_pred             ccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH-----HHh
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA-----DEY   83 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~   83 (149)
                      |+.++..|+++++. +++|+|+.+..    ..|..++.... .+.|+++|+||+|+. . ..........+.     +..
T Consensus        24 ~~~~l~~~~~~ad~-il~VvD~~~~~----~~~~~~l~~~~-~~~~~ilV~NK~Dl~-~-~~~~~~~~~~~~~~~~~~~~   95 (190)
T cd01855          24 ILNLLSSISPKKAL-VVHVVDIFDFP----GSLIPRLRLFG-GNNPVILVGNKIDLL-P-KDKNLVRIKNWLRAKAAAGL   95 (190)
T ss_pred             HHHHHHhcccCCcE-EEEEEECccCC----CccchhHHHhc-CCCcEEEEEEchhcC-C-CCCCHHHHHHHHHHHHHhhc
Confidence            36677777777755 78888887521    12333332222 467999999999986 3 222233333333     223


Q ss_pred             CC---cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GI---KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~---~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.   +++.+||++|.|+++++..|.+.+.
T Consensus        96 ~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          96 GLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            32   6899999999999999999998774

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=99.01  E-value=1.2e-09  Score=87.97  Aligned_cols=100  Identities=14%  Similarity=0.030  Sum_probs=63.3

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHH-HHHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQA-LADE   82 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~-~~~~   82 (149)
                      +.|..++...+...++++++|+|.++ .++.+.. |+..+..   .++|+|+|+||+|+. ......  ...... +...
T Consensus       280 e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~-~~~~~~~~~~~i~~~l~~~  354 (472)
T PRK03003        280 EYYASLRTHAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLV-DEDRRYYLEREIDRELAQV  354 (472)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccC-ChhHHHHHHHHHHHhcccC
Confidence            34444444333334566888889987 6666653 4455443   468999999999997 211100  011111 1111


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ...+++++||++|.|++++|..+++.+..
T Consensus       355 ~~~~~~~~SAk~g~gv~~lf~~i~~~~~~  383 (472)
T PRK03003        355 PWAPRVNISAKTGRAVDKLVPALETALES  383 (472)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            23588999999999999999999986643

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.00  E-value=2.8e-09  Score=82.81  Aligned_cols=84  Identities=18%  Similarity=0.144  Sum_probs=59.3

Q ss_pred             hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001           17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN   95 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~   95 (149)
                      +.++ +++++|+|.++ .+++....|...+......++|+++|+||+|+. ...     ..... .....+++.+||++|
T Consensus       266 ~~~A-Dlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~-~~~-----~v~~~-~~~~~~~i~iSAktg  337 (351)
T TIGR03156       266 VREA-DLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL-DEP-----RIERL-EEGYPEAVFVSAKTG  337 (351)
T ss_pred             HHhC-CEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC-ChH-----hHHHH-HhCCCCEEEEEccCC
Confidence            4444 56899999986 677777777666655433578999999999987 221     11111 112246899999999


Q ss_pred             CCHHHHHHHHHHH
Q 032001           96 LNVEQVFFSIARD  108 (149)
Q Consensus        96 ~~i~el~~~l~~~  108 (149)
                      .|++++++.|.+.
T Consensus       338 ~GI~eL~~~I~~~  350 (351)
T TIGR03156       338 EGLDLLLEAIAER  350 (351)
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999998764

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).

>cd01859 MJ1464 MJ1464

Probab=98.98  E-value=2.4e-09  Score=73.80  Aligned_cols=95  Identities=18%  Similarity=0.082  Sum_probs=60.9

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF   87 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   87 (149)
                      |+.++.++.++++. +++|+|..+ ..... ..+...+..   .+.|+++|+||+|+. ....  ......+....+.++
T Consensus         2 ~~~~~~~i~~~aD~-vl~V~D~~~~~~~~~-~~l~~~~~~---~~~p~iiv~NK~Dl~-~~~~--~~~~~~~~~~~~~~~   73 (156)
T cd01859           2 WKRLVRRIIKESDV-VLEVLDARDPELTRS-RKLERYVLE---LGKKLLIVLNKADLV-PKEV--LEKWKSIKESEGIPV   73 (156)
T ss_pred             HHHHHHHHHhhCCE-EEEEeeCCCCcccCC-HHHHHHHHh---CCCcEEEEEEhHHhC-CHHH--HHHHHHHHHhCCCcE
Confidence            45667777777755 677778864 22221 223222222   357999999999986 2111  111112333345689


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+||+++.|++++++.+.+.++.
T Consensus        74 ~~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          74 VYVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EEEEccccccHHHHHHHHHHHHhh
Confidence            999999999999999999987753

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.98  E-value=4.1e-09  Score=81.81  Aligned_cols=95  Identities=18%  Similarity=0.186  Sum_probs=66.8

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      |-..+..+.+++++. +++|+|+.+  .++..+..|+..+..   .++|+|+|+||+||. ....  ...........++
T Consensus        78 R~~~L~R~~~aNvD~-vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv-~~~~--~~~~~~~~~~~g~  150 (352)
T PRK12289         78 RKTELDRPPVANADQ-ILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLV-SPTE--QQQWQDRLQQWGY  150 (352)
T ss_pred             cccceechhhhcCCE-EEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcC-ChHH--HHHHHHHHHhcCC
Confidence            344555667777765 788888874  355567888877644   468999999999997 2111  1122223345678


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .++.+||+++.|+++|++.+...+
T Consensus       151 ~v~~iSA~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        151 QPLFISVETGIGLEALLEQLRNKI  174 (352)
T ss_pred             eEEEEEcCCCCCHHHHhhhhccce
Confidence            899999999999999999887643

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.98  E-value=3.5e-10  Score=79.44  Aligned_cols=103  Identities=23%  Similarity=0.394  Sum_probs=82.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.|+|..++..||-.+.-+ +++||++. -+...+.+|..++.... .++|||+.|||.|.. . +. .......+-+..
T Consensus        68 gqEk~gglrdgyyI~~qcA-iimFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~-~-r~-~k~k~v~~~rkk  142 (216)
T KOG0096|consen   68 GQEKKGGLRDGYYIQGQCA-IIMFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIK-A-RK-VKAKPVSFHRKK  142 (216)
T ss_pred             cceeecccccccEEeccee-EEEeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceecc-c-cc-cccccceeeecc
Confidence            6789999999999998885 66778886 88999999999998876 469999999999986 2 22 122223344556


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++.++++||+++.|.+..|-++++.+...
T Consensus       143 nl~y~~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  143 NLQYYEISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             cceeEEeecccccccccchHHHhhhhcCC
Confidence            77899999999999999999999988644

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.98  E-value=5.5e-09  Score=73.09  Aligned_cols=98  Identities=12%  Similarity=0.009  Sum_probs=73.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~-   83 (149)
                      |-+||.+||..++++..+++++|.+..+..+ .....++.+....  .+|+++.+||.||.   ...+.+......... 
T Consensus        77 Gq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~---~a~ppe~i~e~l~~~~  150 (187)
T COG2229          77 GQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLF---DALPPEKIREALKLEL  150 (187)
T ss_pred             CcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccC---CCCCHHHHHHHHHhcc
Confidence            5589999999999999998888755555667 6666666655432  39999999999998   333444444444443 


Q ss_pred             -CCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           84 -GIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        84 -~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                       ..+++.++|..+++..+.++.+...
T Consensus       151 ~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         151 LSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             CCCceeeeecccchhHHHHHHHHHhh
Confidence             7899999999999998887777654

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

Probab=98.97  E-value=8.2e-10  Score=76.59  Aligned_cols=104  Identities=12%  Similarity=0.142  Sum_probs=74.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHH---HH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQ---AL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~---~~   79 (149)
                      |.+..+++|..||..+++ +|+++|.++ +.|+....-.+.+..+- -.++|+++.+||.|+. +..  ...+..   ..
T Consensus        78 GQe~lrSlw~~yY~~~H~-ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q-~~~--~~~El~~~~~~  153 (197)
T KOG0076|consen   78 GQESLRSLWKKYYWLAHG-IIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQ-NAM--EAAELDGVFGL  153 (197)
T ss_pred             ChHHHHHHHHHHHHHhce-eEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhh-hhh--hHHHHHHHhhh
Confidence            345678999999999988 566667766 88888776666654422 2689999999999997 322  222222   22


Q ss_pred             HHHhC---CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           80 ADEYG---IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~---~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +...+   .++..+||.+|+||++-..|++..+...
T Consensus       154 ~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  154 AELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            33333   4688999999999999999999887654

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.95  E-value=1.2e-08  Score=67.87  Aligned_cols=95  Identities=32%  Similarity=0.516  Sum_probs=63.9

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHH-HHhcCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHHHhCCc
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSK-GQALADEYGIK   86 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i-~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~~~~~~   86 (149)
                      ...+..++... +++++|+|.+. .++.....|+... ......++|+++++||+|+. ......... ..........+
T Consensus        59 ~~~~~~~~~~~-~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~-~~~~~~~~~~~~~~~~~~~~~  136 (157)
T cd00882          59 RSLRRLYYRGA-DGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLP-EERVVSEEELAEQLAKELGVP  136 (157)
T ss_pred             HhHHHHHhcCC-CEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccc-cccchHHHHHHHHHHhhcCCc
Confidence            33344455445 45788889987 7788888773332 22333679999999999986 322211111 23334445679


Q ss_pred             EEEecCCCCCCHHHHHHHHH
Q 032001           87 FFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~  106 (149)
                      ++.+|+..+.|+++++++|+
T Consensus       137 ~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         137 YFETSAKTGENVEELFEELA  156 (157)
T ss_pred             EEEEecCCCCChHHHHHHHh
Confidence            99999999999999999886

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

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.95  E-value=3.9e-09  Score=72.15  Aligned_cols=105  Identities=16%  Similarity=0.241  Sum_probs=79.1

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc----CCCCCCHHHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE----SKRAVPTSKGQALA   80 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~----~~~~~~~~~~~~~~   80 (149)
                      .++|+.|.|.-..+. .+++++||++. .+++.+..|+...+......+| |+||+|.|+--    +.+.....+++.++
T Consensus        79 ~~~~~n~lPiac~ds-vaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YA  156 (205)
T KOG1673|consen   79 QREFINMLPIACKDS-VAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYA  156 (205)
T ss_pred             cHhhhccCceeecCc-EEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHH
Confidence            356777777765554 55899999997 8999999999998775545566 67899999530    11111123456677


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +-++.+.|++|+....||..+|.-+...++.-
T Consensus       157 k~mnAsL~F~Sts~sINv~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  157 KVMNASLFFCSTSHSINVQKIFKIVLAKLFNL  188 (205)
T ss_pred             HHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence            88889999999999999999999999888654

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

Probab=98.92  E-value=5.2e-09  Score=70.39  Aligned_cols=102  Identities=10%  Similarity=0.061  Sum_probs=71.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++-|.+|.+||.+..++++++.+.+....+.....+..+.+... .+.++++.+||.|++ +  ...+.+...+.+..
T Consensus        70 Gqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp-~--A~~pqei~d~leLe  146 (180)
T KOG0071|consen   70 GQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLP-D--AMKPQEIQDKLELE  146 (180)
T ss_pred             CchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccc-c--ccCHHHHHHHhccc
Confidence            3467889999999999996666644444555666555555544322 578999999999998 3  23344544443322


Q ss_pred             -----CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 -----GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 -----~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                           .+.+..++|.+|.++.|-|.+|...+
T Consensus       147 ~~r~~~W~vqp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  147 RIRDRNWYVQPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             cccCCccEeeccccccchhHHHHHHHHHhhc
Confidence                 24567899999999999999998755

>TIGR00436 era GTP-binding protein Era

Probab=98.92  E-value=7.3e-09  Score=77.71  Aligned_cols=88  Identities=14%  Similarity=-0.047  Sum_probs=59.3

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAK   93 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak   93 (149)
                      ++.++ +++++|+|.++ .+++  ..|+..+..   .+.|+++|+||+|+. ... ........+....+. +++++||+
T Consensus        76 ~l~~a-Dvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~-~~~-~~~~~~~~~~~~~~~~~v~~iSA~  147 (270)
T TIGR00436        76 AIGGV-DLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNK-FKD-KLLPLIDKYAILEDFKDIVPISAL  147 (270)
T ss_pred             HHhhC-CEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCC-CHH-HHHHHHHHHHhhcCCCceEEEecC
Confidence            44444 55788888886 4443  445554443   368999999999986 221 112233334444444 79999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~~  111 (149)
                      +|.|++++++.+.+.+++
T Consensus       148 ~g~gi~~L~~~l~~~l~~  165 (270)
T TIGR00436       148 TGDNTSFLAAFIEVHLPE  165 (270)
T ss_pred             CCCCHHHHHHHHHHhCCC
Confidence            999999999999887744

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

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

Probab=98.92  E-value=8.6e-09  Score=71.12  Aligned_cols=98  Identities=15%  Similarity=0.068  Sum_probs=58.8

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHH----
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQALAD----   81 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~----   81 (149)
                      +.|..++..++..+ +++++|+|.++.........+..+..   .++|+++|+||+|+. ...... ......+..    
T Consensus        61 ~~~~~~~~~~~~~~-d~il~v~d~~~~~~~~~~~~~~~~~~---~~~p~ivv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~  135 (168)
T cd01887          61 EAFTNMRARGASLT-DIAILVVAADDGVMPQTIEAIKLAKA---ANVPFIVALNKIDKP-NANPERVKNELSELGLQGED  135 (168)
T ss_pred             HHHHHHHHHHHhhc-CEEEEEEECCCCccHHHHHHHHHHHH---cCCCEEEEEEceecc-cccHHHHHHHHHHhhccccc
Confidence            45666777666655 45788888875111111122222333   468999999999986 221100 011111111    


Q ss_pred             H--hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 E--YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ~--~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .  ...+++++||++|.|+++++++|.+..
T Consensus       136 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         136 EWGGDVQIVPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             cccCcCcEEEeecccCCCHHHHHHHHHHhh
Confidence            1  135799999999999999999998754

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.90  E-value=1.6e-08  Score=81.51  Aligned_cols=90  Identities=20%  Similarity=0.254  Sum_probs=63.1

Q ss_pred             CeEEEEEeeCCh-----hhHHHHHHHHHHHHHhcC-----------CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001           21 CRFKYCTYKIAS-----YHFSDIRNWIRNIEQHAS-----------DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus        21 ~~~vi~v~~~~~-----~s~~~~~~~~~~i~~~~~-----------~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      .+++++|+|.++     .++.....|..++..+..           ...|+|+|+||+|++ ..... ...........+
T Consensus       237 advLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~-da~el-~e~l~~~l~~~g  314 (500)
T PRK12296        237 CAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVP-DAREL-AEFVRPELEARG  314 (500)
T ss_pred             cCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccch-hhHHH-HHHHHHHHHHcC
Confidence            355788888863     356667777777765431           368999999999997 32211 112222233457


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++++.+||+++.|+++++.+|.+.+...
T Consensus       315 ~~Vf~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        315 WPVFEVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            8899999999999999999999887654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.90  E-value=8.6e-09  Score=78.06  Aligned_cols=85  Identities=15%  Similarity=0.114  Sum_probs=62.2

Q ss_pred             hhhhcCeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001           16 YLAVLCRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK   93 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak   93 (149)
                      .+++++. +++|+|.++ . ++..+++|+..+..   .++|+++|+||+||. +.  ........+....+.+++.+||+
T Consensus        75 i~anvD~-vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~-~~--~~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          75 IAANVDQ-LVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLL-DD--EEEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             EEEeCCE-EEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCC-Ch--HHHHHHHHHHHhCCCeEEEEECC
Confidence            3555544 778888875 4 88888999987765   468999999999996 22  11112222334467899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIAR  107 (149)
Q Consensus        94 ~~~~i~el~~~l~~  107 (149)
                      ++.|+++|+..|..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999888774

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.89  E-value=1.4e-08  Score=71.14  Aligned_cols=96  Identities=16%  Similarity=0.093  Sum_probs=62.9

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH--
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE--   82 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~--   82 (149)
                      .|...+..++..++. +++|+|... .+.. ...++..+..   .+.|+++|+||+|+. ......  ........+.  
T Consensus        74 ~~~~~~~~~~~~~d~-~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~  147 (189)
T cd00881          74 DFSSEVIRGLSVSDG-AILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRV-GEEDLEEVLREIKELLGLIG  147 (189)
T ss_pred             HHHHHHHHHHHhcCE-EEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCc-chhcHHHHHHHHHHHHcccc
Confidence            456677788877766 667778875 3332 3344444443   468999999999987 211111  1122222222  


Q ss_pred             ------------hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 ------------YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ------------~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                                  ...+++++||++|.|+++++.+|.+.+
T Consensus       148 ~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         148 FISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             ccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                        246889999999999999999999876

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.89  E-value=2.8e-08  Score=66.97  Aligned_cols=98  Identities=22%  Similarity=0.288  Sum_probs=67.5

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh--hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      -++|+.++..++..... ++.++|+..  .++.... .|...+......+.|+++++||.|+. ... ........+...
T Consensus        60 ~~~~~~~~~~~~~~~~~-~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~-~~~~~~~~~~~~  136 (161)
T TIGR00231        60 QEDYRAIRRLYYRAVES-SLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLR-DAK-LKTHVAFLFAKL  136 (161)
T ss_pred             cccchHHHHHHHhhhhE-EEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCC-cch-hhHHHHHHHhhc
Confidence            35677788877776655 566667763  5566654 77777666543478999999999987 322 222233333333


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~  106 (149)
                      ...+++++||++|.|+.++|++|-
T Consensus       137 ~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231       137 NGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             cCCceEEeecCCCCCHHHHHHHhh
Confidence            456899999999999999998863

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.88  E-value=1.4e-08  Score=83.93  Aligned_cols=98  Identities=22%  Similarity=0.223  Sum_probs=68.9

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      ..|...+..+++.+++ +++|+|.++ ........|.....    .++|+++|+||+|+. ...  .......+....+.
T Consensus        85 ~dF~~~v~~sl~~aD~-aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~-~a~--~~~v~~ei~~~lg~  156 (600)
T PRK05433         85 VDFSYEVSRSLAACEG-ALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLP-AAD--PERVKQEIEDVIGI  156 (600)
T ss_pred             HHHHHHHHHHHHHCCE-EEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCC-ccc--HHHHHHHHHHHhCC
Confidence            4566777888888766 677778875 45555666654332    368999999999986 211  12223344444554


Q ss_pred             ---cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 ---KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ---~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                         .++.+||++|.|+++++++|++.++..
T Consensus       157 ~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        157 DASDAVLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             CcceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence               389999999999999999999887654

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.87  E-value=3e-08  Score=78.03  Aligned_cols=94  Identities=20%  Similarity=0.250  Sum_probs=66.6

Q ss_pred             hhhhcCeEEEEEeeCC---h-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcE
Q 032001           16 YLAVLCRFKYCTYKIA---S-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKF   87 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~---~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~   87 (149)
                      ++.++ +++++|+|++   . .++.....|++++..+..  .+.|+++|+||+|+. ....+ ......+.+..+  .++
T Consensus       234 ~i~ra-dvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~-~~~el-~~~l~~l~~~~~~~~~V  310 (390)
T PRK12298        234 HLERC-RVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLL-DEEEA-EERAKAIVEALGWEGPV  310 (390)
T ss_pred             HHHhC-CEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccC-ChHHH-HHHHHHHHHHhCCCCCE
Confidence            34444 4477777876   3 567778889888876532  368999999999986 32211 223333444444  368


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.+||+++.+++++++.|.+.+.+.
T Consensus       311 i~ISA~tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        311 YLISAASGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             EEEECCCCcCHHHHHHHHHHHhhhC
Confidence            9999999999999999999988654

>PRK00098 GTPase RsgA; Reviewed

Probab=98.86  E-value=1.3e-08  Score=77.52  Aligned_cols=84  Identities=17%  Similarity=0.141  Sum_probs=58.7

Q ss_pred             hhcCeEEEEEeeCCh-hh-HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001           18 AVLCRFKYCTYKIAS-YH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN   95 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~-~s-~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~   95 (149)
                      +++ +.+++|+|+.+ .+ ...+..|+..+..   .++|+++|+||+|+. .... .........+..+.+++.+||+++
T Consensus        79 ani-D~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~-~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         79 ANV-DQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLL-DDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             ecC-CEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcC-CCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            444 45788889864 33 4456888887755   468999999999996 2211 111223344556788999999999


Q ss_pred             CCHHHHHHHHHH
Q 032001           96 LNVEQVFFSIAR  107 (149)
Q Consensus        96 ~~i~el~~~l~~  107 (149)
                      .|+++++..+..
T Consensus       153 ~gi~~L~~~l~g  164 (298)
T PRK00098        153 EGLDELKPLLAG  164 (298)
T ss_pred             ccHHHHHhhccC
Confidence            999999988753

>PRK11058 GTPase HflX; Provisional

Probab=98.86  E-value=3.4e-08  Score=78.56  Aligned_cols=87  Identities=17%  Similarity=0.124  Sum_probs=60.1

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc-EEEecCCCCCC
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK-FFETSAKTNLN   97 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~Sak~~~~   97 (149)
                      .++++++|+|.++ .++.....|...+......++|+++|+||+|+. ....   ....  ....+.+ ++.+||++|.|
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~-~~~~---~~~~--~~~~~~~~~v~ISAktG~G  349 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDML-DDFE---PRID--RDEENKPIRVWLSAQTGAG  349 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCC-Cchh---HHHH--HHhcCCCceEEEeCCCCCC
Confidence            4566899999987 667776655554444333578999999999986 2111   1111  1123444 58899999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 032001           98 VEQVFFSIARDIKQR  112 (149)
Q Consensus        98 i~el~~~l~~~i~~~  112 (149)
                      +++++++|.+.+...
T Consensus       350 IdeL~e~I~~~l~~~  364 (426)
T PRK11058        350 IPLLFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHHHHhhhc
Confidence            999999999988543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.86  E-value=2e-08  Score=79.71  Aligned_cols=90  Identities=14%  Similarity=0.029  Sum_probs=57.8

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----hCCcEEEe
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----YGIKFFET   90 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~   90 (149)
                      +++.+ +++++|+|.++ .+.... .++..+..   .+.|+++|+||+|+. ............+...    .+.+++++
T Consensus       251 ~~~~a-d~~ilV~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~vi~~  324 (429)
T TIGR03594       251 AIERA-DVVLLVLDATEGITEQDL-RIAGLILE---AGKALVIVVNKWDLV-KDEKTREEFKKELRRKLPFLDFAPIVFI  324 (429)
T ss_pred             HHHhC-CEEEEEEECCCCccHHHH-HHHHHHHH---cCCcEEEEEECcccC-CCHHHHHHHHHHHHHhcccCCCCceEEE
Confidence            34444 55788889886 554443 34444443   368999999999986 2111111111122222    23689999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ||++|.|++++|+++.+....
T Consensus       325 SA~~g~~v~~l~~~i~~~~~~  345 (429)
T TIGR03594       325 SALTGQGVDKLLDAIDEVYEN  345 (429)
T ss_pred             eCCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999886543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.85  E-value=1.2e-08  Score=82.16  Aligned_cols=92  Identities=11%  Similarity=0.063  Sum_probs=61.0

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-c
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-K   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~   86 (149)
                      +...+..++..++ ++++|+|.++ .++.. ..|...+..   .++|+++|+||+|+. ...   ......+  ..++ .
T Consensus       107 ~~~~~~~~~~~aD-~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~-~~~---~~~~~~~--~~g~~~  175 (472)
T PRK03003        107 VAEQAEVAMRTAD-AVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDE-RGE---ADAAALW--SLGLGE  175 (472)
T ss_pred             HHHHHHHHHHhCC-EEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCC-ccc---hhhHHHH--hcCCCC
Confidence            3344555666665 5788889986 44432 345444443   468999999999986 211   1111122  2233 4


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           87 FFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++||++|.|++++|+++++.+.+
T Consensus       176 ~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        176 PHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             eEEEEcCCCCCcHHHHHHHHhhccc
Confidence            5799999999999999999988865

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.84  E-value=7.3e-09  Score=80.75  Aligned_cols=96  Identities=20%  Similarity=0.195  Sum_probs=67.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH----HH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA----LA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~----~~   80 (149)
                      ..+.|+.+...++.+.+ ++++|+|+.+    ....|..++.+.. .+.|+++|+||+|+. . +.........    ++
T Consensus        49 ~~e~f~~~l~~~~~~~~-~Il~VvD~~d----~~~s~~~~l~~~~-~~~piilV~NK~DLl-~-k~~~~~~~~~~l~~~~  120 (360)
T TIGR03597        49 NDDDFLNLLNSLGDSNA-LIVYVVDIFD----FEGSLIPELKRFV-GGNPVLLVGNKIDLL-P-KSVNLSKIKEWMKKRA  120 (360)
T ss_pred             CHHHHHHHHhhcccCCc-EEEEEEECcC----CCCCccHHHHHHh-CCCCEEEEEEchhhC-C-CCCCHHHHHHHHHHHH
Confidence            45678888888877664 5788888864    1244666665544 367999999999986 3 2233333333    34


Q ss_pred             HHhCC---cEEEecCCCCCCHHHHHHHHHHH
Q 032001           81 DEYGI---KFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        81 ~~~~~---~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +..++   .++.+||++|.|+++++..|.+.
T Consensus       121 k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       121 KELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            55665   48999999999999999999764

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.

>cd01889 SelB_euk SelB subfamily

Probab=98.84  E-value=3.3e-08  Score=70.32  Aligned_cols=96  Identities=9%  Similarity=-0.050  Sum_probs=60.1

Q ss_pred             ccchhhhhhc--CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC--CHHHHHHH-HH---
Q 032001           11 GVYPPYLAVL--CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--PTSKGQAL-AD---   81 (149)
Q Consensus        11 ~~~~~~~~~~--~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~--~~~~~~~~-~~---   81 (149)
                      .++..++...  .+++++|+|..+ ........|..  ...  .++|+++++||+|+. .....  ........ ..   
T Consensus        80 ~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~--~~~--~~~~~iiv~NK~Dl~-~~~~~~~~~~~~~~~l~~~~~  154 (192)
T cd01889          80 SLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI--GEI--LCKKLIVVLNKIDLI-PEEERERKIEKMKKKLQKTLE  154 (192)
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH--HHH--cCCCEEEEEECcccC-CHHHHHHHHHHHHHHHHHHHH
Confidence            4456665543  356888888875 43444333331  122  257999999999986 21111  11112211 11   


Q ss_pred             ---HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ---EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ---~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                         ..+++++++||++|.|+++|++.|.+.++.
T Consensus       155 ~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~  187 (192)
T cd01889         155 KTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVL  187 (192)
T ss_pred             hcCcCCCCEEEEeccCCCCHHHHHHHHHhcccc
Confidence               135689999999999999999999988754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK15494 era GTPase Era; Provisional

Probab=98.82  E-value=3.5e-08  Score=76.37  Aligned_cols=87  Identities=22%  Similarity=0.233  Sum_probs=57.7

Q ss_pred             hhhcCeEEEEEeeCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCC
Q 032001           17 LAVLCRFKYCTYKIASYHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAK   93 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak   93 (149)
                      +.++ +++++|+|..+ +|.... .|+..+..   .+.|.++|+||+|+. ..   ....+..++...+  ..++++||+
T Consensus       129 l~~a-Dvil~VvD~~~-s~~~~~~~il~~l~~---~~~p~IlViNKiDl~-~~---~~~~~~~~l~~~~~~~~i~~iSAk  199 (339)
T PRK15494        129 LHSA-DLVLLIIDSLK-SFDDITHNILDKLRS---LNIVPIFLLNKIDIE-SK---YLNDIKAFLTENHPDSLLFPISAL  199 (339)
T ss_pred             hhhC-CEEEEEEECCC-CCCHHHHHHHHHHHh---cCCCEEEEEEhhcCc-cc---cHHHHHHHHHhcCCCcEEEEEecc
Confidence            4444 45666777553 455554 45555544   245778899999986 32   1233444444433  579999999


Q ss_pred             CCCCHHHHHHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~~~  112 (149)
                      +|.|++++|++|++.+++.
T Consensus       200 tg~gv~eL~~~L~~~l~~~  218 (339)
T PRK15494        200 SGKNIDGLLEYITSKAKIS  218 (339)
T ss_pred             CccCHHHHHHHHHHhCCCC
Confidence            9999999999999877553

>cd01895 EngA2 EngA2 subfamily

Probab=98.81  E-value=4.2e-08  Score=67.57  Aligned_cols=85  Identities=16%  Similarity=0.088  Sum_probs=54.5

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH-HHHHHHHh----CCcEEEecC
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK-GQALADEY----GIKFFETSA   92 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~-~~~~~~~~----~~~~~~~Sa   92 (149)
                      ...+++++|+|..+ .+.... .++..+..   .+.|+++++||+|+. ......... ...+....    ..+++.+||
T Consensus        83 ~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  157 (174)
T cd01895          83 ERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLV-EKDSKTMKEFKKEIRRKLPFLDYAPIVFISA  157 (174)
T ss_pred             hhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccC-CccHHHHHHHHHHHHhhcccccCCceEEEec
Confidence            34566888888876 444433 33333333   358999999999987 322111222 22222322    358999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARD  108 (149)
Q Consensus        93 k~~~~i~el~~~l~~~  108 (149)
                      +++.|++++++.+.+.
T Consensus       158 ~~~~~i~~~~~~l~~~  173 (174)
T cd01895         158 LTGQGVDKLFDAIDEV  173 (174)
T ss_pred             cCCCCHHHHHHHHHHh
Confidence            9999999999998763

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.

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

Probab=98.79  E-value=2e-08  Score=72.31  Aligned_cols=85  Identities=12%  Similarity=0.075  Sum_probs=50.3

Q ss_pred             eEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---hCCcEEEecCCC
Q 032001           22 RFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE---YGIKFFETSAKT   94 (149)
Q Consensus        22 ~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~~~Sak~   94 (149)
                      +++++|+|.++ . .......| ..+...  ...|+++|+||+|+. ......  ......+...   .+.+++++||++
T Consensus       108 D~~llVvd~~~~~~~~~t~~~l-~~~~~~--~~~~iiivvNK~Dl~-~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~  183 (203)
T cd01888         108 DGALLLIAANEPCPQPQTSEHL-AALEIM--GLKHIIIVQNKIDLV-KEEQALENYEQIKKFVKGTIAENAPIIPISAQL  183 (203)
T ss_pred             CEEEEEEECCCCCCCcchHHHH-HHHHHc--CCCcEEEEEEchhcc-CHHHHHHHHHHHHHHHhccccCCCcEEEEeCCC
Confidence            55778888874 1 11111222 222221  124789999999987 211110  1122222322   246799999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIK  110 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~  110 (149)
                      |.|++++|+.+.+.++
T Consensus       184 g~gi~~L~~~l~~~l~  199 (203)
T cd01888         184 KYNIDVLLEYIVKKIP  199 (203)
T ss_pred             CCCHHHHHHHHHHhCC
Confidence            9999999999987664

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

>cd01894 EngA1 EngA1 subfamily

Probab=98.79  E-value=4.8e-08  Score=66.39  Aligned_cols=83  Identities=13%  Similarity=0.038  Sum_probs=53.1

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecC
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSA   92 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa   92 (149)
                      .+++.+ +++++|+|..+ .+.... .+...+..   .+.|+++|+||+|+. ....    . .......+. +++++||
T Consensus        72 ~~~~~~-d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~-~~~~----~-~~~~~~~~~~~~~~~Sa  140 (157)
T cd01894          72 LAIEEA-DVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNI-KEED----E-AAEFYSLGFGEPIPISA  140 (157)
T ss_pred             HHHHhC-CEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccC-ChHH----H-HHHHHhcCCCCeEEEec
Confidence            344455 45777778764 323222 12222222   358999999999987 2211    1 222334455 7899999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARD  108 (149)
Q Consensus        93 k~~~~i~el~~~l~~~  108 (149)
                      ++|.|++++|+++++.
T Consensus       141 ~~~~gv~~l~~~l~~~  156 (157)
T cd01894         141 EHGRGIGDLLDAILEL  156 (157)
T ss_pred             ccCCCHHHHHHHHHhh
Confidence            9999999999999875

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.

>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=98.76  E-value=4.5e-08  Score=69.48  Aligned_cols=94  Identities=15%  Similarity=0.123  Sum_probs=56.6

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH----HHHHHh
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ----ALADEY   83 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~----~~~~~~   83 (149)
                      |...+..-+... |++++|.|... ... .....+..+..   .++|++++.||+|+. ..+  ......    .+.+..
T Consensus        83 f~~~~~~~~~~~-D~ailvVda~~g~~~-~~~~~l~~~~~---~~~p~ivvlNK~D~~-~~~--~~~~~~~~~~~l~~~~  154 (188)
T PF00009_consen   83 FIKEMIRGLRQA-DIAILVVDANDGIQP-QTEEHLKILRE---LGIPIIVVLNKMDLI-EKE--LEEIIEEIKEKLLKEY  154 (188)
T ss_dssp             HHHHHHHHHTTS-SEEEEEEETTTBSTH-HHHHHHHHHHH---TT-SEEEEEETCTSS-HHH--HHHHHHHHHHHHHHHT
T ss_pred             eeecccceeccc-ccceeeeeccccccc-ccccccccccc---cccceEEeeeeccch-hhh--HHHHHHHHHHHhcccc
Confidence            444444444444 44677778775 322 23333333444   358899999999986 111  111111    232332


Q ss_pred             ------CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 ------GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ------~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                            ..+++++||++|.|+++|++.|.+.++
T Consensus       155 ~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  155 GENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             TSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             ccCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence                  247999999999999999999998764

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 ....

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.75  E-value=7.2e-08  Score=79.43  Aligned_cols=94  Identities=16%  Similarity=0.071  Sum_probs=60.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-   82 (149)
                      |-+.|..++..++...+. +++|+|.++ ........| ..+..   .++|+++++||+|+. ..   ........+.. 
T Consensus       144 Ghe~F~~~r~rga~~aDi-aILVVda~dgv~~qT~e~i-~~~~~---~~vPiIVviNKiDl~-~~---~~e~v~~~L~~~  214 (587)
T TIGR00487       144 GHEAFTSMRARGAKVTDI-VVLVVAADDGVMPQTIEAI-SHAKA---ANVPIIVAINKIDKP-EA---NPDRVKQELSEY  214 (587)
T ss_pred             CCcchhhHHHhhhccCCE-EEEEEECCCCCCHhHHHHH-HHHHH---cCCCEEEEEECcccc-cC---CHHHHHHHHHHh
Confidence            346788888877665555 677778875 222222233 22222   468999999999986 21   12222222222 


Q ss_pred             ------hC--CcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 ------YG--IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 ------~~--~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                            ++  .+++++||++|.|++++|+++..
T Consensus       215 g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       215 GLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             hhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence                  22  46899999999999999999874

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.75  E-value=7.4e-08  Score=77.02  Aligned_cols=85  Identities=14%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK   93 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak   93 (149)
                      .+++++ +++++|||.++ .+++..  |+..+..   .++|+++|+||+|+. ..      ....+.+..+.+++.+||+
T Consensus       278 ~~~~~a-D~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~-~~------~~~~~~~~~~~~~~~vSak  344 (442)
T TIGR00450       278 KAIKQA-DLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLK-IN------SLEFFVSSKVLNSSNLSAK  344 (442)
T ss_pred             HHHhhC-CEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCC-Cc------chhhhhhhcCCceEEEEEe
Confidence            455544 55888889986 666654  7776643   468999999999986 22      1123445567788999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHh
Q 032001           94 TNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~~~~  113 (149)
                      + .||+++|+.|.+.+.+..
T Consensus       345 ~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       345 Q-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             c-CCHHHHHHHHHHHHHHHh
Confidence            8 699999999999886654

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.75  E-value=7e-08  Score=79.66  Aligned_cols=90  Identities=16%  Similarity=0.145  Sum_probs=63.1

Q ss_pred             chhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001           13 YPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS   91 (149)
Q Consensus        13 ~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S   91 (149)
                      +..|+. +..+++++|+|.++  ++....+..++.+   .++|+++|+||+|+. +...+. .....+.+..+.+++++|
T Consensus        64 ~~~~l~~~~aDvvI~VvDat~--ler~l~l~~ql~~---~~~PiIIVlNK~Dl~-~~~~i~-~d~~~L~~~lg~pvv~tS  136 (591)
T TIGR00437        64 ARDYLLNEKPDLVVNVVDASN--LERNLYLTLQLLE---LGIPMILALNLVDEA-EKKGIR-IDEEKLEERLGVPVVPTS  136 (591)
T ss_pred             HHHHHhhcCCCEEEEEecCCc--chhhHHHHHHHHh---cCCCEEEEEehhHHH-HhCCCh-hhHHHHHHHcCCCEEEEE
Confidence            344443 24577888888875  2222344444433   468999999999986 333332 334567777889999999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~i  109 (149)
                      |++|.|++++++.+.+..
T Consensus       137 A~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       137 ATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999998753

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=98.74  E-value=7.7e-08  Score=65.31  Aligned_cols=79  Identities=14%  Similarity=0.075  Sum_probs=56.1

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      ++.+. +++++|+|+++ .+......|..      ..+.|+++|+||+|+. .....       .....+.+++.+||++
T Consensus        77 ~~~~~-~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~-~~~~~-------~~~~~~~~~~~~Sa~~  141 (157)
T cd04164          77 AIEEA-DLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLL-PDSEL-------LSLLAGKPIIAISAKT  141 (157)
T ss_pred             HHhhC-CEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcC-Ccccc-------ccccCCCceEEEECCC
Confidence            34444 55788889986 55555554433      2468999999999987 32211       2233456899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDI  109 (149)
Q Consensus        95 ~~~i~el~~~l~~~i  109 (149)
                      +.|+++++.+|.+.+
T Consensus       142 ~~~v~~l~~~l~~~~  156 (157)
T cd04164         142 GEGLDELKEALLELA  156 (157)
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999988754

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.73  E-value=4.5e-08  Score=78.43  Aligned_cols=80  Identities=16%  Similarity=0.101  Sum_probs=58.1

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      ++.+ .+++++|+|.++ .+++....|..      ..+.|+++|+||+|+. ......        ...+.+++.+||++
T Consensus       291 ~~~~-aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~-~~~~~~--------~~~~~~~i~iSAkt  354 (449)
T PRK05291        291 AIEE-ADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLT-GEIDLE--------EENGKPVIRISAKT  354 (449)
T ss_pred             HHHh-CCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhcc-ccchhh--------hccCCceEEEEeeC
Confidence            4444 456888899986 66665555543      2468999999999997 322111        23356789999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~~  111 (149)
                      |.|+++++++|.+.+..
T Consensus       355 g~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        355 GEGIDELREAIKELAFG  371 (449)
T ss_pred             CCCHHHHHHHHHHHHhh
Confidence            99999999999988754

>cd00880 Era_like Era (E

Probab=98.69  E-value=1.3e-07  Score=63.63  Aligned_cols=88  Identities=13%  Similarity=0.035  Sum_probs=56.4

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH---HHHHHHHhCCcEEEe
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK---GQALADEYGIKFFET   90 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~   90 (149)
                      .++... +++++|++... .+..... |......   .+.|+++|+||.|+. .........   ........+.+++++
T Consensus        71 ~~~~~~-d~il~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (163)
T cd00880          71 RVLERA-DLILFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLL-PEEEEEELLELRLLILLLLLGLPVIAV  144 (163)
T ss_pred             HHHHhC-CEEEEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccC-ChhhHHHHHHHHHhhcccccCCceEEE
Confidence            355555 45777778876 4444433 4444433   568999999999987 322111110   112222345789999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~  108 (149)
                      ||+++.|++++++++.+.
T Consensus       145 sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         145 SALTGEGIDELREALIEA  162 (163)
T ss_pred             eeeccCCHHHHHHHHHhh
Confidence            999999999999998864

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.68  E-value=1.8e-07  Score=78.91  Aligned_cols=86  Identities=14%  Similarity=0.111  Sum_probs=57.9

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHHHh----CCcEEEecC
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALADEY----GIKFFETSA   92 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~~~----~~~~~~~Sa   92 (149)
                      ...+++++|+|.+. .++.... ++..+..   .++|+++|+||+|+. +...  ..... .+....    ..+++.+||
T Consensus       531 ~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~-~~~~--~~~~~~~~~~~l~~~~~~~ii~iSA  603 (712)
T PRK09518        531 ERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLM-DEFR--RQRLERLWKTEFDRVTWARRVNLSA  603 (712)
T ss_pred             hcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcC-ChhH--HHHHHHHHHHhccCCCCCCEEEEEC
Confidence            34566888889986 5666654 4444443   468999999999997 2111  11111 122221    246799999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~  111 (149)
                      ++|.|++++|+.+.+.+.+
T Consensus       604 ktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        604 KTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            9999999999999987765

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

Probab=98.66  E-value=6.1e-08  Score=65.56  Aligned_cols=100  Identities=12%  Similarity=0.067  Sum_probs=61.9

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH----HHHH
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA----LADE   82 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~----~~~~   82 (149)
                      -+.+|.-||.+.+.++++| |..+ ........ ++..+.+..-....+++++||.|.. . +....+....    -.+.
T Consensus        75 irPyWRcYy~dt~avIyVV-Dssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~-~-~~t~~E~~~~L~l~~Lk~  151 (182)
T KOG0072|consen   75 IRPYWRCYYADTDAVIYVV-DSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYS-G-ALTRSEVLKMLGLQKLKD  151 (182)
T ss_pred             ccHHHHHHhcccceEEEEE-eccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccch-h-hhhHHHHHHHhChHHHhh
Confidence            4678999999998855555 5554 33333332 2222222111457889999999986 2 2211111111    1122


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .-+.+|..||.+|+|+++.++||.+-+.+
T Consensus       152 r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  152 RIWQIVKTSAVKGEGLDPAMDWLQRPLKS  180 (182)
T ss_pred             heeEEEeeccccccCCcHHHHHHHHHHhc
Confidence            23679999999999999999999987744

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.65  E-value=1.1e-07  Score=78.43  Aligned_cols=101  Identities=14%  Similarity=0.095  Sum_probs=62.3

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC--CHHHHHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV--PTSKGQALADE   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~--~~~~~~~~~~~   82 (149)
                      -++|...+..++.+++. +++|+|.++.........+..+..   .++| +++|+||+|+. +....  ...+...+...
T Consensus        60 he~f~~~~~~g~~~aD~-aILVVDa~~G~~~qT~ehl~il~~---lgi~~iIVVlNK~Dlv-~~~~~~~~~~ei~~~l~~  134 (581)
T TIGR00475        60 HEKFISNAIAGGGGIDA-ALLVVDADEGVMTQTGEHLAVLDL---LGIPHTIVVITKADRV-NEEEIKRTEMFMKQILNS  134 (581)
T ss_pred             HHHHHHHHHhhhccCCE-EEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEECCCCC-CHHHHHHHHHHHHHHHHH
Confidence            35566666666666655 677778875111111122222222   2466 99999999997 32211  11233344443


Q ss_pred             h----CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 Y----GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~----~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .    +.+++++||++|.|+++++..+.+.+..
T Consensus       135 ~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       135 YIFLKNAKIFKTSAKTGQGIGELKKELKNLLES  167 (581)
T ss_pred             hCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHh
Confidence            3    4689999999999999999999876643

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.

>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=98.64  E-value=7.5e-08  Score=66.62  Aligned_cols=86  Identities=15%  Similarity=0.174  Sum_probs=58.7

Q ss_pred             chhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001           13 YPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS   91 (149)
Q Consensus        13 ~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S   91 (149)
                      +..|+. +-.|++++|.|.+.  ++....+..++.+   .++|+|+|.||+|+. ...... .....+.+..+.|++.+|
T Consensus        70 ~~~~l~~~~~D~ii~VvDa~~--l~r~l~l~~ql~e---~g~P~vvvlN~~D~a-~~~g~~-id~~~Ls~~Lg~pvi~~s  142 (156)
T PF02421_consen   70 ARDYLLSEKPDLIIVVVDATN--LERNLYLTLQLLE---LGIPVVVVLNKMDEA-ERKGIE-IDAEKLSERLGVPVIPVS  142 (156)
T ss_dssp             HHHHHHHTSSSEEEEEEEGGG--HHHHHHHHHHHHH---TTSSEEEEEETHHHH-HHTTEE-E-HHHHHHHHTS-EEEEB
T ss_pred             HHHHHhhcCCCEEEEECCCCC--HHHHHHHHHHHHH---cCCCEEEEEeCHHHH-HHcCCE-ECHHHHHHHhCCCEEEEE
Confidence            344443 34577888888885  3333445555555   368999999999986 222221 134556777899999999


Q ss_pred             CCCCCCHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSI  105 (149)
Q Consensus        92 ak~~~~i~el~~~l  105 (149)
                      |+++.|++++++.+
T Consensus       143 a~~~~g~~~L~~~I  156 (156)
T PF02421_consen  143 ARTGEGIDELKDAI  156 (156)
T ss_dssp             TTTTBTHHHHHHHH
T ss_pred             eCCCcCHHHHHhhC
Confidence            99999999998865

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 ....

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.63  E-value=1.8e-07  Score=78.62  Aligned_cols=95  Identities=17%  Similarity=0.124  Sum_probs=61.8

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HH----
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-AL----   79 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~----   79 (149)
                      -+.|..++..++..++. +++|+|.++ ........|. .+..   .++|+|+++||+|+. ...   ..... .+    
T Consensus       305 he~F~~mr~rg~~~aDi-aILVVDA~dGv~~QT~E~I~-~~k~---~~iPiIVViNKiDl~-~~~---~e~v~~eL~~~~  375 (742)
T CHL00189        305 HEAFSSMRSRGANVTDI-AILIIAADDGVKPQTIEAIN-YIQA---ANVPIIVAINKIDKA-NAN---TERIKQQLAKYN  375 (742)
T ss_pred             HHHHHHHHHHHHHHCCE-EEEEEECcCCCChhhHHHHH-HHHh---cCceEEEEEECCCcc-ccC---HHHHHHHHHHhc
Confidence            35688888888877655 677778775 2223333332 2222   468999999999987 211   11111 11    


Q ss_pred             --HHHhC--CcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           80 --ADEYG--IKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        80 --~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                        ...++  ++++++||++|.|+++||++|....
T Consensus       376 ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        376 LIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             cchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence              12233  5899999999999999999998653

>PRK00089 era GTPase Era; Reviewed

Probab=98.62  E-value=1.9e-07  Score=70.61  Aligned_cols=88  Identities=15%  Similarity=0.095  Sum_probs=56.9

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCH
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNV   98 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i   98 (149)
                      ..+++++|+|.++ .+.....++......  .+.|+++|+||+|+. ............+....+ .+++.+||+++.|+
T Consensus        84 ~~D~il~vvd~~~-~~~~~~~~i~~~l~~--~~~pvilVlNKiDl~-~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv  159 (292)
T PRK00089         84 DVDLVLFVVDADE-KIGPGDEFILEKLKK--VKTPVILVLNKIDLV-KDKEELLPLLEELSELMDFAEIVPISALKGDNV  159 (292)
T ss_pred             cCCEEEEEEeCCC-CCChhHHHHHHHHhh--cCCCEEEEEECCcCC-CCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCH
Confidence            3455788888875 222333333322221  368999999999986 222222223334444444 57899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIKQ  111 (149)
Q Consensus        99 ~el~~~l~~~i~~  111 (149)
                      ++++++|.+.+++
T Consensus       160 ~~L~~~L~~~l~~  172 (292)
T PRK00089        160 DELLDVIAKYLPE  172 (292)
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999987754

>cd04163 Era Era subfamily

Probab=98.61  E-value=1.8e-07  Score=63.77  Aligned_cols=89  Identities=15%  Similarity=0.103  Sum_probs=55.8

Q ss_pred             hhhhhhcCeEEEEEeeCChhhHHHHHHH-HHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEec
Q 032001           14 PPYLAVLCRFKYCTYKIASYHFSDIRNW-IRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETS   91 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~~s~~~~~~~-~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~S   91 (149)
                      ..++...+ ++++++|.... +.....| ...+..   .+.|+++|+||+|+. ............+....+ .+++.+|
T Consensus        77 ~~~~~~~d-~i~~v~d~~~~-~~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~s  150 (168)
T cd04163          77 WSALKDVD-LVLFVVDASEP-IGEGDEFILELLKK---SKTPVILVLNKIDLV-KDKEDLLPLLEKLKELGPFAEIFPIS  150 (168)
T ss_pred             HHHHHhCC-EEEEEEECCCc-cCchHHHHHHHHHH---hCCCEEEEEEchhcc-ccHHHHHHHHHHHHhccCCCceEEEE
Confidence            34455554 46777788752 2333333 333433   257999999999986 222222222333334443 5899999


Q ss_pred             CCCCCCHHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIARD  108 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~  108 (149)
                      ++++.+++++++.|.+.
T Consensus       151 ~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         151 ALKGENVDELLEEIVKY  167 (168)
T ss_pred             eccCCChHHHHHHHHhh
Confidence            99999999999999764

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.60  E-value=6.7e-08  Score=77.99  Aligned_cols=92  Identities=20%  Similarity=0.279  Sum_probs=68.2

Q ss_pred             cCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHHHhC--CcEEEecC
Q 032001           20 LCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVP-TSKGQALADEYG--IKFFETSA   92 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~--~~~~~~Sa   92 (149)
                      .++++++||++++ .+.+.+. +|+..+++..+  .++|+|+||||.|+. .+.... +.....+...+.  ...++|||
T Consensus        79 kA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~-~~~~~s~e~~~~pim~~f~EiEtciecSA  157 (625)
T KOG1707|consen   79 KADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNG-DNENNSDEVNTLPIMIAFAEIETCIECSA  157 (625)
T ss_pred             hcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCc-cccccchhHHHHHHHHHhHHHHHHHhhhh
Confidence            3466999999998 8999985 89999988654  689999999999987 322221 112223333332  24789999


Q ss_pred             CCCCCHHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~~  112 (149)
                      ++..++.|+|+...+.+...
T Consensus       158 ~~~~n~~e~fYyaqKaVihP  177 (625)
T KOG1707|consen  158 LTLANVSELFYYAQKAVIHP  177 (625)
T ss_pred             hhhhhhHhhhhhhhheeecc
Confidence            99999999999988877554

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.59  E-value=3.3e-07  Score=77.63  Aligned_cols=94  Identities=17%  Similarity=0.124  Sum_probs=60.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH-HH----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG-QA----   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~-~~----   78 (149)
                      |-+.|..|+..++...+. +++|+|.++ ........|. .+..   .++|+|+++||+|+. ...   .... ..    
T Consensus       346 Ghe~F~~m~~rga~~aDi-aILVVdAddGv~~qT~e~i~-~a~~---~~vPiIVviNKiDl~-~a~---~e~V~~eL~~~  416 (787)
T PRK05306        346 GHEAFTAMRARGAQVTDI-VVLVVAADDGVMPQTIEAIN-HAKA---AGVPIIVAINKIDKP-GAN---PDRVKQELSEY  416 (787)
T ss_pred             CCccchhHHHhhhhhCCE-EEEEEECCCCCCHhHHHHHH-HHHh---cCCcEEEEEECcccc-ccC---HHHHHHHHHHh
Confidence            345788888877665544 677778875 2223333332 2222   468999999999996 211   1111 11    


Q ss_pred             --HHHHhC--CcEEEecCCCCCCHHHHHHHHHH
Q 032001           79 --LADEYG--IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        79 --~~~~~~--~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                        +...++  ++++++||++|.|++++|++|..
T Consensus       417 ~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        417 GLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             cccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence              122233  68999999999999999999875

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.59  E-value=1.7e-07  Score=66.44  Aligned_cols=99  Identities=13%  Similarity=-0.011  Sum_probs=60.3

Q ss_pred             ccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALAD   81 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~   81 (149)
                      ++|..+...|++..+  +++++++|.+. .+... ..+...+..   .++|+++++||+|+. ......  .........
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~-~~i~~~l~~---~~~~~iiv~nK~Dl~-~~~~~~~~~~~i~~~l~  165 (196)
T PRK00454         91 EKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELD-LQMIEWLKE---YGIPVLIVLTKADKL-KKGERKKQLKKVRKALK  165 (196)
T ss_pred             HHHHHHHHHHHHhCccceEEEEEEecCCCCCHHH-HHHHHHHHH---cCCcEEEEEECcccC-CHHHHHHHHHHHHHHHH
Confidence            455566677777654  34566666654 22221 112222222   358899999999986 321111  111223333


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ....+++++||+++.|++++++.|.+.+.
T Consensus       166 ~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        166 FGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             hcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            33578999999999999999999987663

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.58  E-value=3.6e-07  Score=69.28  Aligned_cols=96  Identities=14%  Similarity=0.139  Sum_probs=66.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~   78 (149)
                      .+++|.++++....   .++++|.|+..    +.+++++.++.|+..+..  .+.|.++|+||+|++ +..   ...+..
T Consensus       262 kGlG~~FLrHiER~---~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~-eae---~~~l~~  334 (366)
T KOG1489|consen  262 KGLGYKFLRHIERC---KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP-EAE---KNLLSS  334 (366)
T ss_pred             CcccHHHHHHHHhh---ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch-hHH---HHHHHH
Confidence            35666677665533   33667777763    577888888888766543  678999999999986 211   122345


Q ss_pred             HHHHhCC-cEEEecCCCCCCHHHHHHHHHH
Q 032001           79 LADEYGI-KFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        79 ~~~~~~~-~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      +++...- .++.+||+++++++++++.|-+
T Consensus       335 L~~~lq~~~V~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  335 LAKRLQNPHVVPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             HHHHcCCCcEEEeeeccccchHHHHHHHhh
Confidence            5555433 4899999999999999887754

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.56  E-value=6.4e-07  Score=71.37  Aligned_cols=88  Identities=14%  Similarity=0.030  Sum_probs=56.0

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----hCCcEEEe
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----YGIKFFET   90 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~   90 (149)
                      ++..+ +++++|+|.+. .+..+. .+...+..   .+.|+++|+||+|+. +... .......+...    ...+++++
T Consensus       252 ~~~~a-d~~ilViD~~~~~~~~~~-~i~~~~~~---~~~~~ivv~NK~Dl~-~~~~-~~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        252 AIERA-DVVLLVIDATEGITEQDL-RIAGLALE---AGRALVIVVNKWDLV-DEKT-MEEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHC-CEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCcEEEEEECccCC-CHHH-HHHHHHHHHHhcccccCCCEEEE
Confidence            34444 55788889886 444443 34444443   358999999999986 2111 11111112111    24689999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~  110 (149)
                      ||++|.|++++++.+.+...
T Consensus       325 SA~~~~gv~~l~~~i~~~~~  344 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYE  344 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHH
Confidence            99999999999999887554

>COG2262 HflX GTPases [General function prediction only]

Probab=98.56  E-value=1.1e-06  Score=68.64  Aligned_cols=87  Identities=14%  Similarity=0.025  Sum_probs=59.6

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV   98 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i   98 (149)
                      -+|++++|.|.++ .....+..-.+-+.+....++|+|+|.||+|+. ....    .........+ ..+.+||++|.|+
T Consensus       271 ~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~-~~~~----~~~~~~~~~~-~~v~iSA~~~~gl  344 (411)
T COG2262         271 EADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLL-EDEE----ILAELERGSP-NPVFISAKTGEGL  344 (411)
T ss_pred             cCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEeccccc-Cchh----hhhhhhhcCC-CeEEEEeccCcCH
Confidence            4577899999986 444555555555554434679999999999976 2211    1111111112 5899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIKQR  112 (149)
Q Consensus        99 ~el~~~l~~~i~~~  112 (149)
                      +.|+..|.+.+...
T Consensus       345 ~~L~~~i~~~l~~~  358 (411)
T COG2262         345 DLLRERIIELLSGL  358 (411)
T ss_pred             HHHHHHHHHHhhhc
Confidence            99999999988754

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.52  E-value=4.9e-07  Score=76.27  Aligned_cols=87  Identities=13%  Similarity=0.095  Sum_probs=57.1

Q ss_pred             hhhhhhcCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEec
Q 032001           14 PPYLAVLCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETS   91 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~S   91 (149)
                      ..++..+ +++++|+|... .+... ..|...++.   .++|+++|+||+|+. ...    .....+. ..+. ..+++|
T Consensus       349 ~~~~~~a-D~iL~VvDa~~-~~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~-~~~----~~~~~~~-~lg~~~~~~iS  417 (712)
T PRK09518        349 QIAVSLA-DAVVFVVDGQV-GLTSTDERIVRMLRR---AGKPVVLAVNKIDDQ-ASE----YDAAEFW-KLGLGEPYPIS  417 (712)
T ss_pred             HHHHHhC-CEEEEEEECCC-CCCHHHHHHHHHHHh---cCCCEEEEEECcccc-cch----hhHHHHH-HcCCCCeEEEE
Confidence            3445555 55788888874 12222 345555554   468999999999986 211    1112221 1232 467999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~i~~  111 (149)
                      |++|.|++++|+++++.+.+
T Consensus       418 A~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        418 AMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             CCCCCCchHHHHHHHHhccc
Confidence            99999999999999988754

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.52  E-value=9.9e-07  Score=70.15  Aligned_cols=92  Identities=25%  Similarity=0.236  Sum_probs=63.8

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC---cEEE
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI---KFFE   89 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~   89 (149)
                      ...++.+.+++++ +|.+. ---..+.+.+.-+.    .+..+|.|.||+||+ .  ...+....+...-.|+   ..+.
T Consensus        94 SRSLAACEGalLv-VDAsQGveAQTlAN~YlAle----~~LeIiPViNKIDLP-~--Adpervk~eIe~~iGid~~dav~  165 (603)
T COG0481          94 SRSLAACEGALLV-VDASQGVEAQTLANVYLALE----NNLEIIPVLNKIDLP-A--ADPERVKQEIEDIIGIDASDAVL  165 (603)
T ss_pred             hhhHhhCCCcEEE-EECccchHHHHHHHHHHHHH----cCcEEEEeeecccCC-C--CCHHHHHHHHHHHhCCCcchhee
Confidence            3456667786554 47764 33445555555554    467899999999998 2  2223344445555664   4789


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +|||+|.||+++++.+++.++...
T Consensus       166 ~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         166 VSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             EecccCCCHHHHHHHHHhhCCCCC
Confidence            999999999999999999987664

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.51  E-value=5.8e-07  Score=61.93  Aligned_cols=82  Identities=18%  Similarity=0.116  Sum_probs=51.3

Q ss_pred             eEEEEEeeCCh-hhHHHHHHHHH--HHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001           22 RFKYCTYKIAS-YHFSDIRNWIR--NIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV   98 (149)
Q Consensus        22 ~~vi~v~~~~~-~s~~~~~~~~~--~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i   98 (149)
                      |++++|+|..+ .+..  ..|+.  .+..   .++|+++|.||+|+. +...+ ......+....+..++.+||+++.|+
T Consensus         1 Dvvl~VvD~~~p~~~~--~~~i~~~~~~~---~~~p~IiVlNK~Dl~-~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi   73 (155)
T cd01849           1 DVILEVLDARDPLGTR--SPDIERVLIKE---KGKKLILVLNKADLV-PKEVL-RKWLAYLRHSYPTIPFKISATNGQGI   73 (155)
T ss_pred             CEEEEEEeccCCcccc--CHHHHHHHHhc---CCCCEEEEEechhcC-CHHHH-HHHHHHHHhhCCceEEEEeccCCcCh
Confidence            46788888864 3222  23443  2222   468999999999996 21110 01111222233457899999999999


Q ss_pred             HHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIK  110 (149)
Q Consensus        99 ~el~~~l~~~i~  110 (149)
                      +++++.+.+...
T Consensus        74 ~~L~~~i~~~~~   85 (155)
T cd01849          74 EKKESAFTKQTN   85 (155)
T ss_pred             hhHHHHHHHHhH
Confidence            999999876543

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.50  E-value=3.2e-07  Score=75.78  Aligned_cols=101  Identities=16%  Similarity=0.123  Sum_probs=67.8

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-CHHHHHHHHH----
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-PTSKGQALAD----   81 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~~~~~~~~~~----   81 (149)
                      ..|...+..+++.++. +++|+|...........|+..+..   .++|+++|+||+|+. ..+.. ...+...+..    
T Consensus        75 ~DF~~ev~~~l~~aD~-alLVVDa~~G~~~qT~~~l~~a~~---~~ip~IVviNKiD~~-~a~~~~v~~ei~~l~~~~g~  149 (594)
T TIGR01394        75 ADFGGEVERVLGMVDG-VLLLVDASEGPMPQTRFVLKKALE---LGLKPIVVINKIDRP-SARPDEVVDEVFDLFAELGA  149 (594)
T ss_pred             HHHHHHHHHHHHhCCE-EEEEEeCCCCCcHHHHHHHHHHHH---CCCCEEEEEECCCCC-CcCHHHHHHHHHHHHHhhcc
Confidence            4566677778888776 566667765335666777777765   458999999999986 22210 1122222221    


Q ss_pred             ---HhCCcEEEecCCCCC----------CHHHHHHHHHHHHHHH
Q 032001           82 ---EYGIKFFETSAKTNL----------NVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ---~~~~~~~~~Sak~~~----------~i~el~~~l~~~i~~~  112 (149)
                         ...++++.+||++|.          |+..+|+.+++.++..
T Consensus       150 ~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       150 DDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             ccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence               124689999999995          7999999999887644

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=98.48  E-value=9.9e-07  Score=72.80  Aligned_cols=97  Identities=14%  Similarity=0.052  Sum_probs=60.3

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC---CCH-----
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA---VPT-----   73 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~---~~~-----   73 (149)
                      -+.|..++..+++.++. +++|+|.++    .+++.+..    +..   .++|+++++||+|+......   ...     
T Consensus        79 ~e~f~~l~~~~~~~aD~-~IlVvD~~~g~~~qt~e~i~~----l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sa  150 (590)
T TIGR00491        79 HEAFTNLRKRGGALADL-AILIVDINEGFKPQTQEALNI----LRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFS  150 (590)
T ss_pred             cHhHHHHHHHHHhhCCE-EEEEEECCcCCCHhHHHHHHH----HHH---cCCCEEEEEECCCccchhhhccCchHHHHHH
Confidence            35678888888876655 778888874    33433322    222   36899999999998621110   000     


Q ss_pred             ---H------------HHHHHHH------------Hh--CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           74 ---S------------KGQALAD------------EY--GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        74 ---~------------~~~~~~~------------~~--~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                         .            ...++.+            .+  ..+++++||++|+|+++|+.++.....
T Consensus       151 k~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~  216 (590)
T TIGR00491       151 KQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ  216 (590)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence               0            0001111            11  258999999999999999998875443

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.

>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=98.46  E-value=9e-07  Score=57.80  Aligned_cols=55  Identities=24%  Similarity=0.419  Sum_probs=38.1

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHH---HHHHHHHhcCCCCeEEEEeeCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRN---WIRNIEQHASDNVNKVLVGNKAD   63 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~---~~~~i~~~~~~~~~iilv~nK~D   63 (149)
                      +.+...+...+... +++++|||.++ .+|+.+..   |+..+.... .++|+++|+||.|
T Consensus        61 ~~~~~~~~~~~~~~-d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   61 EEFYSQHQFFLKKA-DAVILVYDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             HCHHCTSHHHHHHS-CEEEEEEECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             ceecccccchhhcC-cEEEEEEcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            34555555555554 55899999998 88988754   555555433 5699999999998

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.45  E-value=2e-06  Score=65.12  Aligned_cols=100  Identities=15%  Similarity=0.081  Sum_probs=73.0

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      +|-..+..+-..+.++++|+|..+++ -+...+++++--+..   .++.-|++.||+||. +.......+........+.
T Consensus        67 ~Rkn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~-~~~~~~~~~~~~~y~~~gy  142 (301)
T COG1162          67 PRKNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLL-DDEEAAVKELLREYEDIGY  142 (301)
T ss_pred             cccCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccC-cchHHHHHHHHHHHHhCCe
Confidence            34555666667778888888877887 678888888777665   457778889999998 3222111234445566788


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +++.+|++++.+++++...+...+.
T Consensus       143 ~v~~~s~~~~~~~~~l~~~l~~~~s  167 (301)
T COG1162         143 PVLFVSAKNGDGLEELAELLAGKIT  167 (301)
T ss_pred             eEEEecCcCcccHHHHHHHhcCCeE
Confidence            9999999999999998888876543

>cd01858 NGP_1 NGP-1

Probab=98.43  E-value=8.5e-07  Score=61.19  Aligned_cols=86  Identities=10%  Similarity=0.048  Sum_probs=50.1

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ  100 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e  100 (149)
                      .|++++|.|...........+...+.. ...+.|+++|.||+|+. +... .......+.+.+....+.+||+.+.|+++
T Consensus         9 aD~il~VvD~~~p~~~~~~~i~~~l~~-~~~~~p~ilVlNKiDl~-~~~~-~~~~~~~~~~~~~~~~~~iSa~~~~~~~~   85 (157)
T cd01858           9 SDVVIQVLDARDPMGTRCKHVEEYLKK-EKPHKHLIFVLNKCDLV-PTWV-TARWVKILSKEYPTIAFHASINNPFGKGS   85 (157)
T ss_pred             CCEEEEEEECCCCccccCHHHHHHHHh-ccCCCCEEEEEEchhcC-CHHH-HHHHHHHHhcCCcEEEEEeeccccccHHH
Confidence            456788888874211222233333322 22458999999999996 2211 01112222222222357899999999999


Q ss_pred             HHHHHHHHH
Q 032001          101 VFFSIARDI  109 (149)
Q Consensus       101 l~~~l~~~i  109 (149)
                      +++.+.+..
T Consensus        86 L~~~l~~~~   94 (157)
T cd01858          86 LIQLLRQFS   94 (157)
T ss_pred             HHHHHHHHH
Confidence            999997754

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.43  E-value=1.4e-06  Score=66.64  Aligned_cols=102  Identities=16%  Similarity=0.144  Sum_probs=67.6

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-h---hHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-Y---HFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~---s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      +.+++++.-  +. .++++|.|+++ +   ..++...+..++..+..  .+.|.++|+||+|++ ...+........+.+
T Consensus       228 G~~FLrHIE--Rt-~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~-~~~e~~~~~~~~l~~  303 (369)
T COG0536         228 GLRFLRHIE--RT-RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP-LDEEELEELKKALAE  303 (369)
T ss_pred             cHHHHHHHH--hh-heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCC-cCHHHHHHHHHHHHH
Confidence            344444443  23 33677778874 3   57778888888888754  678999999999976 222211222333444


Q ss_pred             HhCCcEEE-ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           82 EYGIKFFE-TSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        82 ~~~~~~~~-~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ..+...+. +||.++.|++++...+.+.+.+..
T Consensus       304 ~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         304 ALGWEVFYLISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             hcCCCcceeeehhcccCHHHHHHHHHHHHHHhh
Confidence            44543332 999999999999999998887663

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=98.43  E-value=9.8e-07  Score=71.08  Aligned_cols=92  Identities=23%  Similarity=0.223  Sum_probs=61.5

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC---CcEEE
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG---IKFFE   89 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~   89 (149)
                      ...+..++++ ++|+|... .--.....++.-+..    +..+|.|.||+|++ ..  ..+....+..+.++   .+.+.
T Consensus       143 sRslaac~G~-lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp-~a--dpe~V~~q~~~lF~~~~~~~i~  214 (650)
T KOG0462|consen  143 SRSLAACDGA-LLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLP-SA--DPERVENQLFELFDIPPAEVIY  214 (650)
T ss_pred             hehhhhcCce-EEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCC-CC--CHHHHHHHHHHHhcCCccceEE
Confidence            3455667774 55557765 333444455444443    57899999999998 22  22333334444444   47899


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +|||+|-|++++++.+++.++...
T Consensus       215 vSAK~G~~v~~lL~AII~rVPpP~  238 (650)
T KOG0462|consen  215 VSAKTGLNVEELLEAIIRRVPPPK  238 (650)
T ss_pred             EEeccCccHHHHHHHHHhhCCCCC
Confidence            999999999999999999886553

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.40  E-value=1.3e-06  Score=69.38  Aligned_cols=89  Identities=13%  Similarity=0.100  Sum_probs=57.9

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-   85 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-   85 (149)
                      ...+..++..++ ++++|+|... .+..  .+..|+   ++   .++|+++|+||+|+. ....    .... ....+. 
T Consensus        69 ~~~~~~~~~~ad-~vl~vvD~~~~~~~~d~~i~~~l---~~---~~~piilVvNK~D~~-~~~~----~~~~-~~~lg~~  135 (429)
T TIGR03594        69 REQAEIAIEEAD-VILFVVDGREGLTPEDEEIAKWL---RK---SGKPVILVANKIDGK-KEDA----VAAE-FYSLGFG  135 (429)
T ss_pred             HHHHHHHHhhCC-EEEEEEeCCCCCCHHHHHHHHHH---HH---hCCCEEEEEECccCC-cccc----cHHH-HHhcCCC
Confidence            334445556654 4777778764 2222  233343   33   358999999999986 2221    1111 234565 


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++.+||++|.|+.++++.+.+.+.+
T Consensus       136 ~~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       136 EPIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             CeEEEeCCcCCChHHHHHHHHHhcCc
Confidence            79999999999999999999987754

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.40  E-value=7.8e-07  Score=60.57  Aligned_cols=53  Identities=23%  Similarity=0.241  Sum_probs=42.6

Q ss_pred             CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHH
Q 032001           52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~  106 (149)
                      +.|+|-|.||+|+. . .....+.+..+++..|. .+|++|+.+|+|+++|+++|.
T Consensus        89 ~~pvIGVITK~Dl~-~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   89 NKPVIGVITKIDLP-S-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             CCCEEEEEECccCc-c-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            46999999999997 2 22334566778888886 689999999999999998874

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

>PRK10218 GTP-binding protein; Provisional

Probab=98.39  E-value=1.8e-06  Score=71.54  Aligned_cols=102  Identities=12%  Similarity=0.066  Sum_probs=64.9

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-CCHHHHHHHHH---
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-VPTSKGQALAD---   81 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-~~~~~~~~~~~---   81 (149)
                      -..|...+..+++.++. +++|+|..+........++..+..   .++|.++++||+|+. ..+. ....+...+..   
T Consensus        78 ~~df~~~v~~~l~~aDg-~ILVVDa~~G~~~qt~~~l~~a~~---~gip~IVviNKiD~~-~a~~~~vl~ei~~l~~~l~  152 (607)
T PRK10218         78 HADFGGEVERVMSMVDS-VLLVVDAFDGPMPQTRFVTKKAFA---YGLKPIVVINKVDRP-GARPDWVVDQVFDLFVNLD  152 (607)
T ss_pred             cchhHHHHHHHHHhCCE-EEEEEecccCccHHHHHHHHHHHH---cCCCEEEEEECcCCC-CCchhHHHHHHHHHHhccC
Confidence            35677788888888877 566778775222344444444444   357889999999986 2211 11112222211   


Q ss_pred             ----HhCCcEEEecCCCCC----------CHHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNL----------NVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~----------~i~el~~~l~~~i~~~  112 (149)
                          ...++++.+||++|.          ++..+++.+++.++..
T Consensus       153 ~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        153 ATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             ccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence                124679999999998          5888888888877543

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=98.38  E-value=7.2e-07  Score=62.72  Aligned_cols=87  Identities=13%  Similarity=0.039  Sum_probs=52.5

Q ss_pred             cccccchhhhhhc--CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH
Q 032001            8 CFIGVYPPYLAVL--CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE   82 (149)
Q Consensus         8 ~~~~~~~~~~~~~--~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~   82 (149)
                      .|..+...|++..  .+++++|+|.+. .+.... .++..+..   .++|+++++||+|+. ....  ........+...
T Consensus        86 ~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~-~~~~~~~~~~~i~~~l~~  160 (179)
T TIGR03598        86 KWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKL-KKSELNKQLKKIKKALKK  160 (179)
T ss_pred             HHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccC-CHHHHHHHHHHHHHHHhh
Confidence            3555556677654  255788888875 333333 23333433   358999999999986 2111  112223334444


Q ss_pred             hC--CcEEEecCCCCCCHH
Q 032001           83 YG--IKFFETSAKTNLNVE   99 (149)
Q Consensus        83 ~~--~~~~~~Sak~~~~i~   99 (149)
                      .+  .+++.+||++|+|++
T Consensus       161 ~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       161 DADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             ccCCCceEEEECCCCCCCC
Confidence            33  479999999999973

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.38  E-value=3e-06  Score=66.34  Aligned_cols=82  Identities=23%  Similarity=0.306  Sum_probs=55.4

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----HHHhCC---cEEEecC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL----ADEYGI---KFFETSA   92 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~---~~~~~Sa   92 (149)
                      .+.+|++|.|+.+    ....|..++.+.. .+.|+++|+||+|+. . ..........|    ++..++   .++.+||
T Consensus        69 ~~~lIv~VVD~~D----~~~s~~~~L~~~~-~~kpviLViNK~DLl-~-~~~~~~~i~~~l~~~~k~~g~~~~~v~~vSA  141 (365)
T PRK13796         69 SDALVVNVVDIFD----FNGSWIPGLHRFV-GNNPVLLVGNKADLL-P-KSVKKNKVKNWLRQEAKELGLRPVDVVLISA  141 (365)
T ss_pred             cCcEEEEEEECcc----CCCchhHHHHHHh-CCCCEEEEEEchhhC-C-CccCHHHHHHHHHHHHHhcCCCcCcEEEEEC
Confidence            4446788888765    1234555665543 367899999999996 3 22223333333    444554   5899999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARD  108 (149)
Q Consensus        93 k~~~~i~el~~~l~~~  108 (149)
                      +++.|++++++.+.+.
T Consensus       142 k~g~gI~eL~~~I~~~  157 (365)
T PRK13796        142 QKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            9999999999999764

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.38  E-value=1.1e-06  Score=69.59  Aligned_cols=98  Identities=16%  Similarity=0.127  Sum_probs=56.0

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC--CHHHHHHHHHHh--
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--PTSKGQALADEY--   83 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~--~~~~~~~~~~~~--   83 (149)
                      |...+...+..+ +++++|+|.++ .........+..+...  .-.++++++||+|+. +....  ...+...+....  
T Consensus        93 f~~~~~~g~~~a-D~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~-~~~~~~~~~~~i~~~l~~~~~  168 (406)
T TIGR03680        93 LMATMLSGAALM-DGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLV-SKEKALENYEEIKEFVKGTVA  168 (406)
T ss_pred             HHHHHHHHHHHC-CEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccC-CHHHHHHHHHHHHhhhhhccc
Confidence            333333333333 55777888874 2012222222222221  124689999999987 22111  112222333322  


Q ss_pred             -CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 -GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 -~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                       +.+++++||++|.|+++++++|...++
T Consensus       169 ~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       169 ENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             CCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence             468999999999999999999987664

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.37  E-value=2.8e-06  Score=62.17  Aligned_cols=82  Identities=9%  Similarity=0.030  Sum_probs=50.0

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHH----------------
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADE----------------   82 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~----------------   82 (149)
                      .+++++|.|.+...-.....++..+..   .++|+++|.||+|+. +......  .....+...                
T Consensus       110 ~D~~llVvda~~g~~~~d~~~l~~l~~---~~ip~ivvvNK~D~~-~~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~  185 (224)
T cd04165         110 PDYAMLVVAANAGIIGMTKEHLGLALA---LNIPVFVVVTKIDLA-PANILQETLKDLKRILKVPGVRKLPVPVKSDDDV  185 (224)
T ss_pred             CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEECcccc-CHHHHHHHHHHHHHHhcCCCccccceeeecccce
Confidence            466788888775212333445454444   358999999999986 2211111  111122210                


Q ss_pred             ----------hCCcEEEecCCCCCCHHHHHHHHH
Q 032001           83 ----------YGIKFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        83 ----------~~~~~~~~Sak~~~~i~el~~~l~  106 (149)
                                ...|+|.+||.+|.|+++|+..|.
T Consensus       186 ~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         186 VLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             eehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence                      123899999999999999887764

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

>cd01856 YlqF YlqF

Probab=98.36  E-value=3.2e-06  Score=59.19  Aligned_cols=85  Identities=18%  Similarity=0.141  Sum_probs=51.9

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      ...++ |++++|+|... ... ....+...+     .+.|.++|.||+|+. +...  ......+.+..+..++.+||++
T Consensus        16 ~i~~a-D~il~v~D~~~~~~~-~~~~i~~~~-----~~k~~ilVlNK~Dl~-~~~~--~~~~~~~~~~~~~~vi~iSa~~   85 (171)
T cd01856          16 KLKLV-DLVIEVRDARIPLSS-RNPLLEKIL-----GNKPRIIVLNKADLA-DPKK--TKKWLKYFESKGEKVLFVNAKS   85 (171)
T ss_pred             HHhhC-CEEEEEeeccCccCc-CChhhHhHh-----cCCCEEEEEehhhcC-ChHH--HHHHHHHHHhcCCeEEEEECCC
Confidence            33444 56788888864 211 111222222     246899999999986 2211  1111122223345689999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIK  110 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~  110 (149)
                      +.|+++++..+...++
T Consensus        86 ~~gi~~L~~~l~~~l~  101 (171)
T cd01856          86 GKGVKKLLKAAKKLLK  101 (171)
T ss_pred             cccHHHHHHHHHHHHH
Confidence            9999999999998764

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.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=98.35  E-value=1.1e-06  Score=69.96  Aligned_cols=84  Identities=12%  Similarity=-0.040  Sum_probs=48.7

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHH-HHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC----CHHHHHHHHHHhC-----
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRN-WIRNIEQHASDNVNKVLVGNKADMDESKRAV----PTSKGQALADEYG-----   84 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~-~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~----~~~~~~~~~~~~~-----   84 (149)
                      ++.. .+++++|+|.++ +++..... +...+.... ...++|+++||+|+. +....    ...+...+++..+     
T Consensus       105 ~~~~-aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~-~~~~iIVviNK~Dl~-~~~~~~~~~~~~ei~~~~~~~g~~~~~  181 (426)
T TIGR00483       105 GASQ-ADAAVLVVAVGDGEFEVQPQTREHAFLARTL-GINQLIVAINKMDSV-NYDEEEFEAIKKEVSNLIKKVGYNPDT  181 (426)
T ss_pred             hhhh-CCEEEEEEECCCCCcccCCchHHHHHHHHHc-CCCeEEEEEEChhcc-CccHHHHHHHHHHHHHHHHHcCCCccc
Confidence            3344 455788889986 43222211 111222222 235799999999996 32111    1223344555544     


Q ss_pred             CcEEEecCCCCCCHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVF  102 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~  102 (149)
                      ++++++||++|.|+.+++
T Consensus       182 ~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       182 VPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             ceEEEeeccccccccccc
Confidence            578999999999998744

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=98.34  E-value=2.7e-06  Score=67.52  Aligned_cols=95  Identities=15%  Similarity=0.099  Sum_probs=56.3

Q ss_pred             cchhhhhhc--CeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---
Q 032001           12 VYPPYLAVL--CRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE---   82 (149)
Q Consensus        12 ~~~~~~~~~--~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~---   82 (149)
                      +...++.+.  .+++++|+|.+. . .......| ..+...  .-.|+++|+||+|+. +.....  ......+...   
T Consensus        98 f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l-~~l~~~--~i~~iiVVlNK~Dl~-~~~~~~~~~~~i~~~l~~~~~  173 (411)
T PRK04000         98 LMATMLSGAALMDGAILVIAANEPCPQPQTKEHL-MALDII--GIKNIVIVQNKIDLV-SKERALENYEQIKEFVKGTVA  173 (411)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHH-HHHHHc--CCCcEEEEEEeeccc-cchhHHHHHHHHHHHhccccC
Confidence            344555554  356788888874 2 12222222 222221  123689999999987 322111  1222233322   


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+.+++++||++|.|+++|++.|...+.
T Consensus       174 ~~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        174 ENAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             CCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence            1468999999999999999999987664

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.34  E-value=2.3e-06  Score=71.12  Aligned_cols=97  Identities=13%  Similarity=0.120  Sum_probs=55.6

Q ss_pred             cccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC--HHHHHHHHHHhC
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP--TSKGQALADEYG   84 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~   84 (149)
                      +|...+...+.+. |++++|+|.+..........+..+.. .  ++| +++|+||+|+. +.....  ..+...+....+
T Consensus        63 ~fi~~m~~g~~~~-D~~lLVVda~eg~~~qT~ehl~il~~-l--gi~~iIVVlNKiDlv-~~~~~~~v~~ei~~~l~~~~  137 (614)
T PRK10512         63 KFLSNMLAGVGGI-DHALLVVACDDGVMAQTREHLAILQL-T--GNPMLTVALTKADRV-DEARIAEVRRQVKAVLREYG  137 (614)
T ss_pred             HHHHHHHHHhhcC-CEEEEEEECCCCCcHHHHHHHHHHHH-c--CCCeEEEEEECCccC-CHHHHHHHHHHHHHHHHhcC
Confidence            4444444444444 55677778875111222222222222 2  344 57999999987 321111  122333333333


Q ss_pred             ---CcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           85 ---IKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        85 ---~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                         .+++.+||++|.|++++++.|.+..
T Consensus       138 ~~~~~ii~VSA~tG~gI~~L~~~L~~~~  165 (614)
T PRK10512        138 FAEAKLFVTAATEGRGIDALREHLLQLP  165 (614)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhh
Confidence               5899999999999999999998654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.33  E-value=1.7e-06  Score=59.04  Aligned_cols=94  Identities=12%  Similarity=0.011  Sum_probs=56.3

Q ss_pred             cccccchhhhhhcC--eEEEEEeeCCh-h--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHH
Q 032001            8 CFIGVYPPYLAVLC--RFKYCTYKIAS-Y--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALA   80 (149)
Q Consensus         8 ~~~~~~~~~~~~~~--~~vi~v~~~~~-~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~   80 (149)
                      .|..++..|+....  +++++++|.+. .  ....+..|+..      .+.|+++|+||+|+. ......  ........
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~-~~~~~~~~~~~~~~~l  139 (170)
T cd01876          67 KWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKL-KKSELAKALKEIKKEL  139 (170)
T ss_pred             HHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcC-ChHHHHHHHHHHHHHH
Confidence            34555666666542  34666777763 2  11223344433      247999999999985 211111  11122222


Q ss_pred             H--HhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           81 D--EYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        81 ~--~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      +  ....+++++||+++.++.++++.|.+.
T Consensus       140 ~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         140 KLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             HhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            2  223578999999999999999999864

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.32  E-value=3e-06  Score=67.57  Aligned_cols=82  Identities=15%  Similarity=0.153  Sum_probs=53.0

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEE
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFE   89 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~   89 (149)
                      ..++..+ +++++|+|... .+..  .+..|+..      .++|+++|+||+|+. . .   ......+ ...++ .+++
T Consensus        75 ~~~~~~a-d~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~-~-~---~~~~~~~-~~lg~~~~~~  141 (435)
T PRK00093         75 ELAIEEA-DVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGP-D-E---EADAYEF-YSLGLGEPYP  141 (435)
T ss_pred             HHHHHhC-CEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCc-c-c---hhhHHHH-HhcCCCCCEE
Confidence            3445555 45777788874 2222  23344332      268999999999976 2 1   1122222 23455 4899


Q ss_pred             ecCCCCCCHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~  108 (149)
                      +||++|.|++++|+.++..
T Consensus       142 iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        142 ISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             EEeeCCCCHHHHHHHHHhh
Confidence            9999999999999999873

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.32  E-value=5e-06  Score=65.79  Aligned_cols=79  Identities=13%  Similarity=0.071  Sum_probs=52.8

Q ss_pred             cCeEEEEEeeCCh-hhH--HHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCC
Q 032001           20 LCRFKYCTYKIAS-YHF--SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTN   95 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~--~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~   95 (149)
                      -+|+++||+|... -+.  ..+.+|+.   .   .++|+|+|+||+|-. .    .+.....+ -..|+ .++.+||..|
T Consensus        83 eADvilfvVD~~~Git~~D~~ia~~Lr---~---~~kpviLvvNK~D~~-~----~e~~~~ef-yslG~g~~~~ISA~Hg  150 (444)
T COG1160          83 EADVILFVVDGREGITPADEEIAKILR---R---SKKPVILVVNKIDNL-K----AEELAYEF-YSLGFGEPVPISAEHG  150 (444)
T ss_pred             hCCEEEEEEeCCCCCCHHHHHHHHHHH---h---cCCCEEEEEEcccCc-h----hhhhHHHH-HhcCCCCceEeehhhc
Confidence            3466888888875 211  22233333   2   468999999999964 1    11222222 23444 7899999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 032001           96 LNVEQVFFSIARDIK  110 (149)
Q Consensus        96 ~~i~el~~~l~~~i~  110 (149)
                      .|+.+|++.+++.++
T Consensus       151 ~Gi~dLld~v~~~l~  165 (444)
T COG1160         151 RGIGDLLDAVLELLP  165 (444)
T ss_pred             cCHHHHHHHHHhhcC
Confidence            999999999999875

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.31  E-value=5.8e-06  Score=70.29  Aligned_cols=83  Identities=11%  Similarity=0.087  Sum_probs=61.1

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE   99 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~   99 (149)
                      ..|++++|+|.++  ++....|..++.+   .++|++++.||+|+. +.+.. ......+.+..+.+++.+||++|.|++
T Consensus        85 ~aD~vI~VvDat~--ler~l~l~~ql~e---~giPvIvVlNK~Dl~-~~~~i-~id~~~L~~~LG~pVvpiSA~~g~GId  157 (772)
T PRK09554         85 DADLLINVVDASN--LERNLYLTLQLLE---LGIPCIVALNMLDIA-EKQNI-RIDIDALSARLGCPVIPLVSTRGRGIE  157 (772)
T ss_pred             CCCEEEEEecCCc--chhhHHHHHHHHH---cCCCEEEEEEchhhh-hccCc-HHHHHHHHHHhCCCEEEEEeecCCCHH
Confidence            4567888888885  2233345555554   368999999999986 33333 344566777889999999999999999


Q ss_pred             HHHHHHHHHH
Q 032001          100 QVFFSIARDI  109 (149)
Q Consensus       100 el~~~l~~~i  109 (149)
                      ++++.+.+..
T Consensus       158 eL~~~I~~~~  167 (772)
T PRK09554        158 ALKLAIDRHQ  167 (772)
T ss_pred             HHHHHHHHhh
Confidence            9998887654

>PRK01889 GTPase RsgA; Reviewed

Probab=98.30  E-value=3.8e-06  Score=65.55  Aligned_cols=82  Identities=13%  Similarity=0.170  Sum_probs=56.9

Q ss_pred             hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-HhCCcEEEecCCC
Q 032001           17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-EYGIKFFETSAKT   94 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~Sak~   94 (149)
                      .+|.+. +++|++.++ -....+++++..+..   .+++.++|.||+||. +.   .......+.. ..+.+++.+||++
T Consensus       110 aANvD~-vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~-~~---~~~~~~~~~~~~~g~~Vi~vSa~~  181 (356)
T PRK01889        110 AANVDT-VFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLC-ED---AEEKIAEVEALAPGVPVLAVSALD  181 (356)
T ss_pred             EEeCCE-EEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcC-CC---HHHHHHHHHHhCCCCcEEEEECCC
Confidence            355555 777878886 555667787777665   457778999999997 32   1112222222 3467899999999


Q ss_pred             CCCHHHHHHHHH
Q 032001           95 NLNVEQVFFSIA  106 (149)
Q Consensus        95 ~~~i~el~~~l~  106 (149)
                      +.|+++|..+|.
T Consensus       182 g~gl~~L~~~L~  193 (356)
T PRK01889        182 GEGLDVLAAWLS  193 (356)
T ss_pred             CccHHHHHHHhh
Confidence            999999888874

>COG1159 Era GTPase [General function prediction only]

Probab=98.27  E-value=1.8e-06  Score=64.90  Aligned_cols=88  Identities=15%  Similarity=0.057  Sum_probs=56.5

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCHH
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVE   99 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~   99 (149)
                      .|++++|.|.+. .+...+.|+-+..+.  .+.|++++.||+|.. .....-......+..... ..++++||++|.|++
T Consensus        86 vDlilfvvd~~~-~~~~~d~~il~~lk~--~~~pvil~iNKID~~-~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~  161 (298)
T COG1159          86 VDLILFVVDADE-GWGPGDEFILEQLKK--TKTPVILVVNKIDKV-KPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVD  161 (298)
T ss_pred             CcEEEEEEeccc-cCCccHHHHHHHHhh--cCCCeEEEEEccccC-CcHHHHHHHHHHHHhhCCcceEEEeeccccCCHH
Confidence            355666667664 344455555444332  467999999999987 322211122222223333 379999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 032001          100 QVFFSIARDIKQR  112 (149)
Q Consensus       100 el~~~l~~~i~~~  112 (149)
                      .|.+.+...+++.
T Consensus       162 ~L~~~i~~~Lpeg  174 (298)
T COG1159         162 TLLEIIKEYLPEG  174 (298)
T ss_pred             HHHHHHHHhCCCC
Confidence            9999999888654

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.24  E-value=1.2e-05  Score=64.74  Aligned_cols=92  Identities=20%  Similarity=0.175  Sum_probs=56.9

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-----
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-----   81 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-----   81 (149)
                      -|..|+..=. ...|++++|.++++ -....... ++.++.   .++|++++.||+|.++.+    +.....-..     
T Consensus        67 AFt~mRaRGa-~vtDIaILVVa~dDGv~pQTiEA-I~hak~---a~vP~iVAiNKiDk~~~n----p~~v~~el~~~gl~  137 (509)
T COG0532          67 AFTAMRARGA-SVTDIAILVVAADDGVMPQTIEA-INHAKA---AGVPIVVAINKIDKPEAN----PDKVKQELQEYGLV  137 (509)
T ss_pred             HHHHHHhcCC-ccccEEEEEEEccCCcchhHHHH-HHHHHH---CCCCEEEEEecccCCCCC----HHHHHHHHHHcCCC
Confidence            3444444432 35577888889986 22222222 222333   579999999999987221    222222222     


Q ss_pred             --HhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           82 --EYG--IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        82 --~~~--~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                        .++  ..++.+||++|+|+.+|+..+.-.
T Consensus       138 ~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~  168 (509)
T COG0532         138 PEEWGGDVIFVPVSAKTGEGIDELLELILLL  168 (509)
T ss_pred             HhhcCCceEEEEeeccCCCCHHHHHHHHHHH
Confidence              222  368999999999999999888743

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.21  E-value=9.4e-06  Score=70.69  Aligned_cols=96  Identities=15%  Similarity=0.126  Sum_probs=57.0

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC---------
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP---------   72 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~---------   72 (149)
                      -+.|..++...+..+ +++++|+|+++    .++..+.    .+..   .++|+++|+||+|+........         
T Consensus       536 he~F~~lr~~g~~~a-DivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~  607 (1049)
T PRK14845        536 HEAFTSLRKRGGSLA-DLAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFN  607 (1049)
T ss_pred             cHHHHHHHHhhcccC-CEEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhh
Confidence            345666666655444 55788888874    2333332    2333   3579999999999862211000         


Q ss_pred             ---H---HHHH--------HHH------------HHh--CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           73 ---T---SKGQ--------ALA------------DEY--GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        73 ---~---~~~~--------~~~------------~~~--~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                         .   .+..        ++.            +.+  .++++.+||++|+|+++|+..|....
T Consensus       608 ~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        608 EQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence               0   0000        011            111  25789999999999999998876544

>PRK13768 GTPase; Provisional

Probab=98.20  E-value=1.2e-05  Score=59.96  Aligned_cols=99  Identities=17%  Similarity=0.070  Sum_probs=57.7

Q ss_pred             cccchhhhhhc----CeEEEEEeeCCh-hhHHH-HH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH--HHH---
Q 032001           10 IGVYPPYLAVL----CRFKYCTYKIAS-YHFSD-IR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS--KGQ---   77 (149)
Q Consensus        10 ~~~~~~~~~~~----~~~vi~v~~~~~-~s~~~-~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~--~~~---   77 (149)
                      +..++.+++..    .+++++|+|... ....+ .. .|+...... ..++|+++|+||+|+. ........  ...   
T Consensus       114 ~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~-~~~~~~~~~~~l~~~~  191 (253)
T PRK13768        114 RESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLL-SEEELERILKWLEDPE  191 (253)
T ss_pred             hHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhc-CchhHHHHHHHHhCHH
Confidence            33444444443    567888888864 22222 22 233222211 1468999999999987 32211100  000   


Q ss_pred             ---------------------HHHHHhC--CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           78 ---------------------ALADEYG--IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        78 ---------------------~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                                           ...+..+  .+++.+||+++.|++++++++.+.+.
T Consensus       192 ~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        192 YLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence                                 0112223  47899999999999999999988764

>TIGR00101 ureG urease accessory protein UreG

Probab=98.19  E-value=8.3e-06  Score=58.66  Aligned_cols=78  Identities=18%  Similarity=0.106  Sum_probs=49.4

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeE--EEEeeCCCCCcCCCCCCHHHHHHHHHH--hCCcEEEecCCCC
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNK--VLVGNKADMDESKRAVPTSKGQALADE--YGIKFFETSAKTN   95 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~i--ilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~~Sak~~   95 (149)
                      .+.+++|+|+.. .+..  ..+..        .+..  ++++||+|+. +.............+.  .+.+++++||++|
T Consensus       113 ~~~~i~vvD~~~~~~~~--~~~~~--------qi~~ad~~~~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g  181 (199)
T TIGR00101       113 ADLTIFVIDVAAGDKIP--RKGGP--------GITRSDLLVINKIDLA-PMVGADLGVMERDAKKMRGEKPFIFTNLKTK  181 (199)
T ss_pred             hCcEEEEEEcchhhhhh--hhhHh--------HhhhccEEEEEhhhcc-ccccccHHHHHHHHHHhCCCCCEEEEECCCC
Confidence            355788889885 3211  11111        2233  7889999997 2111122333333443  2468999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 032001           96 LNVEQVFFSIARDI  109 (149)
Q Consensus        96 ~~i~el~~~l~~~i  109 (149)
                      .|++++|+++.+..
T Consensus       182 ~gi~el~~~i~~~~  195 (199)
T TIGR00101       182 EGLDTVIDWIEHYA  195 (199)
T ss_pred             CCHHHHHHHHHhhc
Confidence            99999999998754

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.

>PRK09866 hypothetical protein; Provisional

Probab=98.19  E-value=2.3e-05  Score=65.00  Aligned_cols=88  Identities=16%  Similarity=0.086  Sum_probs=54.0

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH----Hh---CCcE
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD----EY---GIKF   87 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~----~~---~~~~   87 (149)
                      .+..+ |+|++|.|.+. .+..+ ....+.+.+.. ...|+++|.||+|+. +......+....+..    ..   ...+
T Consensus       255 qL~eA-DvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVNKIDl~-dreeddkE~Lle~V~~~L~q~~i~f~eI  330 (741)
T PRK09866        255 QLARA-SAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVNKFDQQ-DRNSDDADQVRALISGTLMKGCITPQQI  330 (741)
T ss_pred             HHhhC-CEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEEcccCC-CcccchHHHHHHHHHHHHHhcCCCCceE
Confidence            45555 55788888875 33332 23334444322 235999999999986 222212233333321    11   2369


Q ss_pred             EEecCCCCCCHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~  107 (149)
                      |++||+.|.|++++++.|..
T Consensus       331 fPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        331 FPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             EEEeCCCCCCHHHHHHHHHh
Confidence            99999999999999998886

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.19  E-value=5.5e-06  Score=56.18  Aligned_cols=73  Identities=15%  Similarity=0.154  Sum_probs=43.5

Q ss_pred             hhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001           17 LAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK   93 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak   93 (149)
                      +.++ |++++|+|..+ .+..  .+..|+...   . .++|+++|+||+|+. +..  .........+..+..++.+||+
T Consensus         9 i~~a-D~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~-~~~--~~~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           9 VERS-DIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLL-TEE--QRKAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HhhC-CEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcC-CHH--HHHHHHHHHHhcCCeEEEEEec
Confidence            3344 45788888875 3222  333444332   1 368999999999986 211  1122233444556789999999


Q ss_pred             CCCC
Q 032001           94 TNLN   97 (149)
Q Consensus        94 ~~~~   97 (149)
                      ++.+
T Consensus        81 ~~~~   84 (141)
T cd01857          81 KENA   84 (141)
T ss_pred             CCCc
Confidence            8753

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.14  E-value=1.5e-05  Score=60.07  Aligned_cols=82  Identities=22%  Similarity=0.251  Sum_probs=52.5

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---HHHhCCcEEEecCCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL---ADEYGIKFFETSAKTNL   96 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~~Sak~~~   96 (149)
                      .+|++++|.|.... +.....++.++.    .+.|+++|.||+|+. +.     .....|   .+..+.+++.+||+++.
T Consensus        21 ~aDvVl~V~Dar~p-~~~~~~~i~~~l----~~kp~IiVlNK~DL~-~~-----~~~~~~~~~~~~~~~~vi~iSa~~~~   89 (276)
T TIGR03596        21 LVDVVIEVLDARIP-LSSRNPMIDEIR----GNKPRLIVLNKADLA-DP-----AVTKQWLKYFEEKGIKALAINAKKGK   89 (276)
T ss_pred             hCCEEEEEEeCCCC-CCCCChhHHHHH----CCCCEEEEEEccccC-CH-----HHHHHHHHHHHHcCCeEEEEECCCcc
Confidence            34567888888631 111122223322    247999999999996 21     112222   22345678999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 032001           97 NVEQVFFSIARDIKQR  112 (149)
Q Consensus        97 ~i~el~~~l~~~i~~~  112 (149)
                      |++++++.+.+.+.+.
T Consensus        90 gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        90 GVKKIIKAAKKLLKEK  105 (276)
T ss_pred             cHHHHHHHHHHHHHHh
Confidence            9999999998877654

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.13  E-value=2.1e-05  Score=65.09  Aligned_cols=96  Identities=15%  Similarity=0.068  Sum_probs=57.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC-C--------
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-P--------   72 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~-~--------   72 (149)
                      -+.|..++...++.++. +++|+|.++    .++..+..    +..   .++|+++++||+|+....... .        
T Consensus        81 ~e~f~~~~~~~~~~aD~-~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~  152 (586)
T PRK04004         81 HEAFTNLRKRGGALADI-AILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIE  152 (586)
T ss_pred             hHHHHHHHHHhHhhCCE-EEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHh
Confidence            35677777766665554 677778874    34443332    222   368999999999985111100 0        


Q ss_pred             ---H---H-------HHHHHHHHh---------------CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           73 ---T---S-------KGQALADEY---------------GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        73 ---~---~-------~~~~~~~~~---------------~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                         .   .       +........               ..+++.+||++|.|+++++..+....
T Consensus       153 ~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        153 KQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence               0   0       000011111               25789999999999999998886544

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.10  E-value=5.1e-05  Score=60.18  Aligned_cols=88  Identities=15%  Similarity=0.002  Sum_probs=57.9

Q ss_pred             hhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHHH---h-CCcEEEecC
Q 032001           18 AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALADE---Y-GIKFFETSA   92 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~~---~-~~~~~~~Sa   92 (149)
                      -..++++++|.|....--++..+....+.+   ...++|+|.||+|+. ........... .+...   . ..+++++||
T Consensus       258 I~~a~vvllviDa~~~~~~qD~~ia~~i~~---~g~~~vIvvNKWDl~-~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA  333 (444)
T COG1160         258 IERADVVLLVIDATEGISEQDLRIAGLIEE---AGRGIVIVVNKWDLV-EEDEATMEEFKKKLRRKLPFLDFAPIVFISA  333 (444)
T ss_pred             HhhcCEEEEEEECCCCchHHHHHHHHHHHH---cCCCeEEEEEccccC-CchhhHHHHHHHHHHHHhccccCCeEEEEEe
Confidence            345677888888885323444555555555   457999999999987 32222222222 22222   2 258999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDI  109 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i  109 (149)
                      ++|.+++++|+.+....
T Consensus       334 ~~~~~i~~l~~~i~~~~  350 (444)
T COG1160         334 LTGQGLDKLFEAIKEIY  350 (444)
T ss_pred             cCCCChHHHHHHHHHHH
Confidence            99999999999988644

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.09  E-value=1.2e-05  Score=64.14  Aligned_cols=81  Identities=14%  Similarity=-0.057  Sum_probs=46.3

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC----CHHHHHHHHHHhC-----CcEEE
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV----PTSKGQALADEYG-----IKFFE   89 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~----~~~~~~~~~~~~~-----~~~~~   89 (149)
                      ..+++++|+|.++ ..+.....+...+.... ...++++++||+|+. .....    ...+...+....+     .++++
T Consensus       107 ~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~-~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~  184 (425)
T PRK12317        107 QADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAV-NYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIP  184 (425)
T ss_pred             cCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccc-cccHHHHHHHHHHHHHHHHhhCCCcCcceEEE
Confidence            3456788888875 12322222222222222 124689999999997 31110    1123334444444     46899


Q ss_pred             ecCCCCCCHHHHH
Q 032001           90 TSAKTNLNVEQVF  102 (149)
Q Consensus        90 ~Sak~~~~i~el~  102 (149)
                      +||++|.|+++++
T Consensus       185 iSA~~g~gi~~~~  197 (425)
T PRK12317        185 VSAFEGDNVVKKS  197 (425)
T ss_pred             eecccCCCccccc
Confidence            9999999998754

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.05  E-value=1.6e-05  Score=57.43  Aligned_cols=84  Identities=17%  Similarity=0.046  Sum_probs=45.6

Q ss_pred             chhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC----HHHHHHHHHHhC---C
Q 032001           13 YPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP----TSKGQALADEYG---I   85 (149)
Q Consensus        13 ~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~----~~~~~~~~~~~~---~   85 (149)
                      +...+..+ +++++|+|.+.........+...+.. . ...++|+|+||+|+. ......    ......+....+   .
T Consensus        94 ~~~~~~~a-d~~llVvD~~~~~~~~~~~~~~~~~~-~-~~~~iIvviNK~D~~-~~~~~~~~~i~~~~~~~~~~~~~~~~  169 (208)
T cd04166          94 MVTGASTA-DLAILLVDARKGVLEQTRRHSYILSL-L-GIRHVVVAVNKMDLV-DYSEEVFEEIVADYLAFAAKLGIEDI  169 (208)
T ss_pred             HHHhhhhC-CEEEEEEECCCCccHhHHHHHHHHHH-c-CCCcEEEEEEchhcc-cCCHHHHHHHHHHHHHHHHHcCCCCc
Confidence            33444544 44777778875212222222222222 2 123578899999986 221110    112333444445   3


Q ss_pred             cEEEecCCCCCCHHH
Q 032001           86 KFFETSAKTNLNVEQ  100 (149)
Q Consensus        86 ~~~~~Sak~~~~i~e  100 (149)
                      +++.+||++|.|+.+
T Consensus       170 ~ii~iSA~~g~ni~~  184 (208)
T cd04166         170 TFIPISALDGDNVVS  184 (208)
T ss_pred             eEEEEeCCCCCCCcc
Confidence            589999999999875

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.

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

Probab=98.05  E-value=7.6e-06  Score=55.41  Aligned_cols=97  Identities=14%  Similarity=0.102  Sum_probs=62.6

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH--HH--H
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQA--LA--D   81 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~--~~--~   81 (149)
                      +-|.+|..||.+.+.+++++ |.++ .-|+.+..-+.++.. ..-..+|+.+.+||.|+. ....+. ..+..  ++  +
T Consensus        74 ~IRpyWsNYyenvd~lIyVI-DS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdll-taa~~e-eia~klnl~~lr  150 (185)
T KOG0074|consen   74 GIRPYWSNYYENVDGLIYVI-DSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLL-TAAKVE-EIALKLNLAGLR  150 (185)
T ss_pred             ccchhhhhhhhccceEEEEE-eCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHH-hhcchH-HHHHhcchhhhh
Confidence            45789999999999965555 5555 677766544444433 222568999999999986 211111 11111  11  1


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      ...+.+..+||.+++++.+-.+++..
T Consensus       151 dRswhIq~csals~eg~~dg~~wv~s  176 (185)
T KOG0074|consen  151 DRSWHIQECSALSLEGSTDGSDWVQS  176 (185)
T ss_pred             hceEEeeeCccccccCccCcchhhhc
Confidence            11245678999999999988888765

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.03  E-value=2.2e-06  Score=56.05  Aligned_cols=78  Identities=19%  Similarity=0.207  Sum_probs=51.8

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      ..+.+.+++..+. ++++|+.+. .+++.+  |...+......++|+++++||.|+. .........        +..++
T Consensus        37 ~~~~~~~~~s~~~-~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~-~~~~~~~~~--------~~~~~  104 (124)
T smart00010       37 DVYDPTSYESFDV-VLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLE-EERQVATEE--------GLEFA  104 (124)
T ss_pred             hhccccccCCCCE-EEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhH-hhCcCCHHH--------HHHHH
Confidence            3445666666665 577788886 777655  8877765444678999999999985 222222222        22355


Q ss_pred             EecCCCCCCHH
Q 032001           89 ETSAKTNLNVE   99 (149)
Q Consensus        89 ~~Sak~~~~i~   99 (149)
                      ++|++++.|+.
T Consensus       105 ~~s~~~~~~~~  115 (124)
T smart00010      105 ETSAKTPEEGE  115 (124)
T ss_pred             HHhCCCcchhh
Confidence            67889999874

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.00  E-value=2.8e-05  Score=58.93  Aligned_cols=82  Identities=21%  Similarity=0.240  Sum_probs=53.1

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---HHhCCcEEEecCCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA---DEYGIKFFETSAKTNL   96 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~Sak~~~   96 (149)
                      ..|++++|.|.... +.....++.++..    +.|+++|.||+|+. +.     .....+.   +..+.+++.+||+++.
T Consensus        24 ~aDvIL~VvDar~p-~~~~~~~l~~~~~----~kp~iiVlNK~DL~-~~-----~~~~~~~~~~~~~~~~vi~vSa~~~~   92 (287)
T PRK09563         24 LVDVVIEVLDARIP-LSSENPMIDKIIG----NKPRLLILNKSDLA-DP-----EVTKKWIEYFEEQGIKALAINAKKGQ   92 (287)
T ss_pred             hCCEEEEEEECCCC-CCCCChhHHHHhC----CCCEEEEEEchhcC-CH-----HHHHHHHHHHHHcCCeEEEEECCCcc
Confidence            34667888887531 1122233333322    57999999999986 21     1122222   2335678999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 032001           97 NVEQVFFSIARDIKQR  112 (149)
Q Consensus        97 ~i~el~~~l~~~i~~~  112 (149)
                      |+++++..+.+.+.+.
T Consensus        93 gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         93 GVKKILKAAKKLLKEK  108 (287)
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            9999999998877654

>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=98.00  E-value=4e-05  Score=43.87  Aligned_cols=47  Identities=21%  Similarity=0.184  Sum_probs=33.3

Q ss_pred             hhhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 032001           16 YLAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKAD   63 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~D   63 (149)
                      -++...++|++++|.+.   .+.+.-.+++.+++... .+.|+++|.||+|
T Consensus         9 AL~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen    9 ALAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             GGGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             HHHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            35567788999999985   57788888999998877 4789999999998

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=97.99  E-value=2.9e-05  Score=55.88  Aligned_cols=61  Identities=11%  Similarity=0.082  Sum_probs=44.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHh---cCCCCeEEEEeeCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQH---ASDNVNKVLVGNKADMD   65 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~---~~~~~~iilv~nK~Dl~   65 (149)
                      |-++|+.++..||++..+++|+|+|..+  .++.....|+..+...   ....+|+++++||+|+.
T Consensus        57 G~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~  122 (203)
T cd04105          57 GHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLF  122 (203)
T ss_pred             CCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhc
Confidence            4467888889999988344677777775  5677777676655332   22579999999999986

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.99  E-value=8.7e-05  Score=54.79  Aligned_cols=54  Identities=20%  Similarity=0.189  Sum_probs=37.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ..|...+..+++.++. +++|+|..+ .. .....|+..+..   .++|+++++||+|+.
T Consensus        75 ~~f~~~~~~~l~~aD~-~IlVvd~~~g~~-~~~~~~~~~~~~---~~~P~iivvNK~D~~  129 (237)
T cd04168          75 MDFIAEVERSLSVLDG-AILVISAVEGVQ-AQTRILWRLLRK---LNIPTIIFVNKIDRA  129 (237)
T ss_pred             cchHHHHHHHHHHhCe-EEEEEeCCCCCC-HHHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            4566677788888766 566667775 32 344556665554   368999999999985

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.95  E-value=0.00019  Score=58.40  Aligned_cols=99  Identities=17%  Similarity=0.146  Sum_probs=57.8

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHH------HHhC--CcEEE
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALA------DEYG--IKFFE   89 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~------~~~~--~~~~~   89 (149)
                      ..|++++|+..++ -.....+. +..++.   .++|+|+..||+|.++.+    .+... ++.      +.+|  ..+++
T Consensus       224 vtDIvVLVVAadDGVmpQT~Ea-IkhAk~---A~VpiVvAinKiDkp~a~----pekv~~eL~~~gi~~E~~GGdVQvip  295 (683)
T KOG1145|consen  224 VTDIVVLVVAADDGVMPQTLEA-IKHAKS---ANVPIVVAINKIDKPGAN----PEKVKRELLSQGIVVEDLGGDVQVIP  295 (683)
T ss_pred             cccEEEEEEEccCCccHhHHHH-HHHHHh---cCCCEEEEEeccCCCCCC----HHHHHHHHHHcCccHHHcCCceeEEE
Confidence            4467777778876 22222222 222233   579999999999976221    22222 221      2333  57899


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHhcCC-CCCCCCCcccc
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQRLADT-DSRSEPSTIKI  127 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~~~~~-~~~~~~~~~~~  127 (149)
                      +||++|.|++.|.+.+.-.. +.++-. .+...-+++-+
T Consensus       296 iSAl~g~nl~~L~eaill~A-e~mdLkA~p~g~~eg~VI  333 (683)
T KOG1145|consen  296 ISALTGENLDLLEEAILLLA-EVMDLKADPKGPAEGWVI  333 (683)
T ss_pred             eecccCCChHHHHHHHHHHH-HHhhcccCCCCCceEEEE
Confidence            99999999999888887533 333333 33333344333

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=97.95  E-value=2.1e-05  Score=56.70  Aligned_cols=55  Identities=20%  Similarity=0.154  Sum_probs=39.1

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      .+.++++||+|+. +.............+..+  .+++.+||++|.|++++|+++.+.
T Consensus       149 ~a~iiv~NK~Dl~-~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       149 EADLIVINKADLA-EAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hCCEEEEEHHHcc-ccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            5679999999997 322112223333333333  789999999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK12736 elongation factor Tu; Reviewed

Probab=97.94  E-value=5.2e-05  Score=59.94  Aligned_cols=86  Identities=19%  Similarity=0.132  Sum_probs=49.4

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S   91 (149)
                      .+++++|+|.+..........+..+..   .++| +|++.||+|+. +.....   ..+...+....+     .+++++|
T Consensus        99 ~d~~llVvd~~~g~~~~t~~~~~~~~~---~g~~~~IvviNK~D~~-~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vS  174 (394)
T PRK12736         99 MDGAILVVAATDGPMPQTREHILLARQ---VGVPYLVVFLNKVDLV-DDEELLELVEMEVRELLSEYDFPGDDIPVIRGS  174 (394)
T ss_pred             CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCEEEEEEEecCCc-chHHHHHHHHHHHHHHHHHhCCCcCCccEEEee
Confidence            466788888875212223333333443   2467 67889999986 322111   112333444443     4799999


Q ss_pred             CCCCC--------CHHHHHHHHHHHHH
Q 032001           92 AKTNL--------NVEQVFFSIARDIK  110 (149)
Q Consensus        92 ak~~~--------~i~el~~~l~~~i~  110 (149)
                      |++|.        ++.++++.+.+.++
T Consensus       175 a~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        175 ALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             ccccccCCCcchhhHHHHHHHHHHhCC
Confidence            99983        46666666665543

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.90  E-value=0.00013  Score=52.29  Aligned_cols=74  Identities=20%  Similarity=0.125  Sum_probs=42.3

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCH---HHHHHHHHHhC-----CcEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPT---SKGQALADEYG-----IKFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~---~~~~~~~~~~~-----~~~~~~S   91 (149)
                      .+++++|.|.+..--......+..+..   .++| +|++.||+|+. .......   .+...+....+     ++++++|
T Consensus        89 ~D~~ilVvda~~g~~~~~~~~~~~~~~---~~~~~iIvviNK~D~~-~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiS  164 (195)
T cd01884          89 MDGAILVVSATDGPMPQTREHLLLARQ---VGVPYIVVFLNKADMV-DDEELLELVEMEVRELLSKYGFDGDNTPIVRGS  164 (195)
T ss_pred             CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCcEEEEEeCCCCC-CcHHHHHHHHHHHHHHHHHhcccccCCeEEEee
Confidence            455677778775211223333344444   2455 78899999986 2221111   12333344333     5799999


Q ss_pred             CCCCCCH
Q 032001           92 AKTNLNV   98 (149)
Q Consensus        92 ak~~~~i   98 (149)
                      |++|.|+
T Consensus       165 a~~g~n~  171 (195)
T cd01884         165 ALKALEG  171 (195)
T ss_pred             CccccCC
Confidence            9999985

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.88  E-value=7.8e-05  Score=57.00  Aligned_cols=88  Identities=16%  Similarity=0.164  Sum_probs=63.0

Q ss_pred             hhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-hCCcEEEecC
Q 032001           17 LAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-YGIKFFETSA   92 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa   92 (149)
                      ++...++|+++||.+.   .+.+.-.+++++++....  .|+++|.||+|+. +..  ..+++...... .+.....+++
T Consensus       244 L~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~-~~e--~~~~~~~~~~~~~~~~~~~~~~  318 (346)
T COG1084         244 LRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIA-DEE--KLEEIEASVLEEGGEEPLKISA  318 (346)
T ss_pred             HHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEeccccc-chh--HHHHHHHHHHhhccccccceee
Confidence            4567888999999985   577888889999988773  8999999999987 211  22233333333 3345677888


Q ss_pred             CCCCCHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDI  109 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i  109 (149)
                      ..+.+++.+...+....
T Consensus       319 ~~~~~~d~~~~~v~~~a  335 (346)
T COG1084         319 TKGCGLDKLREEVRKTA  335 (346)
T ss_pred             eehhhHHHHHHHHHHHh
Confidence            88888887777666653

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=97.87  E-value=6.9e-05  Score=59.61  Aligned_cols=81  Identities=16%  Similarity=-0.012  Sum_probs=53.8

Q ss_pred             cCeEEEEEeeCChh--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCC
Q 032001           20 LCRFKYCTYKIASY--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLN   97 (149)
Q Consensus        20 ~~~~vi~v~~~~~~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~   97 (149)
                      .+|.+++|+|.+..  ..+....|      ....+.|+++|.||.||. ....     ........+.+++.+||++|.|
T Consensus       296 ~ADlvL~v~D~~~~~~~~d~~~~~------~~~~~~~~i~v~NK~DL~-~~~~-----~~~~~~~~~~~~i~iSa~t~~G  363 (454)
T COG0486         296 EADLVLFVLDASQPLDKEDLALIE------LLPKKKPIIVVLNKADLV-SKIE-----LESEKLANGDAIISISAKTGEG  363 (454)
T ss_pred             hCCEEEEEEeCCCCCchhhHHHHH------hcccCCCEEEEEechhcc-cccc-----cchhhccCCCceEEEEecCccC
Confidence            45678888888852  22222222      222578999999999998 3211     1111112344689999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 032001           98 VEQVFFSIARDIKQR  112 (149)
Q Consensus        98 i~el~~~l~~~i~~~  112 (149)
                      ++.|.+.|.+.+...
T Consensus       364 l~~L~~~i~~~~~~~  378 (454)
T COG0486         364 LDALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999999877654

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.81  E-value=3.7e-05  Score=61.78  Aligned_cols=89  Identities=15%  Similarity=0.019  Sum_probs=52.1

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHH-------HHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCC--CC----C
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFS-------DIRNWIRNIEQHASDNV-NKVLVGNKADMDESKR--AV----P   72 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~-------~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~--~~----~   72 (149)
                      ++|...+...++.++. +++|+|.++..|+       .....+..+..   .++ ++|++.||+|+. +..  ..    .
T Consensus        96 ~df~~~~~~g~~~aD~-aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~-~~~~~~~~~~~i  170 (447)
T PLN00043         96 RDFIKNMITGTSQADC-AVLIIDSTTGGFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDAT-TPKYSKARYDEI  170 (447)
T ss_pred             HHHHHHHHhhhhhccE-EEEEEEcccCceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCC-chhhhHHHHHHH
Confidence            4566666666665555 5667788754443       22222222222   346 578899999975 111  10    1


Q ss_pred             HHHHHHHHHHhC-----CcEEEecCCCCCCHHH
Q 032001           73 TSKGQALADEYG-----IKFFETSAKTNLNVEQ  100 (149)
Q Consensus        73 ~~~~~~~~~~~~-----~~~~~~Sak~~~~i~e  100 (149)
                      ..++..++...+     ++++++||.+|.|+.+
T Consensus       171 ~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        171 VKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             HHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            223444555555     5799999999999854

>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=97.80  E-value=9.6e-05  Score=54.38  Aligned_cols=50  Identities=24%  Similarity=0.159  Sum_probs=38.1

Q ss_pred             CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      -+|+++|+||+|+. .     ..+...++.  ..+++++||++|.|++++|+.+.+.+
T Consensus       176 y~p~iiV~NK~Dl~-~-----~~~~~~~~~--~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         176 YIPCLYVYNKIDLI-S-----IEELDLLAR--QPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             EeeEEEEEECccCC-C-----HHHHHHHhc--CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            37999999999986 2     233333433  23589999999999999999998754

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.77  E-value=0.00013  Score=58.80  Aligned_cols=86  Identities=12%  Similarity=0.072  Sum_probs=50.6

Q ss_pred             CeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH---hCCcEEEecCC
Q 032001           21 CRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE---YGIKFFETSAK   93 (149)
Q Consensus        21 ~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~~~Sak   93 (149)
                      .|++++|.|.++  .......++ ..+.. . .-.++|+|.||+|+. +.....  ..+...+...   ...+++.+||+
T Consensus       141 ~D~alLVVda~~g~~~~qT~ehl-~i~~~-l-gi~~iIVvlNKiDlv-~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~  216 (460)
T PTZ00327        141 MDAALLLIAANESCPQPQTSEHL-AAVEI-M-KLKHIIILQNKIDLV-KEAQAQDQYEEIRNFVKGTIADNAPIIPISAQ  216 (460)
T ss_pred             CCEEEEEEECCCCccchhhHHHH-HHHHH-c-CCCcEEEEEeccccc-CHHHHHHHHHHHHHHHHhhccCCCeEEEeeCC
Confidence            355677778874  122222333 22222 2 124689999999987 211111  1122222222   24689999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIARDIK  110 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~  110 (149)
                      +|.|++.|++.|.+.++
T Consensus       217 ~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        217 LKYNIDVVLEYICTQIP  233 (460)
T ss_pred             CCCCHHHHHHHHHhhCC
Confidence            99999999999887554

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=97.74  E-value=4.3e-05  Score=55.57  Aligned_cols=47  Identities=17%  Similarity=0.116  Sum_probs=29.0

Q ss_pred             CeEEEEeeCCCCCcCC-CCCCHH----HHHHHHHHhC-----CcEEEecCCCCCCHH
Q 032001           53 VNKVLVGNKADMDESK-RAVPTS----KGQALADEYG-----IKFFETSAKTNLNVE   99 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~-~~~~~~----~~~~~~~~~~-----~~~~~~Sak~~~~i~   99 (149)
                      .|+++++||+|+.... ......    .+..+....+     .+++++||++|.|++
T Consensus       138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         138 KQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             CeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            6899999999986110 110011    1222233332     569999999999986

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=97.70  E-value=0.00022  Score=51.04  Aligned_cols=101  Identities=14%  Similarity=-0.015  Sum_probs=59.4

Q ss_pred             cccccccchhhhhhcC--eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            6 CLCFIGVYPPYLAVLC--RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~--~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      .+++..+...|+..-.  .+++++.|.....-+....+++-+.+   .++|+++|+||+|.. ... .....+...++..
T Consensus        90 ~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~---~~i~~~vv~tK~DKi-~~~-~~~k~l~~v~~~l  164 (200)
T COG0218          90 KEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLE---LGIPVIVVLTKADKL-KKS-ERNKQLNKVAEEL  164 (200)
T ss_pred             HHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEccccC-Chh-HHHHHHHHHHHHh
Confidence            3455567777877633  33555556664111212233333443   469999999999977 211 1112223333322


Q ss_pred             ----CC--cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 ----GI--KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ----~~--~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..  .++..|+.++.|++++...|.+.+.+
T Consensus       165 ~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         165 KKPPPDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             cCCCCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence                12  27788999999999999998876643

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.69  E-value=0.00034  Score=57.32  Aligned_cols=29  Identities=17%  Similarity=0.092  Sum_probs=25.8

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +|+|..||.++.||.+|++.+++.++...
T Consensus       249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P~P~  277 (526)
T PRK00741        249 TPVFFGSALNNFGVQEFLDAFVEWAPAPQ  277 (526)
T ss_pred             EEEEEeecccCcCHHHHHHHHHHHCCCCC
Confidence            47999999999999999999999987653

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

Probab=97.66  E-value=0.00011  Score=51.14  Aligned_cols=96  Identities=14%  Similarity=0.168  Sum_probs=60.8

Q ss_pred             cccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---HHH---
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQAL---ADE---   82 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~~~---   82 (149)
                      +..|..||..++++|++|...+.+.|.....-++.+...- -.++|+++.+||+|.+ .  -..+++....   .+.   
T Consensus        78 rr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p-~--a~se~~l~~~l~l~~~t~~  154 (193)
T KOG0077|consen   78 RRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIP-Y--AASEDELRFHLGLSNFTTG  154 (193)
T ss_pred             HHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCC-C--cccHHHHHHHHHHHHHhcc
Confidence            4578999999998766664444477777665555544321 1579999999999987 2  2233332211   111   


Q ss_pred             --------hC---CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 --------YG---IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 --------~~---~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                              .+   +.+|.+|...+.+--+.|.++...
T Consensus       155 ~~~v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  155 KGKVNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             cccccccCCCCCeEEEEEEEEEccCccceeeeehhhh
Confidence                    01   236788888888777777777653

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.65  E-value=0.00029  Score=55.72  Aligned_cols=79  Identities=19%  Similarity=0.099  Sum_probs=43.7

Q ss_pred             hhhhhhc--CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeE-EEEeeCCCCCcCCCCCC---HHHHHHHHHHhC---
Q 032001           14 PPYLAVL--CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNK-VLVGNKADMDESKRAVP---TSKGQALADEYG---   84 (149)
Q Consensus        14 ~~~~~~~--~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~i-ilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~---   84 (149)
                      ..++++.  .+++++|+|.+..........+..+..   .++|. |++.||+|+. +.....   ..+...++...+   
T Consensus        90 ~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~---~gi~~iIvvvNK~Dl~-~~~~~~~~~~~~i~~~l~~~~~~~  165 (394)
T TIGR00485        90 KNMITGAAQMDGAILVVSATDGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSEYDFPG  165 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEEEecccC-CHHHHHHHHHHHHHHHHHhcCCCc
Confidence            4444443  355777888875112222233333433   24664 5689999987 321111   123444555544   


Q ss_pred             --CcEEEecCCCCC
Q 032001           85 --IKFFETSAKTNL   96 (149)
Q Consensus        85 --~~~~~~Sak~~~   96 (149)
                        ++++++||++|.
T Consensus       166 ~~~~ii~vSa~~g~  179 (394)
T TIGR00485       166 DDTPIIRGSALKAL  179 (394)
T ss_pred             cCccEEECcccccc
Confidence              689999999885

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.

>cd04167 Snu114p Snu114p subfamily

Probab=97.64  E-value=0.00049  Score=49.72  Aligned_cols=54  Identities=19%  Similarity=0.105  Sum_probs=35.9

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.|...+..++..++. +++|+|... .++. ...|+..+..   .++|+++|+||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~-~llVvD~~~~~~~~-~~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDG-VVLVVDVVEGVTSN-TERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCE-EEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECcccC
Confidence            3466666777776666 677778875 4443 3455555443   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.

>PRK13351 elongation factor G; Reviewed

Probab=97.57  E-value=0.00057  Score=57.77  Aligned_cols=54  Identities=19%  Similarity=0.257  Sum_probs=37.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ..|...+..+++.++. +++|+|.+. ..+.....| ..+..   .++|+++++||+|+.
T Consensus        84 ~df~~~~~~~l~~aD~-~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~  138 (687)
T PRK13351         84 IDFTGEVERSLRVLDG-AVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRV  138 (687)
T ss_pred             HHHHHHHHHHHHhCCE-EEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCC
Confidence            3466677788887766 566778876 555555555 33443   368999999999986

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=97.52  E-value=0.00067  Score=54.73  Aligned_cols=92  Identities=18%  Similarity=0.137  Sum_probs=65.9

Q ss_pred             hhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH---HHHHHHHhCCcEEEec
Q 032001           18 AVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK---GQALADEYGIKFFETS   91 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~S   91 (149)
                      +..-.+|+++.|++.   .|...-.+++..|+... .+.|+|+|.||+|+. ....+....   ...+....+++++.+|
T Consensus       245 AHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m-~~edL~~~~~~ll~~~~~~~~v~v~~tS  322 (620)
T KOG1490|consen  245 AHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAM-RPEDLDQKNQELLQTIIDDGNVKVVQTS  322 (620)
T ss_pred             HHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeeccccc-CccccCHHHHHHHHHHHhccCceEEEec
Confidence            344556888889985   57777778888888766 578999999999986 322222222   2223333447899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~i~~  111 (149)
                      ..+.+||.++.....+.+..
T Consensus       323 ~~~eegVm~Vrt~ACe~LLa  342 (620)
T KOG1490|consen  323 CVQEEGVMDVRTTACEALLA  342 (620)
T ss_pred             ccchhceeeHHHHHHHHHHH
Confidence            99999999998887776653

>PRK12735 elongation factor Tu; Reviewed

Probab=97.52  E-value=0.00052  Score=54.37  Aligned_cols=85  Identities=18%  Similarity=0.126  Sum_probs=48.9

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKV-LVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~ii-lv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S   91 (149)
                      .|++++|+|.......+....+..+..   .++|.+ ++.||+|+. +.....   ..++..+....+     .+++++|
T Consensus        99 aD~~llVvda~~g~~~qt~e~l~~~~~---~gi~~iivvvNK~Dl~-~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~S  174 (396)
T PRK12735         99 MDGAILVVSAADGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSKYDFPGDDTPIIRGS  174 (396)
T ss_pred             CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCeEEEEEEecCCc-chHHHHHHHHHHHHHHHHHcCCCcCceeEEecc
Confidence            355777888875212233333344443   346754 679999986 321111   113334444432     5789999


Q ss_pred             CCCCC----------CHHHHHHHHHHHH
Q 032001           92 AKTNL----------NVEQVFFSIARDI  109 (149)
Q Consensus        92 ak~~~----------~i~el~~~l~~~i  109 (149)
                      |++|.          ++.+|++.|...+
T Consensus       175 a~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        175 ALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             hhccccCCCCCcccccHHHHHHHHHhcC
Confidence            99984          5667777776654

>PRK12740 elongation factor G; Reviewed

Probab=97.49  E-value=0.00075  Score=56.85  Aligned_cols=29  Identities=21%  Similarity=0.264  Sum_probs=25.4

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +|++..||++|.|++.|++.+...++...
T Consensus       237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lPsp~  265 (668)
T PRK12740        237 VPVFCGSALKNKGVQRLLDAVVDYLPSPL  265 (668)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCCChh
Confidence            46889999999999999999999887653

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=97.48  E-value=0.00059  Score=56.69  Aligned_cols=91  Identities=14%  Similarity=0.081  Sum_probs=62.7

Q ss_pred             hhhhhh-cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001           14 PPYLAV-LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA   92 (149)
Q Consensus        14 ~~~~~~-~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   92 (149)
                      ..|+.+ ..|+++.|.|.++  ++..-..--++.+   -++|+|++.|.+|.. ....+ ......+.+..|+|++.+||
T Consensus        74 r~~ll~~~~D~ivnVvDAtn--LeRnLyltlQLlE---~g~p~ilaLNm~D~A-~~~Gi-~ID~~~L~~~LGvPVv~tvA  146 (653)
T COG0370          74 RDFLLEGKPDLIVNVVDATN--LERNLYLTLQLLE---LGIPMILALNMIDEA-KKRGI-RIDIEKLSKLLGVPVVPTVA  146 (653)
T ss_pred             HHHHhcCCCCEEEEEcccch--HHHHHHHHHHHHH---cCCCeEEEeccHhhH-HhcCC-cccHHHHHHHhCCCEEEEEe
Confidence            344443 4488888888885  2222222233333   468999999999986 32222 33445677889999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~  111 (149)
                      ++|.|++++...+.+....
T Consensus       147 ~~g~G~~~l~~~i~~~~~~  165 (653)
T COG0370         147 KRGEGLEELKRAIIELAES  165 (653)
T ss_pred             ecCCCHHHHHHHHHHhccc
Confidence            9999999999988875543

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.46  E-value=0.0011  Score=51.43  Aligned_cols=85  Identities=16%  Similarity=0.151  Sum_probs=48.2

Q ss_pred             hhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH-------hCCcEE
Q 032001           18 AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE-------YGIKFF   88 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~-------~~~~~~   88 (149)
                      ...+|+++++.+  +.+.+.++.....+.+     +.-++|.||+|+. ......  ..+.......       ...+++
T Consensus       167 ~~~aD~vlvv~~--p~~gd~iq~~k~gi~E-----~aDIiVVNKaDl~-~~~~a~~~~~el~~~L~l~~~~~~~w~~pVi  238 (332)
T PRK09435        167 AGMVDFFLLLQL--PGAGDELQGIKKGIME-----LADLIVINKADGD-NKTAARRAAAEYRSALRLLRPKDPGWQPPVL  238 (332)
T ss_pred             HHhCCEEEEEec--CCchHHHHHHHhhhhh-----hhheEEeehhccc-chhHHHHHHHHHHHHHhcccccccCCCCCEE
Confidence            335666666643  2233444333332222     2237889999986 221110  0111111111       124799


Q ss_pred             EecCCCCCCHHHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+||+++.|+++|++.+.+.+.
T Consensus       239 ~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        239 TCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             EEECCCCCCHHHHHHHHHHHHH
Confidence            9999999999999999998765

>smart00275 G_alpha G protein alpha subunit

Probab=97.38  E-value=0.0027  Score=49.40  Aligned_cols=105  Identities=17%  Similarity=0.077  Sum_probs=62.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCc--------
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDE--------   66 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~--------   66 (149)
                      ..+|..|.+||.+... +++|.|.++           ..+.......+.+.+.. -.+.|+++++||.|+-.        
T Consensus       195 r~~R~kW~~~f~~v~~-IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l  273 (342)
T smart00275      195 RSERKKWIHCFDNVTA-IIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPL  273 (342)
T ss_pred             hhhhhhHHHHhCCCCE-EEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCch
Confidence            4578999999998777 566656663           23444444444444321 15789999999999731        


Q ss_pred             -----C-CCCCCHHHHHH-----HHHHhC------CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           67 -----S-KRAVPTSKGQA-----LADEYG------IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        67 -----~-~~~~~~~~~~~-----~~~~~~------~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                           + ........+..     +.....      +-+..++|.+-.++..+|+.+.+.+...
T Consensus       274 ~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      274 VDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             hccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence                 0 00011122221     222111      2235677888888999999888877654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=97.37  E-value=0.00088  Score=51.09  Aligned_cols=87  Identities=14%  Similarity=0.159  Sum_probs=51.2

Q ss_pred             cCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------CCCHHHHHHHHHHh---
Q 032001           20 LCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKR------------AVPTSKGQALADEY---   83 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~~~~~~~~~~~~~~---   83 (149)
                      .+|.|++|+|+.+. -..+ ...+..+..+  ..+|-|+|.||+|.....+            ++..- ...+.+.+   
T Consensus       155 ~AD~vvVv~Das~t-r~~l~p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~-kl~v~~~f~~~  230 (379)
T KOG1423|consen  155 NADCVVVVVDASAT-RTPLHPRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKL-KLEVQEKFTDV  230 (379)
T ss_pred             hCCEEEEEEeccCC-cCccChHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchh-hhhHHHHhccC
Confidence            35668888898841 1111 2333444444  3688899999999641111            11100 01111111   


Q ss_pred             ----------C----CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 ----------G----IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ----------~----~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                                |    ..+|++||++|+||+++.++|....+
T Consensus       231 p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  231 PSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             CcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence                      1    14899999999999999999987553

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.37  E-value=0.001  Score=48.67  Aligned_cols=54  Identities=17%  Similarity=0.026  Sum_probs=36.1

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.|......+++.+++ +++|+|+.. .+......|. .+..   .++|+++|+||+|+.
T Consensus        84 ~~f~~~~~~~l~~aD~-~ilVvD~~~g~~~~t~~~l~-~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          84 VDFSSEVTAALRLCDG-ALVVVDAVEGVCVQTETVLR-QALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             cccHHHHHHHHHhcCe-eEEEEECCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCCcc
Confidence            4566677778877777 577778886 4444433333 3332   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

>cd00066 G-alpha G protein alpha subunit

Probab=97.33  E-value=0.0033  Score=48.42  Aligned_cols=105  Identities=16%  Similarity=0.052  Sum_probs=61.7

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCc--------
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDE--------   66 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~--------   66 (149)
                      ...+..|.+||.+... +++|.|.++           ..+.........+.+... .+.|+++++||.|+-.        
T Consensus       172 ~~~R~kW~~~f~~v~~-iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l  250 (317)
T cd00066         172 RSERKKWIHCFEDVTA-IIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPL  250 (317)
T ss_pred             cccchhHHHHhCCCCE-EEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCc
Confidence            4578999999998877 555656653           223333334444433211 5789999999999631        


Q ss_pred             -----C--CCCCCHHHHHHH-----HHHh-----CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           67 -----S--KRAVPTSKGQAL-----ADEY-----GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        67 -----~--~~~~~~~~~~~~-----~~~~-----~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                           +  +.......+..+     ....     .+-...++|.+-.++..+|+.+.+.+...
T Consensus       251 ~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         251 TDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             cccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence                 0  001112222222     1111     12234677888888999999888877654

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.

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=97.31  E-value=0.001  Score=44.29  Aligned_cols=53  Identities=30%  Similarity=0.223  Sum_probs=41.2

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      .|+|-|.+|+||. +..  .......|..+.|. ++|.+|+.++.|++++++.|...
T Consensus        91 k~vIgvVTK~DLa-ed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~~  144 (148)
T COG4917          91 KKVIGVVTKADLA-EDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLASL  144 (148)
T ss_pred             cceEEEEeccccc-chH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHhh
Confidence            4589999999998 222  22445567777774 89999999999999999998753

>TIGR00503 prfC peptide chain release factor 3

Probab=97.29  E-value=0.0022  Score=52.65  Aligned_cols=29  Identities=14%  Similarity=0.087  Sum_probs=25.6

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +|+|.-||.++.||.+|++.+++.++...
T Consensus       250 ~PV~~GSA~~n~Gv~~LLd~i~~~~PsP~  278 (527)
T TIGR00503       250 TPVFFGTALGNFGVDHFLDGLLQWAPKPE  278 (527)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCCCCc
Confidence            47899999999999999999999987653

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.

>cd04169 RF3 RF3 subfamily

Probab=97.28  E-value=0.002  Score=48.42  Aligned_cols=55  Identities=13%  Similarity=-0.049  Sum_probs=34.5

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ++|...+..+++.++. +++|+|.+..-......|+..+..   .++|+++++||+|+.
T Consensus        82 ~df~~~~~~~l~~aD~-~IlVvda~~g~~~~~~~i~~~~~~---~~~P~iivvNK~D~~  136 (267)
T cd04169          82 EDFSEDTYRTLTAVDS-AVMVIDAAKGVEPQTRKLFEVCRL---RGIPIITFINKLDRE  136 (267)
T ss_pred             hHHHHHHHHHHHHCCE-EEEEEECCCCccHHHHHHHHHHHh---cCCCEEEEEECCccC
Confidence            3455556667776655 566778765211333445444433   368999999999986

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.

>CHL00071 tufA elongation factor Tu

Probab=97.28  E-value=0.0015  Score=51.97  Aligned_cols=74  Identities=19%  Similarity=0.095  Sum_probs=42.5

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCC---HHHHHHHHHHhC-----CcEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVP---TSKGQALADEYG-----IKFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S   91 (149)
                      .|++++|.|............+..+..   .++| +|++.||+|+. +.....   ..++..+....+     ++++.+|
T Consensus        99 ~D~~ilVvda~~g~~~qt~~~~~~~~~---~g~~~iIvvvNK~D~~-~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~S  174 (409)
T CHL00071         99 MDGAILVVSAADGPMPQTKEHILLAKQ---VGVPNIVVFLNKEDQV-DDEELLELVELEVRELLSKYDFPGDDIPIVSGS  174 (409)
T ss_pred             CCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEEEccCCC-CHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcc
Confidence            455777778875222333333344443   3467 77899999987 322111   113333444433     5799999


Q ss_pred             CCCCCCH
Q 032001           92 AKTNLNV   98 (149)
Q Consensus        92 ak~~~~i   98 (149)
                      |.+|.|+
T Consensus       175 a~~g~n~  181 (409)
T CHL00071        175 ALLALEA  181 (409)
T ss_pred             hhhcccc
Confidence            9998743

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.27  E-value=0.00071  Score=48.30  Aligned_cols=52  Identities=21%  Similarity=0.109  Sum_probs=37.6

Q ss_pred             EEEeeCCCCCcCCCCCCHHHHHHHHHHhC--CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           56 VLVGNKADMDESKRAVPTSKGQALADEYG--IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        56 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ++|.||.||. +--....+....-+++.+  .+++++|++||+|+++++.++...
T Consensus       146 llVInK~DLa-~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~  199 (202)
T COG0378         146 LLVINKTDLA-PYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             EEEEehHHhH-HHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhh
Confidence            7888999998 322222344444455543  689999999999999998888754

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.24  E-value=0.0011  Score=52.61  Aligned_cols=77  Identities=18%  Similarity=0.046  Sum_probs=42.6

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH----HHHHHHHHHhC---CcEEEec
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT----SKGQALADEYG---IKFFETS   91 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~----~~~~~~~~~~~---~~~~~~S   91 (149)
                      ..|++++|+|... ..-.....|.. +....  ..++|++.||+|+. .......    .....+....+   .+++++|
T Consensus       103 ~aD~allVVda~~G~~~qt~~~~~~-~~~~~--~~~iivviNK~D~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiS  178 (406)
T TIGR02034       103 TADLAVLLVDARKGVLEQTRRHSYI-ASLLG--IRHVVLAVNKMDLV-DYDEEVFENIKKDYLAFAEQLGFRDVTFIPLS  178 (406)
T ss_pred             hCCEEEEEEECCCCCccccHHHHHH-HHHcC--CCcEEEEEEecccc-cchHHHHHHHHHHHHHHHHHcCCCCccEEEee
Confidence            4455777778764 22222223322 22211  23688999999986 3221111    11222333333   4699999


Q ss_pred             CCCCCCHHH
Q 032001           92 AKTNLNVEQ  100 (149)
Q Consensus        92 ak~~~~i~e  100 (149)
                      |++|.|+.+
T Consensus       179 A~~g~ni~~  187 (406)
T TIGR02034       179 ALKGDNVVS  187 (406)
T ss_pred             cccCCCCcc
Confidence            999999875

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).

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.17  E-value=0.0013  Score=50.27  Aligned_cols=58  Identities=17%  Similarity=0.258  Sum_probs=37.2

Q ss_pred             CCeEEEEeeCCCCCcCCCCCCHHH--H----HHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           52 NVNKVLVGNKADMDESKRAVPTSK--G----QALADE---YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~~~~~~--~----~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++|.++|.||+|+. .........  .    ..+...   ...+++.+||+++.|++++++++.+...
T Consensus       172 ~~~~ivv~NK~Dl~-~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       172 EIADIYVVNKADGE-GATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             hhccEEEEEccccc-chhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            46779999999987 221110000  0    111111   1236899999999999999999998643

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=97.16  E-value=0.0039  Score=49.45  Aligned_cols=85  Identities=16%  Similarity=0.104  Sum_probs=47.0

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCCcCCCCCC---HHHHHHHHHHh-----CCcEEEe
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKV-LVGNKADMDESKRAVP---TSKGQALADEY-----GIKFFET   90 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~ii-lv~nK~Dl~~~~~~~~---~~~~~~~~~~~-----~~~~~~~   90 (149)
                      ..|++++|.|.+.........++..+..   .++|.+ ++.||+|+. ......   ..+...+....     ..+++.+
T Consensus        98 ~aD~~llVVDa~~g~~~qt~~~~~~~~~---~g~p~iiVvvNK~D~~-~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~i  173 (396)
T PRK00049         98 QMDGAILVVSAADGPMPQTREHILLARQ---VGVPYIVVFLNKCDMV-DDEELLELVEMEVRELLSKYDFPGDDTPIIRG  173 (396)
T ss_pred             cCCEEEEEEECCCCCchHHHHHHHHHHH---cCCCEEEEEEeecCCc-chHHHHHHHHHHHHHHHHhcCCCccCCcEEEe
Confidence            3456777778875222333344444444   247765 689999987 211111   11222333332     3578999


Q ss_pred             cCCCCC----------CHHHHHHHHHHH
Q 032001           91 SAKTNL----------NVEQVFFSIARD  108 (149)
Q Consensus        91 Sak~~~----------~i~el~~~l~~~  108 (149)
                      ||++|.          ++..+++.|...
T Consensus       174 Sa~~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        174 SALKALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             ecccccCCCCcccccccHHHHHHHHHhc
Confidence            999875          345555555543

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.15  E-value=0.0012  Score=50.23  Aligned_cols=54  Identities=20%  Similarity=0.139  Sum_probs=36.6

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-h-CCcEEEecCCCCCCHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADE-Y-GIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~-~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      ..-++|.||+|+. +......+......+. + ..+++.+||++|.|+++++++|.+
T Consensus       231 ~ADIVVLNKiDLl-~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~  286 (290)
T PRK10463        231 AASLMLLNKVDLL-PYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLET  286 (290)
T ss_pred             cCcEEEEEhHHcC-cccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4568889999997 2111111222222233 3 368999999999999999999876

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.14  E-value=0.00098  Score=51.18  Aligned_cols=60  Identities=18%  Similarity=0.197  Sum_probs=43.0

Q ss_pred             CeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           53 VNKVLVGNKADMDESKRA--VPTSKGQALADE---YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ..+|++-||+||. ....  ...++...|.+.   .+.|++.+||..+.||+.|++.|.+.++...
T Consensus       141 k~iiIvQNKIDlV-~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~  205 (415)
T COG5257         141 KNIIIVQNKIDLV-SRERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPE  205 (415)
T ss_pred             ceEEEEeccccee-cHHHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCc
Confidence            4789999999998 3211  112233334332   2468999999999999999999999886653

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.14  E-value=0.00091  Score=54.23  Aligned_cols=78  Identities=17%  Similarity=0.068  Sum_probs=42.5

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH----HHHHHHHh----CCcEEEe
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK----GQALADEY----GIKFFET   90 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~----~~~~~~~~----~~~~~~~   90 (149)
                      ..|++++|+|.+. ..-.....|.. +....  ..++|++.||+|+. .........    ...+....    ..+++.+
T Consensus       130 ~aD~allVVDa~~G~~~qt~~~~~l-~~~lg--~~~iIvvvNKiD~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipv  205 (474)
T PRK05124        130 TCDLAILLIDARKGVLDQTRRHSFI-ATLLG--IKHLVVAVNKMDLV-DYSEEVFERIREDYLTFAEQLPGNLDIRFVPL  205 (474)
T ss_pred             hCCEEEEEEECCCCccccchHHHHH-HHHhC--CCceEEEEEeeccc-cchhHHHHHHHHHHHHHHHhcCCCCCceEEEE
Confidence            3455777778874 21112222221 12111  24789999999987 322111111    11222232    3679999


Q ss_pred             cCCCCCCHHHH
Q 032001           91 SAKTNLNVEQV  101 (149)
Q Consensus        91 Sak~~~~i~el  101 (149)
                      ||++|.|+.++
T Consensus       206 SA~~g~ni~~~  216 (474)
T PRK05124        206 SALEGDNVVSQ  216 (474)
T ss_pred             EeecCCCcccc
Confidence            99999999764

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=97.07  E-value=0.003  Score=51.78  Aligned_cols=88  Identities=16%  Similarity=0.232  Sum_probs=62.8

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEEEecCCCCC
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFFETSAKTNL   96 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~Sak~~~   96 (149)
                      ..++++.++||.++ .+|..+....+.-...  ..+|+++|++|+|+. +..+........++.++++ +.+.+|.++..
T Consensus       494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlD-e~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~  570 (625)
T KOG1707|consen  494 AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLD-EVPQRYSIQPDEFCRQLGLPPPIHISSKTLS  570 (625)
T ss_pred             ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccc-hhhhccCCChHHHHHhcCCCCCeeeccCCCC
Confidence            35678999999997 8999988876654333  578999999999997 4333333333667888886 34556666433


Q ss_pred             CHHHHHHHHHHHHH
Q 032001           97 NVEQVFFSIARDIK  110 (149)
Q Consensus        97 ~i~el~~~l~~~i~  110 (149)
                      . .++|..|+.+..
T Consensus       571 s-~~lf~kL~~~A~  583 (625)
T KOG1707|consen  571 S-NELFIKLATMAQ  583 (625)
T ss_pred             C-chHHHHHHHhhh
Confidence            3 789999987664

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=97.05  E-value=0.0032  Score=51.50  Aligned_cols=98  Identities=18%  Similarity=0.356  Sum_probs=73.6

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcC-CCCCCHHHHHHHHHHh-CCcEEEe
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDES-KRAVPTSKGQALADEY-GIKFFET   90 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~-~~~~~~~~~~~~~~~~-~~~~~~~   90 (149)
                      .-|..+.+++|+||.+.+ .+|+.+..+..++..+.. ..+|+++++++.-+... .+.+.+.+..+++..+ ...+|+.
T Consensus        90 aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et  169 (749)
T KOG0705|consen   90 AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYET  169 (749)
T ss_pred             hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeec
Confidence            346678899999999998 899999988888765443 67889999888765421 2334445555555554 3568999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .|.+|.+++.+|..++..+...
T Consensus       170 ~atyGlnv~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  170 CATYGLNVERVFQEVAQKIVQL  191 (749)
T ss_pred             chhhhhhHHHHHHHHHHHHHHH
Confidence            9999999999999999877654

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=97.04  E-value=0.0034  Score=52.64  Aligned_cols=77  Identities=18%  Similarity=0.062  Sum_probs=42.6

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH----HHHHHHHHhC---CcEEEec
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS----KGQALADEYG---IKFFETS   91 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~----~~~~~~~~~~---~~~~~~S   91 (149)
                      ..|++++|+|.+. ..-.....+. .+...  ...++|++.||+|+. +.......    +...+....+   .+++++|
T Consensus       127 ~aD~~llVvda~~g~~~~t~e~~~-~~~~~--~~~~iivvvNK~D~~-~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiS  202 (632)
T PRK05506        127 TADLAIILVDARKGVLTQTRRHSF-IASLL--GIRHVVLAVNKMDLV-DYDQEVFDEIVADYRAFAAKLGLHDVTFIPIS  202 (632)
T ss_pred             hCCEEEEEEECCCCccccCHHHHH-HHHHh--CCCeEEEEEEecccc-cchhHHHHHHHHHHHHHHHHcCCCCccEEEEe
Confidence            4455777778864 2112222222 22222  125788999999987 31111111    1222333444   3689999


Q ss_pred             CCCCCCHHH
Q 032001           92 AKTNLNVEQ  100 (149)
Q Consensus        92 ak~~~~i~e  100 (149)
                      |++|.|+.+
T Consensus       203 A~~g~ni~~  211 (632)
T PRK05506        203 ALKGDNVVT  211 (632)
T ss_pred             cccCCCccc
Confidence            999999874

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.00  E-value=0.0051  Score=44.61  Aligned_cols=59  Identities=12%  Similarity=0.119  Sum_probs=35.1

Q ss_pred             ccccccchhhhh---hcCeEEEEEeeCCh-hhHHHHHHHHHHH-HHhc--CCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLA---VLCRFKYCTYKIAS-YHFSDIRNWIRNI-EQHA--SDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~---~~~~~vi~v~~~~~-~s~~~~~~~~~~i-~~~~--~~~~~iilv~nK~Dl~   65 (149)
                      +|.|.....||.   .+.++|++|.+... ....+...++-.+ ....  .+.+|++++.||.|+.
T Consensus        93 ~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~  158 (238)
T KOG0090|consen   93 SRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF  158 (238)
T ss_pred             HHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence            344444455565   45565555554443 4455555444444 3332  3678999999999985

>PLN03127 Elongation factor Tu; Provisional

Probab=96.95  E-value=0.0051  Score=49.58  Aligned_cols=86  Identities=16%  Similarity=0.075  Sum_probs=45.7

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCHH---HHHHHHHHh-----CCcEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPTS---KGQALADEY-----GIKFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~~---~~~~~~~~~-----~~~~~~~S   91 (149)
                      .|++++|.|.+..-..+....+..+..   .++| +|++.||+|+. +.......   +...+....     .++++.+|
T Consensus       148 aD~allVVda~~g~~~qt~e~l~~~~~---~gip~iIvviNKiDlv-~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~S  223 (447)
T PLN03127        148 MDGGILVVSAPDGPMPQTKEHILLARQ---VGVPSLVVFLNKVDVV-DDEELLELVEMELRELLSFYKFPGDEIPIIRGS  223 (447)
T ss_pred             CCEEEEEEECCCCCchhHHHHHHHHHH---cCCCeEEEEEEeeccC-CHHHHHHHHHHHHHHHHHHhCCCCCcceEEEec
Confidence            566777778875212222333333333   3577 57889999987 32111111   122222222     25788888


Q ss_pred             CC---CCCC-------HHHHHHHHHHHHH
Q 032001           92 AK---TNLN-------VEQVFFSIARDIK  110 (149)
Q Consensus        92 ak---~~~~-------i~el~~~l~~~i~  110 (149)
                      |.   +|.|       +.+|++.+...++
T Consensus       224 a~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        224 ALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             cceeecCCCcccccchHHHHHHHHHHhCC
Confidence            75   4555       5667776666543

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.95  E-value=0.017  Score=43.75  Aligned_cols=29  Identities=10%  Similarity=0.255  Sum_probs=24.2

Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++..+.+||.+|.|.+++|..+-+.+-+-
T Consensus       238 ~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  238 SLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             hCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            46789999999999999999888766544

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=96.93  E-value=0.012  Score=45.59  Aligned_cols=60  Identities=18%  Similarity=0.211  Sum_probs=44.1

Q ss_pred             CCeEEEEeeCCCCCc---CC---CCCCHH----HHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           52 NVNKVLVGNKADMDE---SK---RAVPTS----KGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~---~~---~~~~~~----~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+|+++|.+|+|...   .+   +.....    .+..|+-.+|...|++|+|...|++-|...|+..++.
T Consensus       222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYG  291 (473)
T ss_pred             CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcC
Confidence            489999999999730   11   111111    2345667788889999999999999999999987764

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=96.91  E-value=0.011  Score=42.20  Aligned_cols=86  Identities=16%  Similarity=0.129  Sum_probs=50.4

Q ss_pred             CeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC------CHHH----HH----HHHHHhC-
Q 032001           21 CRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAV------PTSK----GQ----ALADEYG-   84 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~------~~~~----~~----~~~~~~~-   84 (149)
                      .++++++. .+  +|... ..|+..+...   +.|+++|+||+|+.......      ...+    ..    ......+ 
T Consensus        81 ~d~~l~v~-~~--~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~  154 (197)
T cd04104          81 YDFFIIIS-ST--RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGV  154 (197)
T ss_pred             cCEEEEEe-CC--CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCC
Confidence            35455553 22  34443 4566666553   47999999999984111100      0111    11    1112222 


Q ss_pred             --CcEEEecCC--CCCCHHHHHHHHHHHHHHH
Q 032001           85 --IKFFETSAK--TNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 --~~~~~~Sak--~~~~i~el~~~l~~~i~~~  112 (149)
                        -++|.+|+.  .+.++..+.+.|...+++.
T Consensus       155 ~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         155 SEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             CCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence              268899998  5689999999999988765

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

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.88  E-value=0.0074  Score=48.00  Aligned_cols=97  Identities=18%  Similarity=0.086  Sum_probs=57.2

Q ss_pred             cccccchhhhhh--cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH---
Q 032001            8 CFIGVYPPYLAV--LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD---   81 (149)
Q Consensus         8 ~~~~~~~~~~~~--~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~---   81 (149)
                      +|-.....-..+  +.+..++|.+.++ -......++.  +.+.. .-...++|.||+|.. +...+ ++.......   
T Consensus        59 gh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~--iLdll-gi~~giivltk~D~~-d~~r~-e~~i~~Il~~l~  133 (447)
T COG3276          59 GHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLL--ILDLL-GIKNGIIVLTKADRV-DEARI-EQKIKQILADLS  133 (447)
T ss_pred             CcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHH--HHHhc-CCCceEEEEeccccc-cHHHH-HHHHHHHHhhcc
Confidence            344444444444  4566777778764 2233333321  22222 234569999999987 32211 112222222   


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ....++|.+|+++|+||++|.+.|.+..
T Consensus       134 l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         134 LANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             cccccccccccccCCCHHHHHHHHHHhh
Confidence            2245789999999999999999999877

>PRK12739 elongation factor G; Reviewed

Probab=96.74  E-value=0.011  Score=50.15  Aligned_cols=28  Identities=14%  Similarity=0.107  Sum_probs=24.3

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +|++..||.++.|+..|++.|+..++..
T Consensus       253 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP  280 (691)
T PRK12739        253 FPVLCGSAFKNKGVQPLLDAVVDYLPSP  280 (691)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCCCh
Confidence            3678889999999999999999988754

>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=96.70  E-value=0.01  Score=42.07  Aligned_cols=49  Identities=14%  Similarity=0.217  Sum_probs=27.8

Q ss_pred             hhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHH-h--cCCCCeEEEEeeCCCCC
Q 032001           16 YLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQ-H--ASDNVNKVLVGNKADMD   65 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~-~--~~~~~~iilv~nK~Dl~   65 (149)
                      |..++.++ |+|.|.. . ..+.....++-.+.. .  ....+|+++++||.|+.
T Consensus        72 ~~~~~k~I-IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~  125 (181)
T PF09439_consen   72 YLSNAKGI-IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLF  125 (181)
T ss_dssp             HHGGEEEE-EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTST
T ss_pred             chhhCCEE-EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccc
Confidence            35556664 5555554 3 455555544444433 2  23679999999999987

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=96.68  E-value=0.0082  Score=48.40  Aligned_cols=77  Identities=12%  Similarity=0.001  Sum_probs=41.3

Q ss_pred             cCeEEEEEeeCChhhH--------HHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCc-CCCCCCH----HHHHHHHHHh--
Q 032001           20 LCRFKYCTYKIASYHF--------SDIRNWIRNIEQHASDNVN-KVLVGNKADMDE-SKRAVPT----SKGQALADEY--   83 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~--------~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~-~~~~~~~----~~~~~~~~~~--   83 (149)
                      ..|++++|.|.+..-|        ....+|.. +..   .++| +|++.||+|... +......    .+...+....  
T Consensus       108 ~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~-~~~---~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~  183 (446)
T PTZ00141        108 QADVAILVVASTAGEFEAGISKDGQTREHALL-AFT---LGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGY  183 (446)
T ss_pred             hcCEEEEEEEcCCCceecccCCCccHHHHHHH-HHH---cCCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCC
Confidence            3445666767765222        22334432 333   2455 678999999530 1111111    1222333332  


Q ss_pred             ---CCcEEEecCCCCCCHHH
Q 032001           84 ---GIKFFETSAKTNLNVEQ  100 (149)
Q Consensus        84 ---~~~~~~~Sak~~~~i~e  100 (149)
                         .++++.+||.+|.|+.+
T Consensus       184 ~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        184 NPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             CcccceEEEeecccCCCccc
Confidence               25789999999999864

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=96.67  E-value=0.012  Score=43.94  Aligned_cols=72  Identities=15%  Similarity=0.195  Sum_probs=40.7

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF   87 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   87 (149)
                      |...+..+++.++. +++|+|.+. ........|. .+..   .++|.++++||+|+. ..  ........+.+..+.++
T Consensus        77 f~~~~~~~l~~aD~-~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvNK~D~~-~~--~~~~~~~~l~~~~~~~~  148 (268)
T cd04170          77 FVGETRAALRAADA-ALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFINKMDRE-RA--DFDKTLAALQEAFGRPV  148 (268)
T ss_pred             HHHHHHHHHHHCCE-EEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCccC-CC--CHHHHHHHHHHHhCCCe
Confidence            34445666666655 677778875 3333333443 3333   358999999999987 22  22233344444555544


Q ss_pred             E
Q 032001           88 F   88 (149)
Q Consensus        88 ~   88 (149)
                      +
T Consensus       149 ~  149 (268)
T cd04170         149 V  149 (268)
T ss_pred             E
Confidence            4

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

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=96.65  E-value=0.0042  Score=46.77  Aligned_cols=53  Identities=19%  Similarity=0.112  Sum_probs=32.2

Q ss_pred             ccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      |..-+..+++.++. +++|.|....--.....++..+..   .++|++++.||+|+.
T Consensus        77 f~~~~~~~l~~aD~-ailVVDa~~g~~~~t~~~~~~~~~---~~~p~ivviNK~D~~  129 (270)
T cd01886          77 FTIEVERSLRVLDG-AVAVFDAVAGVEPQTETVWRQADR---YNVPRIAFVNKMDRT  129 (270)
T ss_pred             HHHHHHHHHHHcCE-EEEEEECCCCCCHHHHHHHHHHHH---cCCCEEEEEECCCCC
Confidence            44455667777766 455557664111223344444444   358999999999986

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

>PLN03126 Elongation factor Tu; Provisional

Probab=96.64  E-value=0.0074  Score=49.06  Aligned_cols=74  Identities=19%  Similarity=0.073  Sum_probs=42.1

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCH---HHHHHHHHHh-----CCcEEEe
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPT---SKGQALADEY-----GIKFFET   90 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~---~~~~~~~~~~-----~~~~~~~   90 (149)
                      ..|++++|+|.+.........++..+..   .++| +|++.||+|+. +......   .+...+....     .++++.+
T Consensus       167 ~aD~ailVVda~~G~~~qt~e~~~~~~~---~gi~~iIvvvNK~Dl~-~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~  242 (478)
T PLN03126        167 QMDGAILVVSGADGPMPQTKEHILLAKQ---VGVPNMVVFLNKQDQV-DDEELLELVELEVRELLSSYEFPGDDIPIISG  242 (478)
T ss_pred             hCCEEEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEeccccc-CHHHHHHHHHHHHHHHHHhcCCCcCcceEEEE
Confidence            3455777778775212333344444444   2466 78899999987 3211111   1233344443     3579999


Q ss_pred             cCCCCCC
Q 032001           91 SAKTNLN   97 (149)
Q Consensus        91 Sak~~~~   97 (149)
                      ||.+|.+
T Consensus       243 Sa~~g~n  249 (478)
T PLN03126        243 SALLALE  249 (478)
T ss_pred             Ecccccc
Confidence            9998854

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.30  E-value=0.022  Score=44.51  Aligned_cols=103  Identities=12%  Similarity=0.072  Sum_probs=58.2

Q ss_pred             ccccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH-HH-HHH
Q 032001            5 RCLCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT-SK-GQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~-~~-~~~   78 (149)
                      -|++..++....+.++.  |+.++|.|+.. .--...+ -.+.++..     ...|+|.||+|...+++.... ++ +..
T Consensus        76 DCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c-----~klvvvinkid~lpE~qr~ski~k~~kk  150 (522)
T KOG0461|consen   76 DCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLC-----KKLVVVINKIDVLPENQRASKIEKSAKK  150 (522)
T ss_pred             eCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhc-----cceEEEEeccccccchhhhhHHHHHHHH
Confidence            35666777777766644  55677778774 2222222 23333322     356778888886522221111 11 112


Q ss_pred             HHH---Hh----CCcEEEecCCCC----CCHHHHHHHHHHHHHHH
Q 032001           79 LAD---EY----GIKFFETSAKTN----LNVEQVFFSIARDIKQR  112 (149)
Q Consensus        79 ~~~---~~----~~~~~~~Sak~~----~~i~el~~~l~~~i~~~  112 (149)
                      ..+   ..    +.|++++||+.|    +++.+|...|...+++.
T Consensus       151 ~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P  195 (522)
T KOG0461|consen  151 VRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEP  195 (522)
T ss_pred             HHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCC
Confidence            221   11    268999999999    67777777777766554

>cd01899 Ygr210 Ygr210 subfamily

Probab=96.28  E-value=0.016  Score=44.73  Aligned_cols=56  Identities=20%  Similarity=0.173  Sum_probs=39.8

Q ss_pred             CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-CCcEEEecCCCCCCHHHHHH-HHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAKTNLNVEQVFF-SIARDIKQ  111 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~Sak~~~~i~el~~-~l~~~i~~  111 (149)
                      ...|+|+|+||+|+. ...    .....+.... ...++.+||+.+.+++++.+ .+++.+++
T Consensus       213 t~KPvI~VlNK~Dl~-~~~----~~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         213 RSKPMVIAANKADIP-DAE----NNISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             cCCcEEEEEEHHHcc-ChH----HHHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            458999999999986 221    1112222233 45799999999999999987 58887754

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.27  E-value=0.027  Score=47.82  Aligned_cols=80  Identities=16%  Similarity=0.119  Sum_probs=45.0

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-   85 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-   85 (149)
                      +|...+..+++.++. +++|+|... ........| ..+..   .++|+++++||+|+. ...  .......+....+. 
T Consensus        87 ~~~~~~~~~l~~~D~-~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~-~~~--~~~~~~~i~~~l~~~  158 (689)
T TIGR00484        87 DFTVEVERSLRVLDG-AVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKT-GAN--FLRVVNQIKQRLGAN  158 (689)
T ss_pred             chhHHHHHHHHHhCE-EEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCC-CCC--HHHHHHHHHHHhCCC
Confidence            455556677777766 566667775 434433333 33443   358999999999987 221  12223334344332 


Q ss_pred             ---cEEEecCCCC
Q 032001           86 ---KFFETSAKTN   95 (149)
Q Consensus        86 ---~~~~~Sak~~   95 (149)
                         ..+.+|+..+
T Consensus       159 ~~~~~ipis~~~~  171 (689)
T TIGR00484       159 AVPIQLPIGAEDN  171 (689)
T ss_pred             ceeEEeccccCCC
Confidence               2455666554

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=96.18  E-value=0.024  Score=45.81  Aligned_cols=95  Identities=13%  Similarity=0.109  Sum_probs=56.5

Q ss_pred             hhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHH-H------HHhCC
Q 032001           14 PPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQAL-A------DEYGI   85 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~-~------~~~~~   85 (149)
                      ...+...++++++| |..+-..-+....+.....   .+.+-|+|.||+|.+ ..+... ..+...+ .      .+..+
T Consensus        86 ERvl~MVDgvlLlV-DA~EGpMPQTrFVlkKAl~---~gL~PIVVvNKiDrp-~Arp~~Vvd~vfDLf~~L~A~deQLdF  160 (603)
T COG1217          86 ERVLSMVDGVLLLV-DASEGPMPQTRFVLKKALA---LGLKPIVVINKIDRP-DARPDEVVDEVFDLFVELGATDEQLDF  160 (603)
T ss_pred             hhhhhhcceEEEEE-EcccCCCCchhhhHHHHHH---cCCCcEEEEeCCCCC-CCCHHHHHHHHHHHHHHhCCChhhCCC
Confidence            34455667755555 6554223445555555544   345667788999987 322110 1111122 1      34567


Q ss_pred             cEEEecCCCC----------CCHHHHHHHHHHHHHHHh
Q 032001           86 KFFETSAKTN----------LNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        86 ~~~~~Sak~~----------~~i~el~~~l~~~i~~~~  113 (149)
                      |++..||..|          .++..||+.|++.++...
T Consensus       161 PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~  198 (603)
T COG1217         161 PIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPK  198 (603)
T ss_pred             cEEEeeccCceeccCccccccchhHHHHHHHHhCCCCC
Confidence            8999998776          467889999998887654

>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=96.08  E-value=0.054  Score=39.97  Aligned_cols=98  Identities=14%  Similarity=0.162  Sum_probs=57.0

Q ss_pred             ccchhhhhhcCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-CCCCH----HHHHHHHH
Q 032001           11 GVYPPYLAVLCRFKYCTYKIAS----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK-RAVPT----SKGQALAD   81 (149)
Q Consensus        11 ~~~~~~~~~~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-~~~~~----~~~~~~~~   81 (149)
                      .-+...|++... +|+|+|+..    +.+......+..+.+.. +++.+.+..+|+|+..++ +....    ......+.
T Consensus        68 ~~~~~if~~v~~-LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~  145 (232)
T PF04670_consen   68 SQREEIFSNVGV-LIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELE  145 (232)
T ss_dssp             CCHHHHHCTESE-EEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHhccCE-EEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhh
Confidence            345667777766 777888873    34444455555555555 689999999999986211 11001    11222333


Q ss_pred             HhC---CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 EYG---IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ~~~---~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ..+   +.++.+|.-+ +.+-+.+-.++..+..
T Consensus       146 ~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~LiP  177 (232)
T PF04670_consen  146 DLGIEDITFFLTSIWD-ESLYEAWSKIVQKLIP  177 (232)
T ss_dssp             HTT-TSEEEEEE-TTS-THHHHHHHHHHHTTST
T ss_pred             hccccceEEEeccCcC-cHHHHHHHHHHHHHcc
Confidence            444   5678887764 6888888888876643

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=96.08  E-value=0.022  Score=43.94  Aligned_cols=49  Identities=22%  Similarity=0.177  Sum_probs=38.1

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +|-++|.||+|+. .     .+.+..+.+..  ..+.+||+++.|+++|.+.|-+.+
T Consensus       240 ~p~l~v~NKiD~~-~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         240 KPALYVVNKIDLP-G-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             eeeEEEEeccccc-C-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence            7999999999997 2     23333333333  689999999999999999888766

>PRK00007 elongation factor G; Reviewed

Probab=96.00  E-value=0.076  Score=45.21  Aligned_cols=28  Identities=14%  Similarity=0.132  Sum_probs=24.3

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +|++..||.++.|+..|++.|++.++..
T Consensus       255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP  282 (693)
T PRK00007        255 VPVLCGSAFKNKGVQPLLDAVVDYLPSP  282 (693)
T ss_pred             EEEEecccccCcCHHHHHHHHHHHCCCh
Confidence            4678889999999999999999988755

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=95.91  E-value=0.025  Score=39.74  Aligned_cols=43  Identities=19%  Similarity=0.001  Sum_probs=24.9

Q ss_pred             eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           22 RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        22 ~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      |++++|.|....-......+.+.+. ....+.|+|+|.||+|+.
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~-l~~~~kp~IlVlNK~DL~   43 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVL-QAGGNKKLVLVLNKIDLV   43 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHH-hccCCCCEEEEEehhhcC
Confidence            4678888876421111223333321 111357999999999997

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

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=95.75  E-value=0.049  Score=46.35  Aligned_cols=105  Identities=12%  Similarity=0.174  Sum_probs=59.8

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC-----CCH-------
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA-----VPT-------   73 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~-----~~~-------   73 (149)
                      |.|..++.. ....+++.|+|.|+.. -....+..+ +.++.   .+.|+|+..||+|..=.+..     +..       
T Consensus       551 EsFtnlRsr-gsslC~~aIlvvdImhGlepqtiESi-~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k  625 (1064)
T KOG1144|consen  551 ESFTNLRSR-GSSLCDLAILVVDIMHGLEPQTIESI-NLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKK  625 (1064)
T ss_pred             hhhhhhhhc-cccccceEEEEeehhccCCcchhHHH-HHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhH
Confidence            445444443 3456677888889874 111222221 22333   46899999999995301100     000       


Q ss_pred             ---H----H----HHHHHHH------------hC--CcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           74 ---S----K----GQALADE------------YG--IKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        74 ---~----~----~~~~~~~------------~~--~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                         .    .    ...|++.            .+  +.++++||.+|+||-+|+-+|+......+.+.
T Consensus       626 ~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~k  693 (1064)
T KOG1144|consen  626 DVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEK  693 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHH
Confidence               0    0    0111110            01  23678999999999999999998877665443

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=95.62  E-value=0.021  Score=46.37  Aligned_cols=74  Identities=19%  Similarity=0.240  Sum_probs=45.7

Q ss_pred             ccchhhhhh--cCeEEEEEeeCChhhHH---HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH---H
Q 032001           11 GVYPPYLAV--LCRFKYCTYKIASYHFS---DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD---E   82 (149)
Q Consensus        11 ~~~~~~~~~--~~~~vi~v~~~~~~s~~---~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~---~   82 (149)
                      .+|...|+-  -.|+|+.++|+-+..|-   ++..++.+..    +....+++.||.||.      +......|+.   .
T Consensus       163 E~WRQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d----~~K~~~LLvNKaDLl------~~~qr~aWa~YF~~  232 (562)
T KOG1424|consen  163 EIWRQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVD----PSKANVLLVNKADLL------PPEQRVAWAEYFRQ  232 (562)
T ss_pred             HHHHHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccc----cccceEEEEehhhcC------CHHHHHHHHHHHHh
Confidence            344444443  23667777788764443   3444444433    346788899999997      2344455554   4


Q ss_pred             hCCcEEEecCCC
Q 032001           83 YGIKFFETSAKT   94 (149)
Q Consensus        83 ~~~~~~~~Sak~   94 (149)
                      +++++++.||..
T Consensus       233 ~ni~~vf~SA~~  244 (562)
T KOG1424|consen  233 NNIPVVFFSALA  244 (562)
T ss_pred             cCceEEEEeccc
Confidence            568899999875

>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=95.62  E-value=0.014  Score=43.13  Aligned_cols=57  Identities=23%  Similarity=0.312  Sum_probs=31.6

Q ss_pred             CCCeEEEEeeCCCCCcCCCC-C------------------CHHHHHHHHHH---hC-C-cEEEecCCCCCCHHHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRA-V------------------PTSKGQALADE---YG-I-KFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~-~------------------~~~~~~~~~~~---~~-~-~~~~~Sak~~~~i~el~~~l~  106 (149)
                      -+.|.|.|.||+|+. .... .                  .......+++.   ++ . +++.+|+++++++++|+..+-
T Consensus       155 ~~lP~vnvlsK~Dl~-~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id  233 (238)
T PF03029_consen  155 LELPHVNVLSKIDLL-SKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAID  233 (238)
T ss_dssp             HTSEEEEEE--GGGS--HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHH
T ss_pred             CCCCEEEeeeccCcc-cchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHH
Confidence            468999999999997 2110 0                  00001112222   23 3 689999999999999888776


Q ss_pred             HH
Q 032001          107 RD  108 (149)
Q Consensus       107 ~~  108 (149)
                      +.
T Consensus       234 ~a  235 (238)
T PF03029_consen  234 KA  235 (238)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>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=95.58  E-value=0.014  Score=43.68  Aligned_cols=82  Identities=16%  Similarity=0.144  Sum_probs=43.8

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-------hCCcEEEe
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-------YGIKFFET   90 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~~   90 (149)
                      ...|.+++|....- .....++.=+-++        .=++|.||.|.+...+  ...+.......       +..|++.+
T Consensus       141 ~~aD~~v~v~~Pg~GD~iQ~~KaGimEi--------aDi~vVNKaD~~gA~~--~~~~l~~~l~l~~~~~~~W~ppV~~t  210 (266)
T PF03308_consen  141 DMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNKADRPGADR--TVRDLRSMLHLLREREDGWRPPVLKT  210 (266)
T ss_dssp             TTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE--SHHHHHH--HHHHHHHHHHHCSTSCTSB--EEEEE
T ss_pred             HhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeCCChHHHHH--HHHHHHHHHhhccccccCCCCCEEEE
Confidence            35566666655543 3333333333333        2377889999752111  11111211111       12479999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~  110 (149)
                      ||.++.|+++|++.|.+...
T Consensus       211 sA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  211 SALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             BTTTTBSHHHHHHHHHHHHH
T ss_pred             EeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999987543

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.

>cd01882 BMS1 Bms1

Probab=95.55  E-value=0.064  Score=39.21  Aligned_cols=76  Identities=11%  Similarity=0.005  Sum_probs=39.8

Q ss_pred             hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCHH---HHHH-HHHH--hCCcEEEec
Q 032001           19 VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPTS---KGQA-LADE--YGIKFFETS   91 (149)
Q Consensus        19 ~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~~---~~~~-~~~~--~~~~~~~~S   91 (149)
                      ...+++++|.|.....-.....++..+..   .+.| +++|.||+|+. ........   .+.. +...  .+.+++.+|
T Consensus       102 k~aDvVllviDa~~~~~~~~~~i~~~l~~---~g~p~vi~VvnK~D~~-~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iS  177 (225)
T cd01882         102 KVADLVLLLIDASFGFEMETFEFLNILQV---HGFPRVMGVLTHLDLF-KKNKTLRKTKKRLKHRFWTEVYQGAKLFYLS  177 (225)
T ss_pred             HhcCEEEEEEecCcCCCHHHHHHHHHHHH---cCCCeEEEEEeccccC-CcHHHHHHHHHHHHHHHHHhhCCCCcEEEEe
Confidence            34566788888764111122334444433   2356 45599999986 22111111   1111 2222  235899999


Q ss_pred             CCCCCCH
Q 032001           92 AKTNLNV   98 (149)
Q Consensus        92 ak~~~~i   98 (149)
                      |++...+
T Consensus       178 a~~~~~~  184 (225)
T cd01882         178 GIVHGRY  184 (225)
T ss_pred             eccCCCC
Confidence            9988543

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.52  E-value=0.13  Score=39.37  Aligned_cols=55  Identities=24%  Similarity=0.226  Sum_probs=35.7

Q ss_pred             EEEeeCCCCCcCCCCCCHHH---HHHHHH----HhC--CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           56 VLVGNKADMDESKRAVPTSK---GQALAD----EYG--IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        56 ilv~nK~Dl~~~~~~~~~~~---~~~~~~----~~~--~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      |+|.||.|.. . ......+   +..+..    ..+  .+++.+||.+|+|+++|++.+.+.....
T Consensus       193 i~vINKaD~~-~-A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         193 IIVINKADRK-G-AEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             eeeEeccChh-h-HHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            7788999975 2 1111111   111221    122  4799999999999999999999866443

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=95.13  E-value=0.036  Score=44.87  Aligned_cols=92  Identities=12%  Similarity=0.025  Sum_probs=52.1

Q ss_pred             cCeEEEEEeeCCh---hhHHHHHHHHHHHHHhc------CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH-HHHh-CCc-E
Q 032001           20 LCRFKYCTYKIAS---YHFSDIRNWIRNIEQHA------SDNVNKVLVGNKADMDESKRAVPTSKGQAL-ADEY-GIK-F   87 (149)
Q Consensus        20 ~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~------~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~-~~~~-~~~-~   87 (149)
                      .+|++++|+|...   ++...+...++....-.      ....+++++.||+|+....++......... +... .++ +
T Consensus       348 ~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~~~~~~~i~  427 (531)
T KOG1191|consen  348 RADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAEGRSVFPIV  427 (531)
T ss_pred             hcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceeccccccCcccceE
Confidence            4577888888843   22222233333322211      134799999999998722222222111111 1111 133 4


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .++|++|++++++|.+.+.+.+..
T Consensus       428 ~~vs~~tkeg~~~L~~all~~~~~  451 (531)
T KOG1191|consen  428 VEVSCTTKEGCERLSTALLNIVER  451 (531)
T ss_pred             EEeeechhhhHHHHHHHHHHHHHH
Confidence            569999999999999998876643

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.06  E-value=0.099  Score=41.56  Aligned_cols=79  Identities=13%  Similarity=0.011  Sum_probs=46.3

Q ss_pred             cCeEEEEEeeCChhhHHHH------HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH----HHHHHHhC-----
Q 032001           20 LCRFKYCTYKIASYHFSDI------RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG----QALADEYG-----   84 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~------~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~----~~~~~~~~-----   84 (149)
                      .+|+.+||.|.....|+.-      .+...-+....+ -..+|++.||+|++ +.++...++.    ..+.+..|     
T Consensus       108 qAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v-~wde~rf~ei~~~v~~l~k~~G~~~~~  185 (428)
T COG5256         108 QADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLV-SWDEERFEEIVSEVSKLLKMVGYNPKD  185 (428)
T ss_pred             hccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEccccc-ccCHHHHHHHHHHHHHHHHHcCCCccC
Confidence            4566777778775333322      122222223332 34788889999998 5554444332    23444444     


Q ss_pred             CcEEEecCCCCCCHHH
Q 032001           85 IKFFETSAKTNLNVEQ  100 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~e  100 (149)
                      ++++++||..|.|+.+
T Consensus       186 v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         186 VPFIPISGFKGDNLTK  201 (428)
T ss_pred             CeEEecccccCCcccc
Confidence            4589999999999754

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=95.04  E-value=0.12  Score=40.46  Aligned_cols=74  Identities=19%  Similarity=0.148  Sum_probs=43.1

Q ss_pred             CeEEEEEeeCChhhHHHHH--HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH----HHHHHHHhCC---cEEEec
Q 032001           21 CRFKYCTYKIASYHFSDIR--NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK----GQALADEYGI---KFFETS   91 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~--~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~----~~~~~~~~~~---~~~~~S   91 (149)
                      +++.|++.|.-..-.++..  .++..+   . .=..+|+..||+||. +-.+...+.    ...++...++   .++++|
T Consensus       110 adlAIlLVDAR~Gvl~QTrRHs~I~sL---L-GIrhvvvAVNKmDLv-dy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiS  184 (431)
T COG2895         110 ADLAILLVDARKGVLEQTRRHSFIASL---L-GIRHVVVAVNKMDLV-DYSEEVFEAIVADYLAFAAQLGLKDVRFIPIS  184 (431)
T ss_pred             ccEEEEEEecchhhHHHhHHHHHHHHH---h-CCcEEEEEEeeeccc-ccCHHHHHHHHHHHHHHHHHcCCCcceEEech
Confidence            4555666577543334432  222222   2 124788889999998 433322222    2345666653   689999


Q ss_pred             CCCCCCHH
Q 032001           92 AKTNLNVE   99 (149)
Q Consensus        92 ak~~~~i~   99 (149)
                      |..|+||-
T Consensus       185 Al~GDNV~  192 (431)
T COG2895         185 ALLGDNVV  192 (431)
T ss_pred             hccCCccc
Confidence            99998873

>PRK09602 translation-associated GTPase; Reviewed

Probab=94.84  E-value=0.086  Score=41.95  Aligned_cols=56  Identities=21%  Similarity=0.170  Sum_probs=38.0

Q ss_pred             CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH-HHHHHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ-VFFSIARDIKQ  111 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e-l~~~l~~~i~~  111 (149)
                      ..+|+++|+||.|+. ...    .....+.+..+..++.+||+.+.++.+ +++.+++.+++
T Consensus       216 t~KPvI~VlNK~D~~-~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~lp~  272 (396)
T PRK09602        216 ISKPMVIAANKADLP-PAE----ENIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYIPG  272 (396)
T ss_pred             cCCCEEEEEEchhcc-cch----HHHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhCCC
Confidence            458999999999975 211    112222222345789999999999988 67777766544

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=94.79  E-value=0.58  Score=37.78  Aligned_cols=65  Identities=11%  Similarity=0.171  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHhcCCCCeEEEEeeCCC-CCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC--CCHHHHHHHHH
Q 032001           35 FSDIRNWIRNIEQHASDNVNKVLVGNKAD-MDESKRAVPTSKGQALADEYGIKFFETSAKTN--LNVEQVFFSIA  106 (149)
Q Consensus        35 ~~~~~~~~~~i~~~~~~~~~iilv~nK~D-l~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~--~~i~el~~~l~  106 (149)
                      .+....|++++++   .++|+++|.||.| .. .   ........+...++.+++.+|+..-  ..|..++..+.
T Consensus       166 ~~aEe~~i~eLk~---~~kPfiivlN~~dp~~-~---et~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL  233 (492)
T TIGR02836       166 VEAEERVIEELKE---LNKPFIILLNSTHPYH-P---ETEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVL  233 (492)
T ss_pred             hHHHHHHHHHHHh---cCCCEEEEEECcCCCC-c---hhHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHH
Confidence            3556789999887   4689999999999 32 1   1233344556677888888776432  23444444433

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.

>smart00053 DYNc Dynamin, GTPase

Probab=94.07  E-value=0.16  Score=37.69  Aligned_cols=54  Identities=9%  Similarity=0.046  Sum_probs=35.6

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ...+...|+.+.+.++++|.+... -+-.....+...+..   ...++++|.||.|..
T Consensus       151 i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK~D~~  205 (240)
T smart00053      151 IKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITKLDLM  205 (240)
T ss_pred             HHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEECCCCC
Confidence            445677888888778888887653 111222233333333   468999999999987

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=94.02  E-value=0.38  Score=38.28  Aligned_cols=60  Identities=20%  Similarity=0.124  Sum_probs=35.0

Q ss_pred             CCCeEEEEeeCCCCCcCCCCC-CHHHH----------------------HHHHHHhC---CcEEEecCCCCCCHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRAV-PTSKG----------------------QALADEYG---IKFFETSAKTNLNVEQVFFS  104 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~~-~~~~~----------------------~~~~~~~~---~~~~~~Sak~~~~i~el~~~  104 (149)
                      -..|++++.+|+|+.++++.. ..++.                      ...+-+.+   .|+|.+|+.||+|.+- ++.
T Consensus       254 ~~lPviVvvTK~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gldl-L~e  332 (527)
T COG5258         254 MELPVIVVVTKIDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDL-LDE  332 (527)
T ss_pred             hcCCEEEEEEecccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHH-HHH
Confidence            368999999999997221100 00011                      11122222   4899999999999764 444


Q ss_pred             HHHHHHH
Q 032001          105 IARDIKQ  111 (149)
Q Consensus       105 l~~~i~~  111 (149)
                      +...++.
T Consensus       333 ~f~~Lp~  339 (527)
T COG5258         333 FFLLLPK  339 (527)
T ss_pred             HHHhCCc
Confidence            4444543

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=93.78  E-value=0.8  Score=37.94  Aligned_cols=102  Identities=17%  Similarity=0.118  Sum_probs=61.2

Q ss_pred             ccccccccccchhhhhhcCeEEEEEeeCC--------------h-------hhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 032001            3 YLRCLCFIGVYPPYLAVLCRFKYCTYKIA--------------S-------YHFSDIRNWIRNIEQHASDNVNKVLVGNK   61 (149)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~vi~v~~~~--------------~-------~s~~~~~~~~~~i~~~~~~~~~iilv~nK   61 (149)
                      -||.|+|..+--...--.-+++++|..+-              .       .-+.++.+-++.++.+   ++|++++.||
T Consensus       305 DlGaEKF~dIkcr~~gl~P~~~VlVaTvraLK~hgg~~~~~l~~en~Eal~sGl~NL~RHIenvr~F---GvPvVVAINK  381 (557)
T PRK13505        305 DLGAEKFLDIKCRKAGLKPDAVVIVATVRALKMHGGVAKDDLKEENVEALKKGFANLERHIENIRKF---GVPVVVAINK  381 (557)
T ss_pred             CCCCceeeeeecccCCCCCCEEEEEeehHHHHHcCCCChhhccccCHHHHHHHHHHHHHHHHHHHHc---CCCEEEEEeC
Confidence            36677776665554433445566664221              1       1234444444444442   5899999999


Q ss_pred             CCCCcCCCCCCHHHHHHHHHHhCCcEEEec--CCCCCCHHHHHHHHHHHHH
Q 032001           62 ADMDESKRAVPTSKGQALADEYGIKFFETS--AKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        62 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S--ak~~~~i~el~~~l~~~i~  110 (149)
                      .|+.   ..........++.+.++++..+.  ++-|+|-.++-..+++.+.
T Consensus       382 Fd~D---Te~Ei~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        382 FVTD---TDAEIAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             CCCC---CHHHHHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            9975   22233456778888898776433  4556677777777776554

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=93.38  E-value=0.15  Score=41.50  Aligned_cols=60  Identities=20%  Similarity=0.212  Sum_probs=43.5

Q ss_pred             CeEEEEeeCCCCCc---CC---CCCCHH----HHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDE---SK---RAVPTS----KGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        53 ~~iilv~nK~Dl~~---~~---~~~~~~----~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +|++||.+|.|...   ..   ......    .++.++-.+|.-.|.+|++...+++-|+.+|...++..
T Consensus       197 ipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  197 IPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF  266 (472)
T ss_pred             cceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence            89999999999641   11   111112    24455667888899999999999999998988877654

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 [].

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=93.16  E-value=0.12  Score=39.76  Aligned_cols=59  Identities=19%  Similarity=0.203  Sum_probs=41.7

Q ss_pred             CeEEEEeeCCCCCcCCCCCCH--HHHHHHHHH---hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPT--SKGQALADE---YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~---~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..++++.||+||. .+.+..+  +....|...   .+.|++.+||....||+.+.+.++..++..
T Consensus       180 khiiilQNKiDli-~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvP  243 (466)
T KOG0466|consen  180 KHIIILQNKIDLI-KESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP  243 (466)
T ss_pred             ceEEEEechhhhh-hHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCC
Confidence            5789999999998 3222111  122233332   356999999999999999999999888654

>COG1161 Predicted GTPases [General function prediction only]

Probab=93.10  E-value=0.16  Score=39.35  Aligned_cols=49  Identities=31%  Similarity=0.260  Sum_probs=30.3

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~  103 (149)
                      .+.++|+||.||. + ..+.......+.+..+...+.++++.+.+...+..
T Consensus        62 k~~i~vlNK~DL~-~-~~~~~~W~~~~~~~~~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          62 KPKLLVLNKADLA-P-KEVTKKWKKYFKKEEGIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             CCcEEEEehhhcC-C-HHHHHHHHHHHHhcCCCccEEEEeecccCccchHH
Confidence            4559999999998 2 21222222333333456678888888887766654

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=92.85  E-value=2  Score=30.38  Aligned_cols=91  Identities=5%  Similarity=0.095  Sum_probs=51.2

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCC--CCeEEEEeeCCCCCcCCCCCC------HHHHHHHHHHhCCcEEEec
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASD--NVNKVLVGNKADMDESKRAVP------TSKGQALADEYGIKFFETS   91 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~--~~~iilv~nK~Dl~~~~~~~~------~~~~~~~~~~~~~~~~~~S   91 (149)
                      ..+++++|.+.+..+ ......++.+.+..+.  -.++++|.|+.|.. ......      ...+..+.+..+-.++..+
T Consensus        83 g~~~illVi~~~~~t-~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l-~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~  160 (196)
T cd01852          83 GPHAFLLVVPLGRFT-EEEEQAVETLQELFGEKVLDHTIVLFTRGDDL-EGGTLEDYLENSCEALKRLLEKCGGRYVAFN  160 (196)
T ss_pred             CCEEEEEEEECCCcC-HHHHHHHHHHHHHhChHhHhcEEEEEECcccc-CCCcHHHHHHhccHHHHHHHHHhCCeEEEEe
Confidence            456788888887511 1122334444443322  24778888998865 222111      1234445555565554444


Q ss_pred             -----CCCCCCHHHHHHHHHHHHHHH
Q 032001           92 -----AKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        92 -----ak~~~~i~el~~~l~~~i~~~  112 (149)
                           +..+.++.+|+..|.+++.+.
T Consensus       161 ~~~~~~~~~~q~~~Ll~~i~~~~~~~  186 (196)
T cd01852         161 NKAKGEEQEQQVKELLAKVESMVKEN  186 (196)
T ss_pred             CCCCcchhHHHHHHHHHHHHHHHHhc
Confidence                 445678888888888887653

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=92.76  E-value=0.29  Score=36.98  Aligned_cols=40  Identities=23%  Similarity=0.135  Sum_probs=26.4

Q ss_pred             CCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHHhCCcEEEecC
Q 032001           52 NVNKVLVGNKADMDESKRA--VPTSKGQALADEYGIKFFETSA   92 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa   92 (149)
                      .+|+++|+||+|+. ....  .........+..+++++|....
T Consensus       143 ~v~vi~VinK~D~l-~~~e~~~~k~~i~~~l~~~~i~~~~~~~  184 (276)
T cd01850         143 RVNIIPVIAKADTL-TPEELKEFKQRIMEDIEEHNIKIYKFPE  184 (276)
T ss_pred             cCCEEEEEECCCcC-CHHHHHHHHHHHHHHHHHcCCceECCCC
Confidence            58999999999985 2111  1223344566777888886554

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=92.51  E-value=0.1  Score=40.42  Aligned_cols=80  Identities=14%  Similarity=0.069  Sum_probs=48.3

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCe----EEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVN----KVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~----iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      -++++++|.|++. ..-.+....+.-+.+..-++.|    ++=|-||+|.. +. .++       .++++  .+.+||++
T Consensus       257 eadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e-~~-~~e-------~E~n~--~v~isalt  325 (410)
T KOG0410|consen  257 EADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYE-ED-EVE-------EEKNL--DVGISALT  325 (410)
T ss_pred             hcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccc-cc-cCc-------cccCC--cccccccc
Confidence            3577899999996 3333344444444443323333    45566777765 11 110       11222  68899999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIK  110 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~  110 (149)
                      |+|.+++.+.+-+.+.
T Consensus       326 gdgl~el~~a~~~kv~  341 (410)
T KOG0410|consen  326 GDGLEELLKAEETKVA  341 (410)
T ss_pred             CccHHHHHHHHHHHhh
Confidence            9999999888876654

>PRK07560 elongation factor EF-2; Reviewed

Probab=92.35  E-value=0.77  Score=39.46  Aligned_cols=52  Identities=15%  Similarity=0.007  Sum_probs=28.9

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      |.......++.++. +++|.|... ........|.. +..   .++|.|++.||+|+.
T Consensus       100 f~~~~~~~l~~~D~-avlVvda~~g~~~~t~~~~~~-~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        100 FGGDVTRAMRAVDG-AIVVVDAVEGVMPQTETVLRQ-ALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             hHHHHHHHHHhcCE-EEEEEECCCCCCccHHHHHHH-HHH---cCCCeEEEEECchhh
Confidence            33334444555655 555667664 33333334433 333   245778999999975

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=92.20  E-value=0.21  Score=41.28  Aligned_cols=77  Identities=13%  Similarity=0.050  Sum_probs=45.2

Q ss_pred             CeEEEEEeeCChhhHHH----H--HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH----HHHH-HHhC-----
Q 032001           21 CRFKYCTYKIASYHFSD----I--RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG----QALA-DEYG-----   84 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~----~--~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~----~~~~-~~~~-----   84 (149)
                      +|+.++|.|.+...|+.    .  .+....+.+..+ -..+|++.||+|+. ++.+...++.    ..++ +..|     
T Consensus       279 aD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~V-~Wsq~RF~eIk~~l~~fL~~~~gf~es~  356 (603)
T KOG0458|consen  279 ADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDLV-SWSQDRFEEIKNKLSSFLKESCGFKESS  356 (603)
T ss_pred             cceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeeccccc-CccHHHHHHHHHHHHHHHHHhcCcccCC
Confidence            45566666776433432    1  122233333332 34788899999998 5555444433    2334 3333     


Q ss_pred             CcEEEecCCCCCCHH
Q 032001           85 IKFFETSAKTNLNVE   99 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~   99 (149)
                      +.++++|+.+|+|+-
T Consensus       357 v~FIPiSGl~GeNL~  371 (603)
T KOG0458|consen  357 VKFIPISGLSGENLI  371 (603)
T ss_pred             cceEecccccCCccc
Confidence            368999999999864

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=91.92  E-value=2  Score=29.73  Aligned_cols=62  Identities=13%  Similarity=0.132  Sum_probs=41.1

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      ..+.++++...+..+......+++.+...   +.++.+|.||.|.. .  . ......++.+..+++++
T Consensus       114 ~aD~vliv~~~~~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~-~--~-~~~~~~~~~~~~~~~vl  175 (179)
T cd03110         114 GADAALLVTEPTPSGLHDLERAVELVRHF---GIPVGVVINKYDLN-D--E-IAEEIEDYCEEEGIPIL  175 (179)
T ss_pred             cCCEEEEEecCCcccHHHHHHHHHHHHHc---CCCEEEEEeCCCCC-c--c-hHHHHHHHHHHcCCCeE
Confidence            45557777777766677777777776653   46788999999864 2  1 23445566677777655

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

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.83  E-value=0.54  Score=35.35  Aligned_cols=86  Identities=16%  Similarity=0.289  Sum_probs=55.4

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCc---------------CCC--------------
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNV-NKVLVGNKADMDE---------------SKR--------------   69 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~---------------~~~--------------   69 (149)
                      -.++++|||.+. ..+..++.|+..-.-   +.. .++.++||+|...               ..+              
T Consensus        79 l~a~vmvfdlse~s~l~alqdwl~htdi---nsfdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgis  155 (418)
T KOG4273|consen   79 LQAFVMVFDLSEKSGLDALQDWLPHTDI---NSFDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGIS  155 (418)
T ss_pred             eeeEEEEEeccchhhhHHHHhhcccccc---ccchhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcccc
Confidence            356788899998 788889999774211   122 3467799999530               000              


Q ss_pred             --------------CCCHHHHHHHHHHhCCcEEEecCCCC------------CCHHHHHHHHHHHH
Q 032001           70 --------------AVPTSKGQALADEYGIKFFETSAKTN------------LNVEQVFFSIARDI  109 (149)
Q Consensus        70 --------------~~~~~~~~~~~~~~~~~~~~~Sak~~------------~~i~el~~~l~~~i  109 (149)
                                    ......+..|+.++++.+++.+|...            .||+.+|..|-..+
T Consensus       156 etegssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm  221 (418)
T KOG4273|consen  156 ETEGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM  221 (418)
T ss_pred             ccccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence                          00112345678889999999887322            57888888887654

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=91.74  E-value=0.43  Score=37.37  Aligned_cols=107  Identities=17%  Similarity=0.137  Sum_probs=58.7

Q ss_pred             ccccc-cccchhhhhhcCeEEEEEeeCCh---hhHHH-----H---HHHHHHHHHhcC-CCCeEEEEeeCCCCCc-----
Q 032001            5 RCLCF-IGVYPPYLAVLCRFKYCTYKIAS---YHFSD-----I---RNWIRNIEQHAS-DNVNKVLVGNKADMDE-----   66 (149)
Q Consensus         5 ~~~~~-~~~~~~~~~~~~~~vi~v~~~~~---~s~~~-----~---~~~~~~i~~~~~-~~~~iilv~nK~Dl~~-----   66 (149)
                      ||+|- |..|.++|.+...++++| +++.   ..+++     .   .++.+.+.++.- .+.++|+..||.||-+     
T Consensus       203 GGQRseRrKWihcFe~v~aviF~v-slSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~  281 (354)
T KOG0082|consen  203 GGQRSERKKWIHCFEDVTAVIFCV-SLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKK  281 (354)
T ss_pred             CCcHHHhhhHHHhhcCCCEEEEEE-ehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhcc
Confidence            34443 467899999988754444 5542   11111     1   122233322211 5789999999999721     


Q ss_pred             --------CCC-CCCHHHHHH-----HHHHhC-----CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           67 --------SKR-AVPTSKGQA-----LADEYG-----IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        67 --------~~~-~~~~~~~~~-----~~~~~~-----~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                              +-. ....+.+..     +.+.+.     +-+..+.|.+-.+|+.+|+.+.+.+...
T Consensus       282 ~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  282 VPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             CchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHH
Confidence                    000 011222222     222211     2233567888889999999999988765

>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=91.46  E-value=0.35  Score=38.23  Aligned_cols=59  Identities=12%  Similarity=0.042  Sum_probs=35.7

Q ss_pred             cccc-ccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCC
Q 032001            5 RCLC-FIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADM   64 (149)
Q Consensus         5 ~~~~-~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl   64 (149)
                      ||.| -|..|.++|.+... ||+|+++.+           ..+.......+.+..+. -.+.|+||+.||.|+
T Consensus       244 GGqr~eRkKW~~~F~~v~~-vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  244 GGQRSERKKWIHCFEDVTA-VIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             TSSGGGGGGGGGGGTTESE-EEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             CCCchhhhhHHHHhccccE-EEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            4444 35889999998877 555556531           12333334444444321 157899999999996

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 ....

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=90.61  E-value=0.46  Score=40.73  Aligned_cols=53  Identities=17%  Similarity=-0.012  Sum_probs=31.8

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +|.......++.++. +++|+|... ........|.. +..   .++|+++++||+|..
T Consensus        98 ~f~~~~~~al~~aD~-~llVvda~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~  151 (720)
T TIGR00490        98 DFGGDVTRAMRAVDG-AIVVVCAVEGVMPQTETVLRQ-ALK---ENVKPVLFINKVDRL  151 (720)
T ss_pred             ccHHHHHHHHHhcCE-EEEEEecCCCCCccHHHHHHH-HHH---cCCCEEEEEEChhcc
Confidence            355556667777766 566667764 22333333432 222   356888999999975

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.

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=90.52  E-value=1.3  Score=35.51  Aligned_cols=84  Identities=13%  Similarity=0.096  Sum_probs=44.3

Q ss_pred             ccchhhhhh--cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           11 GVYPPYLAV--LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        11 ~~~~~~~~~--~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      ++|--.|.-  ..|+++.|.|.-+...-...+.-.-++... +...+|.|.||+||. . .-+.......+.+.+..--|
T Consensus       202 RIW~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~-phKHli~vLNKvDLV-P-twvt~~Wv~~lSkeyPTiAf  278 (572)
T KOG2423|consen  202 RIWGELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEK-PHKHLIYVLNKVDLV-P-TWVTAKWVRHLSKEYPTIAF  278 (572)
T ss_pred             HHHHHHHHhhcccceeEEeeeccCCcccccHHHHHHHhhcC-CcceeEEEeeccccc-c-HHHHHHHHHHHhhhCcceee
Confidence            455555554  447778887776532333333323233322 567999999999998 1 22222333344444444334


Q ss_pred             EecCCCCCC
Q 032001           89 ETSAKTNLN   97 (149)
Q Consensus        89 ~~Sak~~~~   97 (149)
                      -.|.....|
T Consensus       279 HAsi~nsfG  287 (572)
T KOG2423|consen  279 HASINNSFG  287 (572)
T ss_pred             ehhhcCccc
Confidence            444333333

>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=90.43  E-value=1.1  Score=28.61  Aligned_cols=38  Identities=18%  Similarity=0.169  Sum_probs=22.8

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNK   61 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK   61 (149)
                      ..+++++|++.+...-+....++..++    .+.|+++|.||
T Consensus        79 ~~d~ii~vv~~~~~~~~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPITEDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSHHHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCCHHHHHHHHHHh----cCCCEEEEEcC
Confidence            345677777876411123334444442    46899999998

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 ....

>KOG2484 consensus GTPase [General function prediction only]

Probab=88.91  E-value=0.97  Score=35.99  Aligned_cols=42  Identities=14%  Similarity=0.106  Sum_probs=26.9

Q ss_pred             cCeEEEEEeeCCh-hh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           20 LCRFKYCTYKIAS-YH--FSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s--~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ..|+||-|-|.-+ .+  -...+.|+...   . .+...|+|.||+||.
T Consensus       146 ~sDVVleVlDARDPlgtR~~~vE~~V~~~---~-gnKkLILVLNK~DLV  190 (435)
T KOG2484|consen  146 ASDVVLEVLDARDPLGTRCPEVEEAVLQA---H-GNKKLILVLNKIDLV  190 (435)
T ss_pred             hhheEEEeeeccCCCCCCChhHHHHHHhc---c-CCceEEEEeehhccC
Confidence            5677888888764 21  12334443321   1 358999999999998

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=87.73  E-value=0.41  Score=36.43  Aligned_cols=92  Identities=16%  Similarity=0.109  Sum_probs=51.8

Q ss_pred             cccchhhhhhcCe--EEEEEeeCC-h--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCC-CCC---HHH---HH
Q 032001           10 IGVYPPYLAVLCR--FKYCTYKIA-S--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKR-AVP---TSK---GQ   77 (149)
Q Consensus        10 ~~~~~~~~~~~~~--~vi~v~~~~-~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~-~~~---~~~---~~   77 (149)
                      ..+...|+.+-..  -++++.|.+ +  .+-..+..|+.+      .++|..+|.||+|...... ...   ...   ..
T Consensus       207 ~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge------~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~  280 (320)
T KOG2486|consen  207 DKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE------NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQ  280 (320)
T ss_pred             hHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh------cCCCeEEeeehhhhhhhccccccCccccceeehh
Confidence            3455666655332  233333444 2  334445677665      4799999999999641100 000   011   11


Q ss_pred             HHHH---HhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           78 ALAD---EYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        78 ~~~~---~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      .+.+   ....|++.+|+.++.|+++|+-.++.
T Consensus       281 ~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  281 GLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             hccccceeccCCceeeecccccCceeeeeehhh
Confidence            1111   12346778999999999998877664

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=87.65  E-value=1.4  Score=33.98  Aligned_cols=85  Identities=18%  Similarity=0.131  Sum_probs=44.7

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCCCCC---HHHHHHHHHHhCC-----cEEE
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNV-NKVLVGNKADMDESKRAVP---TSKGQALADEYGI-----KFFE   89 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~~~~---~~~~~~~~~~~~~-----~~~~   89 (149)
                      -+++ |+|.+.++ .....-.+.+. .++.   .+ .++++.||+|+. +++...   +.+...++..+++     |++.
T Consensus        99 mDgA-ILVVsA~dGpmPqTrEHiLl-arqv---Gvp~ivvflnK~Dmv-dd~ellelVemEvreLLs~y~f~gd~~Pii~  172 (394)
T COG0050          99 MDGA-ILVVAATDGPMPQTREHILL-ARQV---GVPYIVVFLNKVDMV-DDEELLELVEMEVRELLSEYGFPGDDTPIIR  172 (394)
T ss_pred             cCcc-EEEEEcCCCCCCcchhhhhh-hhhc---CCcEEEEEEeccccc-CcHHHHHHHHHHHHHHHHHcCCCCCCcceee
Confidence            3454 55556654 33333333322 2332   34 556779999998 433221   2345567777664     5777


Q ss_pred             ecCCCC--------CCHHHHHHHHHHHHH
Q 032001           90 TSAKTN--------LNVEQVFFSIARDIK  110 (149)
Q Consensus        90 ~Sak~~--------~~i~el~~~l~~~i~  110 (149)
                      -||..-        ..|.+|++.+-+.++
T Consensus       173 gSal~ale~~~~~~~~i~eLm~avd~yip  201 (394)
T COG0050         173 GSALKALEGDAKWEAKIEELMDAVDSYIP  201 (394)
T ss_pred             chhhhhhcCCcchHHHHHHHHHHHHhcCC
Confidence            666422        124566666655553

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=86.83  E-value=2.8  Score=33.49  Aligned_cols=78  Identities=12%  Similarity=0.118  Sum_probs=42.9

Q ss_pred             eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC------------------------HHHH
Q 032001           22 RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP------------------------TSKG   76 (149)
Q Consensus        22 ~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~------------------------~~~~   76 (149)
                      +..++|.+.+. -.+..-.+ +..+..   -++|++++.+|+|+. +...+.                        ...+
T Consensus       276 h~A~LvVsA~~Gi~~tTrEH-Lgl~~A---L~iPfFvlvtK~Dl~-~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddA  350 (591)
T KOG1143|consen  276 HFACLVVSADRGITWTTREH-LGLIAA---LNIPFFVLVTKMDLV-DRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDA  350 (591)
T ss_pred             ceEEEEEEcCCCCccccHHH-HHHHHH---hCCCeEEEEEeeccc-cchhHHHHHHHHHHHHhhcCccccceEeechHHH
Confidence            34566667664 32222222 222333   369999999999996 321111                        1111


Q ss_pred             HHHHHH----hCCcEEEecCCCCCCHHHHHHH
Q 032001           77 QALADE----YGIKFFETSAKTNLNVEQVFFS  104 (149)
Q Consensus        77 ~~~~~~----~~~~~~~~Sak~~~~i~el~~~  104 (149)
                      ...++.    +-.|+|-+|+.+|+++.-+...
T Consensus       351 v~Aaq~~~s~nivPif~vSsVsGegl~ll~~f  382 (591)
T KOG1143|consen  351 VKAAQELCSGNIVPIFAVSSVSGEGLRLLRTF  382 (591)
T ss_pred             HHHHHHhccCCceeEEEEeecCccchhHHHHH
Confidence            111222    2258999999999997754433

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

Probab=86.48  E-value=5.3  Score=30.34  Aligned_cols=58  Identities=14%  Similarity=0.268  Sum_probs=40.4

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      .|++|+|.-.++..+.+.+..++.....   ++|..+|.||.++-  .     .+...++...+++++
T Consensus       186 aD~ai~VTEPTp~glhD~kr~~el~~~f---~ip~~iViNr~~~g--~-----s~ie~~~~e~gi~il  243 (284)
T COG1149         186 ADLAILVTEPTPFGLHDLKRALELVEHF---GIPTGIVINRYNLG--D-----SEIEEYCEEEGIPIL  243 (284)
T ss_pred             CCEEEEEecCCccchhHHHHHHHHHHHh---CCceEEEEecCCCC--c-----hHHHHHHHHcCCCee
Confidence            4556777666666677777777766553   58999999999653  1     256667788887765

>PTZ00416 elongation factor 2; Provisional

Probab=86.24  E-value=1.1  Score=39.08  Aligned_cols=43  Identities=19%  Similarity=0.139  Sum_probs=25.8

Q ss_pred             hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.+++ +++|.|... -.... ...+..+..   .++|+|++.||+|+.
T Consensus       114 ~~~D~-ailVvda~~g~~~~t-~~~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416        114 RVTDG-ALVVVDCVEGVCVQT-ETVLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             hcCCe-EEEEEECCCCcCccH-HHHHHHHHH---cCCCEEEEEEChhhh
Confidence            33445 566667665 22233 333344443   358999999999975

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=85.78  E-value=1  Score=38.36  Aligned_cols=44  Identities=20%  Similarity=0.116  Sum_probs=28.5

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADM   64 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl   64 (149)
                      .++-.++ +++|+|+-. -+++...-+..-++    ++.|+++|.||+|.
T Consensus       217 ~l~~sDg-vVlvvDv~EGVmlntEr~ikhaiq----~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  217 SLRLSDG-VVLVVDVAEGVMLNTERIIKHAIQ----NRLPIVVVINKVDR  261 (971)
T ss_pred             Hhhhcce-EEEEEEcccCceeeHHHHHHHHHh----ccCcEEEEEehhHH
Confidence            3444555 566667765 55655544433333    46899999999995

>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=85.61  E-value=2.5  Score=28.73  Aligned_cols=50  Identities=16%  Similarity=0.139  Sum_probs=30.6

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKA   62 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~   62 (149)
                      ...++..|+ .-++++++|.+.+. -+-.....|.......   ....++|.||+
T Consensus       118 ~~~~~~~~~-~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  118 HTEITEEYL-PKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             TSHHHHHHH-STTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             hHHHHHHhh-ccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            346677787 55567888888875 3334455555554432   34588888984

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 ....

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=83.74  E-value=3  Score=29.05  Aligned_cols=29  Identities=24%  Similarity=0.227  Sum_probs=17.1

Q ss_pred             HHHHHhCCcEEEecCCCCCCHHHHHHHHH
Q 032001           78 ALADEYGIKFFETSAKTNLNVEQVFFSIA  106 (149)
Q Consensus        78 ~~~~~~~~~~~~~Sak~~~~i~el~~~l~  106 (149)
                      ...+..+.+++.+|++++.++++|...+.
T Consensus         6 ~~y~~~gy~v~~~S~~~~~g~~~l~~~l~   34 (161)
T PF03193_consen    6 EQYEKLGYPVFFISAKTGEGIEELKELLK   34 (161)
T ss_dssp             HHHHHTTSEEEE-BTTTTTTHHHHHHHHT
T ss_pred             HHHHHcCCcEEEEeCCCCcCHHHHHHHhc
Confidence            34455566666677776667666655544

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

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

Probab=83.69  E-value=10  Score=28.33  Aligned_cols=43  Identities=12%  Similarity=-0.065  Sum_probs=29.7

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM   64 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl   64 (149)
                      ..|++++|.|.+..++....+..+...+..  =.++.+|.||+|-
T Consensus       155 ~vD~vivVvDpS~~sl~taeri~~L~~elg--~k~i~~V~NKv~e  197 (255)
T COG3640         155 GVDLVIVVVDPSYKSLRTAERIKELAEELG--IKRIFVVLNKVDE  197 (255)
T ss_pred             CCCEEEEEeCCcHHHHHHHHHHHHHHHHhC--CceEEEEEeeccc
Confidence            446677777777677777777655544421  2689999999983

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=83.44  E-value=2.3  Score=37.31  Aligned_cols=43  Identities=12%  Similarity=-0.021  Sum_probs=26.1

Q ss_pred             hhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           18 AVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.+++ +++|.|... ........|.. +..   .++|+|++.||+|..
T Consensus       120 ~~~D~-ailVvda~~Gv~~~t~~~~~~-~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116        120 RITDG-ALVVVDCIEGVCVQTETVLRQ-ALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             hhcCE-EEEEEECCCCCcccHHHHHHH-HHH---CCCCEEEEEECCccc
Confidence            33445 566667664 33333334433 333   468999999999975

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=82.81  E-value=5.6  Score=34.21  Aligned_cols=47  Identities=19%  Similarity=0.084  Sum_probs=29.7

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ...++-.+++++++ |... -......-|.... .   .++|.+++.||+|..
T Consensus        94 ~rslrvlDgavvVv-daveGV~~QTEtv~rqa~-~---~~vp~i~fiNKmDR~  141 (697)
T COG0480          94 ERSLRVLDGAVVVV-DAVEGVEPQTETVWRQAD-K---YGVPRILFVNKMDRL  141 (697)
T ss_pred             HHHHHhhcceEEEE-ECCCCeeecHHHHHHHHh-h---cCCCeEEEEECcccc
Confidence            34455567755555 5554 4345555565543 3   468999999999976

>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases

Probab=81.33  E-value=16  Score=25.63  Aligned_cols=82  Identities=13%  Similarity=0.199  Sum_probs=55.3

Q ss_pred             CeEEEEEeeCCh--------hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001           21 CRFKYCTYKIAS--------YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA   92 (149)
Q Consensus        21 ~~~vi~v~~~~~--------~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   92 (149)
                      .++=.+++|.|+        +-...+..|++++++..+. ..+++|-|-.=..   ......++..+.+..+++++.-++
T Consensus        39 ~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~-~~v~IvSNsaGs~---~d~~~~~a~~~~~~lgIpvl~h~~  114 (168)
T PF09419_consen   39 KGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGK-DRVLIVSNSAGSS---DDPDGERAEALEKALGIPVLRHRA  114 (168)
T ss_pred             cCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCC-CeEEEEECCCCcc---cCccHHHHHHHHHhhCCcEEEeCC
Confidence            455677778874        1225678899999876532 2578887765221   122356777888889999999998


Q ss_pred             CCCCCHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIA  106 (149)
Q Consensus        93 k~~~~i~el~~~l~  106 (149)
                      +...+..+++..+.
T Consensus       115 kKP~~~~~i~~~~~  128 (168)
T PF09419_consen  115 KKPGCFREILKYFK  128 (168)
T ss_pred             CCCccHHHHHHHHh
Confidence            88877776665553

All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=80.53  E-value=6.1  Score=29.68  Aligned_cols=21  Identities=14%  Similarity=0.131  Sum_probs=16.9

Q ss_pred             HHHhcCCCCeEEEEeeCCCCC
Q 032001           45 IEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        45 i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.+..+..+|+.+|.||+|+.
T Consensus        62 l~~~lg~~~PVYvv~Tk~D~l   82 (266)
T PF14331_consen   62 LQRTLGVRLPVYVVFTKCDLL   82 (266)
T ss_pred             HHHHhCCCCCeEeeeECCCcc
Confidence            333456789999999999987

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=80.05  E-value=5  Score=29.98  Aligned_cols=52  Identities=10%  Similarity=0.074  Sum_probs=34.4

Q ss_pred             cchhhhhhcCeEEEEEeeCCh-h---hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           12 VYPPYLAVLCRFKYCTYKIAS-Y---HFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        12 ~~~~~~~~~~~~vi~v~~~~~-~---s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      -....|++... ++.|||++. +   .|...++-++.+.++. +...+.+..+|.||.
T Consensus        74 q~d~iF~nV~v-li~vFDves~e~~~D~~~yqk~Le~ll~~S-P~AkiF~l~hKmDLv  129 (295)
T KOG3886|consen   74 QEDNIFRNVQV-LIYVFDVESREMEKDFHYYQKCLEALLQNS-PEAKIFCLLHKMDLV  129 (295)
T ss_pred             cchhhheehee-eeeeeeccchhhhhhHHHHHHHHHHHHhcC-CcceEEEEEeechhc
Confidence            34455556654 789999984 3   3334444445555555 567888899999997

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	149
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-22
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		4e-22
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-18
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-16
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-16
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		6e-16
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		8e-16
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-15
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-15
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		1e-15
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-15
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		5e-15
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		6e-15
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		7e-15
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		9e-15
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-14
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		5e-14
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		6e-14
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		7e-14
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-13
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-13
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		3e-13
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		3e-13
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		4e-13
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		4e-13
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		4e-13
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		4e-12
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		4e-12
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		4e-12
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		4e-12
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		4e-12
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		4e-12
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-12
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		5e-12
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		8e-12
4q21_A	189	Molecular Switch For Signal Transduction: Structura		8e-12
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-11
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		4e-11
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		5e-11
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		5e-11
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		5e-11
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		6e-11
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		6e-11
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		7e-11
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		8e-11
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		8e-11
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		8e-11
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		9e-11
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		9e-11
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		1e-10
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		1e-10
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-10
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-10
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		1e-10
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		1e-10
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-10
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-10
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		1e-10
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		1e-10
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-10
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-10
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-10
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-10
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-10
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-10
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-10
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		1e-10
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-10
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		1e-10
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		1e-10
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-10
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-10
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		1e-10
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		1e-10
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-10
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-10
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-10
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-10
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-10
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-10
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-10
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-10
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		1e-10
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-10
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-10
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		2e-10
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		2e-10
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-10
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-10
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-10
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-10
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-10
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-10
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-10
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-10
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		4e-10
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		4e-10
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		6e-10
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		6e-10
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		7e-10
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		9e-10
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-09
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-09
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-09
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		3e-09
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		3e-09
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		3e-09
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		4e-09
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		4e-09
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		6e-09
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		6e-09
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		7e-09
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		8e-09
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		8e-09
2efc_B	181	Ara7-GdpATVPS9A Length = 181		8e-09
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-08
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-08
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		3e-08
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-08
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		4e-08
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		4e-08
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		6e-08
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-08
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		8e-08
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		8e-08
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		8e-08
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		9e-08
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-07
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-07
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-07
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-07
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		4e-07
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		4e-07
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		4e-07
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		4e-07
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		4e-07
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		5e-07
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		5e-07
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		5e-07
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		7e-07
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		7e-07
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		9e-07
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		9e-07
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		1e-06
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-06
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		1e-06
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		1e-06
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-06
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		2e-06
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		2e-06
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-06
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		3e-06
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		5e-06
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		5e-06
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		8e-06
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-05
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		1e-05
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		3e-05
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		5e-05
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		7e-05
1vg1_A	185	Gdp-bound Rab7 Length = 185		7e-05
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-05
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		9e-05
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		1e-04
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		3e-04
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		3e-04
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		3e-04
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		3e-04
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		8e-04
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		8e-04
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		8e-04
3icq_B	171	Karyopherin Nuclear State Length = 171		8e-04
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		9e-04

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  100 bits (249), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 46/79 (58%), Positives = 63/79 (79%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IRNWIRNIE+HAS +V K+++GNK D+++ KR V   +G+ LA +YGIKF ETSAK 
Sbjct: 96  FDNIRNWIRNIEEHASADVEKMILGNKCDVND-KRQVSKERGEKLALDYGIKFMETSAKA 154
Query: 95  NLNVEQVFFSIARDIKQRL 113
           N+NVE  FF++ARDIK ++
Sbjct: 155 NINVENAFFTLARDIKAKM 173

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  100 bits (248), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 46/79 (58%), Positives = 63/79 (79%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IRNWIRNIE+HAS +V K+++GNK D+++ KR V   +G+ LA +YGIKF ETSAK 
Sbjct: 94  FDNIRNWIRNIEEHASADVEKMILGNKCDVND-KRQVSKERGEKLALDYGIKFMETSAKA 152
Query: 95  NLNVEQVFFSIARDIKQRL 113
           N+NVE  FF++ARDIK ++
Sbjct: 153 NINVENAFFTLARDIKAKM 171

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 86.7 bits (213), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 41/79 (51%), Positives = 60/79 (75%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ WI+ I+++A +NVNK+LVGNK D+  SKR V + +G+ LAD +GIKF ETSAK 
Sbjct: 97  FDNVKQWIQEIDRYAMENVNKLLVGNKCDL-VSKRVVTSDEGRELADSHGIKFIETSAKN 155
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVEQ F ++A +IK+R+
Sbjct: 156 AYNVEQAFHTMAGEIKKRV 174

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score = 80.5 bits (197), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 35/80 (43%), Positives = 58/80 (72%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           +++++ W++ I+++AS+NVNK+LVGNK+D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 97  YANVKQWLQEIDRYASENVNKLLVGNKSDL-TTKKVVDNTTAKEFADSLGIPFLETSAKN 155
Query: 95  NLNVEQVFFSIARDIKQRLA 114
             NVEQ F ++A +IK+R+ 
Sbjct: 156 ATNVEQAFMTMAAEIKKRMG 175

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score = 80.5 bits (197), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 35/80 (43%), Positives = 58/80 (72%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           +++++ W++ I+++AS+NVNK+LVGNK+D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 97  YANVKQWLQEIDRYASENVNKLLVGNKSDL-TTKKVVDNTTAKEFADSLGIPFLETSAKN 155
Query: 95  NLNVEQVFFSIARDIKQRLA 114
             NVEQ F ++A +IK+R+ 
Sbjct: 156 ATNVEQAFMTMAAEIKKRMG 175

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 40/94 (42%), Positives = 63/94 (67%), Gaps = 3/94 (3%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 104 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 162
Query: 95  NLNVEQVFFSIARDIKQRLAD--TDSRSEPSTIK 126
             NVEQ F ++A +IK+R+    T   +E S +K
Sbjct: 163 ATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVK 196

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 36/80 (45%), Positives = 57/80 (71%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 113 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 171
Query: 95  NLNVEQVFFSIARDIKQRLA 114
             NVEQ F ++A +IK+R+ 
Sbjct: 172 ATNVEQSFMTMAAEIKKRMG 191

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 57/79 (72%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 104 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 162
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVEQ F ++A +IK+R+
Sbjct: 163 ATNVEQSFMTMAAEIKKRM 181

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 57/79 (72%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 94  FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 152
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVEQ F ++A +IK+R+
Sbjct: 153 ATNVEQSFMTMAAEIKKRM 171

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 57/79 (72%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 94  FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 152
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVEQ F ++A +IK+R+
Sbjct: 153 ATNVEQSFMTMAAEIKKRM 171

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 57/79 (72%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 87  FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 145
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVEQ F ++A +IK+R+
Sbjct: 146 ATNVEQSFMTMAAEIKKRM 164

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 56/79 (70%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK 
Sbjct: 108 FTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKN 165
Query: 95  NLNVEQVFFSIARDIKQRL 113
           + NV ++FF++A+ I++++
Sbjct: 166 DDNVNEIFFTLAKLIQEKI 184

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 76.3 bits (186), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 56/79 (70%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK 
Sbjct: 95  FTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKN 152
Query: 95  NLNVEQVFFSIARDIKQRL 113
           + NV ++FF++A+ I++++
Sbjct: 153 DDNVNEIFFTLAKLIQEKI 171

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 76.3 bits (186), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 56/79 (70%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK 
Sbjct: 91  FTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKN 148
Query: 95  NLNVEQVFFSIARDIKQRL 113
           + NV ++FF++A+ I++++
Sbjct: 149 DDNVNEIFFTLAKLIQEKI 167

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 75.9 bits (185), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 36/78 (46%), Positives = 55/78 (70%), Gaps = 1/78 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 121 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 179
Query: 95  NLNVEQVFFSIARDIKQR 112
             NVEQ F + A +IK+R
Sbjct: 180 ATNVEQSFXTXAAEIKKR 197

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 35/80 (43%), Positives = 56/80 (70%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVG K D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 96  FNNVKQWLQEIDRYASENVNKLLVGIKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 154
Query: 95  NLNVEQVFFSIARDIKQRLA 114
             NVEQ F ++A +IK+R+ 
Sbjct: 155 ATNVEQSFMTMAAEIKKRMG 174

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 73.2 bits (178), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 32/79 (40%), Positives = 55/79 (69%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+D +   R V   +G+ALA E GI F E+SAK 
Sbjct: 91  FTNIKQWFKTVNEHANDEAQLLLVGNKSDXE--TRVVTADQGEALAKELGIPFIESSAKN 148
Query: 95  NLNVEQVFFSIARDIKQRL 113
           + NV ++FF++A+ I++++
Sbjct: 149 DDNVNEIFFTLAKLIQEKI 167

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 32/79 (40%), Positives = 55/79 (69%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+D +   R V   +G+ALA E GI F E+SAK 
Sbjct: 91  FTNIKQWFKTVNEHANDEAQLLLVGNKSDXE--TRVVTADQGEALAKELGIPFIESSAKN 148
Query: 95  NLNVEQVFFSIARDIKQRL 113
           + NV ++FF++A+ I++++
Sbjct: 149 DDNVNEIFFTLAKLIQEKI 167

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 72.8 bits (177), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 35/82 (42%), Positives = 54/82 (65%), Gaps = 1/82 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK DM+E +R VPT KGQ LA++ G  FFE SAK 
Sbjct: 111 FNAVQDWATQIKTYSWDNAQVILVGNKCDMEE-ERVVPTEKGQLLAEQLGFDFFEASAKE 169
Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N++V Q F  +   I  +++D+
Sbjct: 170 NISVRQAFERLVDAICDKMSDS 191

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 56/79 (70%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ + +W+ +  QH+S N+  +L+GNK+D+ ES+R V   +G+A A E+G+ F ETSAKT
Sbjct: 109 FNHLTSWLEDARQHSSSNMVIMLIGNKSDL-ESRRDVKREEGEAFAREHGLIFMETSAKT 167
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVE+ F + A++I +++
Sbjct: 168 ACNVEEAFINTAKEIYRKI 186

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 54/78 (69%), Gaps = 1/78 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +  W+ +  QH++ N+  +L+GNK+D+ ES+R V   +G+A A E+G+ F ETSAKT
Sbjct: 98  FNHLTTWLEDARQHSNSNMVIMLIGNKSDL-ESRREVKKEEGEAFAREHGLIFMETSAKT 156
Query: 95  NLNVEQVFFSIARDIKQR 112
             NVE+ F + A++I ++
Sbjct: 157 ASNVEEAFINTAKEIYEK 174

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 51/78 (65%), Gaps = 1/78 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I+ W+  I ++A  +V  +L+GNK D    +R V    G+ LA EYG+ F ETSAKT
Sbjct: 99  FDNIQAWLTEIHEYAQHDVALMLLGNKVD-SAHERVVKREDGEKLAKEYGLPFMETSAKT 157
Query: 95  NLNVEQVFFSIARDIKQR 112
            LNV+  F +IA+++K+R
Sbjct: 158 GLNVDLAFTAIAKELKRR 175

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 35/78 (44%), Positives = 51/78 (65%), Gaps = 2/78 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA+   F+ +++W   I+ ++ DN   +LVGNK D+ E +R VP   G+ LAD+ G
Sbjct: 100 LMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL-EDERVVPAEDGRRLADDLG 158
Query: 85  IKFFETSAKTNLNVEQVF 102
            +FFE SAK N+NV+QVF
Sbjct: 159 FEFFEASAKENINVKQVF 176

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  SKRAV   + QA AD+  + F ETSAKT
Sbjct: 93  FARAKNWVKELQRQASPNIVIALAGNKADL-ASKRAVEFQEAQAYADDNSLLFMETSAKT 151
Query: 95  NLNVEQVFFSIARDI 109
            +NV ++F +IA+ +
Sbjct: 152 AMNVNEIFMAIAKKL 166

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  SKRAV   + QA AD+  + F ETSAKT
Sbjct: 93  FARAKNWVKELQRQASPNIVIALAGNKADL-ASKRAVEFQEAQAYADDNSLLFMETSAKT 151
Query: 95  NLNVEQVFFSIARDI 109
            +NV ++F +IA+ +
Sbjct: 152 AMNVNEIFMAIAKKL 166

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  SKRAV   + QA AD+  + F ETSAKT
Sbjct: 91  FARAKNWVKELQRQASPNIVIALAGNKADL-ASKRAVEFQEAQAYADDNSLLFMETSAKT 149
Query: 95  NLNVEQVFFSIARDI 109
            +NV ++F +IA+ +
Sbjct: 150 AMNVNEIFMAIAKKL 164

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 95  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 153
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 154 SMNVNEIFMAIAKKL 168

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 93  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 151
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 152 SMNVNEIFMAIAKKL 166

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152
Query: 95  NLNVEQVFFSIARDI 109
           ++NV ++F +IA+ +
Sbjct: 153 SMNVNEIFMAIAKKL 167

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 65.9 bits (159), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK DM E +R V + +G+ LAD  G +FFE SAK 
Sbjct: 93  FNAVQDWSTQIKTYSWDNAQVLLVGNKCDM-EDERVVSSERGRQLADHLGFEFFEASAKD 151
Query: 95  NLNVEQVF 102
           N+NV+Q F
Sbjct: 152 NINVKQTF 159

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 65.9 bits (159), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 13/101 (12%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAG 134
           T   VE  F+++ R+I+Q              K+N PD++G
Sbjct: 148 TRQGVEDAFYTLVREIRQH----------KLRKLNPPDESG 178

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 58/98 (59%), Gaps = 1/98 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK D  E +R V + +G+ LAD  G +FFE SAK 
Sbjct: 96  FNAVQDWSTQIKTYSWDNAQVLLVGNKCDX-EDERVVSSERGRQLADHLGFEFFEASAKD 154
Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQ 132
           N+NV+Q F  +   I ++ +++   ++P+     Q  Q
Sbjct: 155 NINVKQTFERLVDVICEKXSESLDTADPAVTGAKQGPQ 192

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 63.5 bits (153), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 95  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFXETSAKT 153
Query: 95  NLNVEQVFFSIARDI 109
           + NV ++F +IA+ +
Sbjct: 154 SXNVNEIFXAIAKKL 168

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 63.2 bits (152), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G
Sbjct: 107 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNG 165
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 166 LSFIETSALDSTNVEAAFQTILTEI 190

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 63.2 bits (152), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G
Sbjct: 107 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNG 165
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 166 LSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 63.2 bits (152), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 49/78 (62%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK+D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKSDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 63.2 bits (152), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G
Sbjct: 98  LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNG 156
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 157 LSFIETSALDSTNVEAAFQTILTEI 181

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 62.8 bits (151), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G
Sbjct: 86  LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNG 144
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 145 LSFIETSALDSTNVEAAFQTILTEI 169

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 45/77 (58%), Gaps = 2/77 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKAD--MDESKRAVPTSKGQALADEYGIKFFETSA 92
           F   R+W++ + + AS ++   LVGNK D   +  +R V   +G+ LA+E G+ FFETSA
Sbjct: 91  FIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSA 150
Query: 93  KTNLNVEQVFFSIARDI 109
           KT  NV  VF  I   I
Sbjct: 151 KTGENVNDVFLGIGEKI 167

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/113 (33%), Positives = 66/113 (58%), Gaps = 3/113 (2%)
Query: 35  FSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW+  ++ +A  +N + VL+GNKAD+ + +R V   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWMSQLQANAYCENPDIVLIGNKADLPD-QREVNERQARELAEKYGIPYFETSAA 167
Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSE-PSTIKINQPDQAGGVGQAAQKSAC 145
           T  NVE+   ++   I +R+     +++ P T+      +  G   A +K AC
Sbjct: 168 TGQNVEKSVETLLDLIMKRMEKCVEKTQVPDTVNGGNSGKLDGEKPAEKKCAC 220

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 62.4 bits (150), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKXDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 62.4 bits (150), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKXDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 62.4 bits (150), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 48/83 (57%), Gaps = 5/83 (6%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADM-----DESKRAVPTSKGQALADEYGIKFFE 89
           F +IR W+  IE  A + V  +LVGNKAD+      E ++ VP   G+ LA  YG  F E
Sbjct: 116 FLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCE 175
Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           TSAK   N+ +    +AR++K+R
Sbjct: 176 TSAKDGSNIVEAVLHLAREVKKR 198

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 95  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 152
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 153 TRQGVEDAFYTLVREIRQ 170

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 95  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 152
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 153 TRQGVEDAFYTLVREIRQ 170

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/88 (43%), Positives = 51/88 (57%), Gaps = 4/88 (4%)
Query: 26  CTYKIA-SYHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I  S  F+DI  +   I++   SD+V  VLVGNK D+    R V T +   LA  Y
Sbjct: 98  CVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL--PTRTVDTKQAHELAKSY 155
Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQ 111
           GI F ETSAKT   VE  F+++ R+I+Q
Sbjct: 156 GIPFIETSAKTRQGVEDAFYTLVREIRQ 183

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 95  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 152
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 153 TRQGVEDAFYTLVREIRQ 170

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 97  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 154
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 155 TRQGVEDAFYTLVREIRQ 172

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 50/85 (58%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+   LVGNK+D+    RAVPT + +A A++ G
Sbjct: 89  LVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL-RHLRAVPTDEARAFAEKNG 147
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 148 LSFIETSALDSTNVEAAFQTILTEI 172

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 96  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 153
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 154 TRQGVEDAFYTLVREIRQ 171

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/85 (37%), Positives = 50/85 (58%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+   LVGNK+D+    RAVPT + +A A++ G
Sbjct: 83  LVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL-RHLRAVPTDEARAFAEKNG 141
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE  F +I  +I
Sbjct: 142 LSFIETSALDSTNVEAAFQTILTEI 166

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 53/91 (58%), Gaps = 9/91 (9%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  + W++ +++ AS ++   L GNKAD+  +KR V   + QA AD+  + F ETSAKT
Sbjct: 96  FARAKTWVKELQRQASPSIVIALAGNKADL-ANKRMVEYEEAQAYADDNSLLFMETSAKT 154
Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTI 125
            +NV  +F +IA+ +         +SEP  +
Sbjct: 155 AMNVNDLFLAIAKKL--------PKSEPQNL 177

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AGRTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/80 (40%), Positives = 50/80 (62%), Gaps = 2/80 (2%)
Query: 35  FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNWI  ++ HA S+N + VL GNK+D+ E +RAV   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWISQLQMHAYSENPDIVLCGNKSDL-EDQRAVKEEEARELAEKYGIPYFETSAA 167
Query: 94  TNLNVEQVFFSIARDIKQRL 113
              N+      +   I +R+
Sbjct: 168 NGTNISHAIEMLLDLIMKRM 187

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 47/63 (74%), Gaps = 1/63 (1%)
Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
            D +  ++VGNK+D++E +R VP  + ++ A+E+G+++ ETSAKT  NV++VFF + R+I
Sbjct: 107 EDKIPLLVVGNKSDLEE-RRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165
Query: 110 KQR 112
           + +
Sbjct: 166 RTK 168

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 47/63 (74%), Gaps = 1/63 (1%)
Query: 50  SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
            D +  ++VGNK+D++E +R VP  + ++ A+E+G+++ ETSAKT  NV++VFF + R+I
Sbjct: 111 EDKIPLLVVGNKSDLEE-RRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 169
Query: 110 KQR 112
           + +
Sbjct: 170 RTK 172

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ ++ W++ I+++A+  V K+LVGNK D+ + KR V     +  AD   + F ETSA  
Sbjct: 96  FNGVKMWLQEIDRYATSTVLKLLVGNKCDL-KDKRVVEYDVAKEFADANKMPFLETSALD 154
Query: 95  NLNVEQVFFSIARDIKQRLA 114
           + NVE  F ++AR IK+ ++
Sbjct: 155 STNVEDAFLTMARQIKESMS 174

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGN+ D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNRCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+I+Q
Sbjct: 148 TRQGVEDAFYTLVREIRQ 165

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/85 (36%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 26  CTYKIASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y IA +  + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++  
Sbjct: 83  LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNN 141
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA  + NVE+ F +I  +I
Sbjct: 142 LSFIETSALDSTNVEEAFKNILTEI 166

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/93 (36%), Positives = 59/93 (63%), Gaps = 3/93 (3%)
Query: 35  FSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW+  ++ +A  +N + VL+GNKAD+ + +R V   + + LAD+YGI +FETSA 
Sbjct: 123 FLNVRNWMSQLQANAYCENPDIVLIGNKADLPD-QREVNERQARELADKYGIPYFETSAA 181
Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSE-PSTI 125
           T  NVE+   ++   I +R+     +++ P T+
Sbjct: 182 TGQNVEKAVETLLDLIMKRMEQCVEKTQIPDTV 214

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ ++ W++ I+++A+  V K+LVGNK D+ + KR V     +  AD   + F ETSA  
Sbjct: 96  FNGVKMWLQEIDRYATSTVLKLLVGNKCDL-KDKRVVEYDVAKEFADANKMPFLETSALD 154
Query: 95  NLNVEQVFFSIARDIKQRLA 114
           + NVE  F ++AR IK+ ++
Sbjct: 155 STNVEDAFLTMARQIKESMS 174

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI ++   I++   S++V  VLVGNK+D+    R V T + Q LA  YGI F ETSAK
Sbjct: 91  FEDIHHYREQIKRVKDSEDVPMVLVGNKSDL--PSRTVDTKQAQDLARSYGIPFIETSAK 148
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   V+  F+++ R+I++
Sbjct: 149 TRQGVDDAFYTLVREIRK 166

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI ++   I++   S++V  VLVGNK+D+    R V T + Q LA  YGI F ETSAK
Sbjct: 91  FEDIHHYREQIKRVKDSEDVPMVLVGNKSDL--PSRTVDTKQAQDLARSYGIPFIETSAK 148
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   V+  F+++ R+I++
Sbjct: 149 TRQGVDDAFYTLVREIRK 166

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI ++   I++   S++V  VLVGNK+D+    R V T + Q LA  YGI F ETSAK
Sbjct: 91  FEDIHHYREQIKRVKDSEDVPMVLVGNKSDL--PSRTVDTKQAQDLARSYGIPFIETSAK 148
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   V+  F+++ R+I++
Sbjct: 149 TRQGVDDAFYTLVREIRK 166

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 60.1 bits (144), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 48/77 (62%), Gaps = 1/77 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ ++ W++ I+++A+  V K+LVGNK D+ + KR V     +  AD   + F ETSA  
Sbjct: 109 FNGVKMWLQEIDRYATSTVLKLLVGNKCDL-KDKRVVEYDVAKEFADANKMPFLETSALD 167
Query: 95  NLNVEQVFFSIARDIKQ 111
           + NVE  F ++AR IK+
Sbjct: 168 STNVEDAFLTMARQIKE 184

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI  +   I++   SD+V  VLVGNK D+  + R V + + Q LA  YGI + ETSAK
Sbjct: 90  FEDIHQYREQIKRVKDSDDVPMVLVGNKCDL--AARTVESRQAQDLARSYGIPYIETSAK 147
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   VE  F+++ R+ +Q
Sbjct: 148 TRQGVEDAFYTLVREFRQ 165

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 59.7 bits (143), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 51/80 (63%), Gaps = 2/80 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAK 93
           F D+  W++ I+++AS++   +LVGNK D  E+ R +   +G+  A +  G++F E SAK
Sbjct: 114 FDDLPKWMKMIDKYASEDAELLLVGNKLDC-ETDREITRQQGEKFAQQITGMRFCEASAK 172
Query: 94  TNLNVEQVFFSIARDIKQRL 113
            N NV+++F  +  DI +++
Sbjct: 173 DNFNVDEIFLKLVDDILKKM 192

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 59.7 bits (143), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI ++   I++   S++V  VLVGNK D+    R V T + Q LA  YGI F ETSAK
Sbjct: 91  FEDIHHYREQIKRVKDSEDVPMVLVGNKCDL--PSRTVDTKQAQDLARSYGIPFIETSAK 148
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   V+  F+++ R+I++
Sbjct: 149 TRQGVDDAFYTLVREIRK 166

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 59.3 bits (142), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 48/78 (61%), Gaps = 3/78 (3%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI ++   I++   S++V  VLVGNK D+    R V T + Q LA  YGI F ETSAK
Sbjct: 108 FEDIHHYREQIKRVKDSEDVPMVLVGNKCDL--PSRTVDTKQAQDLARSYGIPFIETSAK 165
Query: 94  TNLNVEQVFFSIARDIKQ 111
           T   V+  F+++ R+I++
Sbjct: 166 TRQGVDDAFYTLVREIRK 183

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 58.9 bits (141), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           +D R  I  +++   +NV  +LVGNK+D+ E KR V   + +  AD++ + + ETSAKT 
Sbjct: 95  ADFREQILRVKE--DENVPFLLVGNKSDL-EDKRQVSVEEAKNRADQWNVNYVETSAKTR 151
Query: 96  LNVEQVFFSIARDIKQR 112
            NV++VFF + R+I+ R
Sbjct: 152 ANVDKVFFDLMREIRAR 168

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 50/79 (63%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK-FFETSAK 93
           F  + +WI ++ ++A  N+ ++L+GNK+D+ E  R V  ++ Q+LA+ Y I    ETSAK
Sbjct: 117 FLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSE-LREVSLAEAQSLAEHYDILCAIETSAK 175
Query: 94  TNLNVEQVFFSIARDIKQR 112
            + NVE+ F  +A ++  R
Sbjct: 176 DSSNVEEAFLRVATELIMR 194

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/93 (35%), Positives = 59/93 (63%), Gaps = 3/93 (3%)
Query: 35  FSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW+  ++ +A  +N + VL+GNKAD+ + +R V   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWMSQLQANAYCENPDIVLIGNKADLPD-QREVNERQARELAEKYGIPYFETSAA 167
Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSE-PSTI 125
           T  NVE+   ++   I +R+     +++ P T+
Sbjct: 168 TGQNVEKSVETLLDLIMKRMEKCVEKTQVPDTV 200

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 48/81 (59%), Gaps = 2/81 (2%)
Query: 27  TYKIA-SYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
           TY I     F  +  W+R IEQ+AS+ V  VLVGNK D+ E +R V   + +  ++   +
Sbjct: 105 TYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAE-RREVSQQRAEEFSEAQDM 163
Query: 86  KFFETSAKTNLNVEQVFFSIA 106
            + ETSAK + NVE++F  +A
Sbjct: 164 YYLETSAKESDNVEKLFLDLA 184

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 44/68 (64%), Gaps = 2/68 (2%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ W+  I Q+  D+V ++LVGNK D D  ++ V T      A + GI+ FETSAK 
Sbjct: 97  FVNVKRWLHEINQNC-DDVCRILVGNKND-DPERKVVETEDAYKFAGQMGIQLFETSAKE 154
Query: 95  NLNVEQVF 102
           N+NVE++F
Sbjct: 155 NVNVEEMF 162

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           +D R  I  +++   +NV  +LVGNK+D+ E KR V   + +  A+++ + + ETSAKT 
Sbjct: 105 ADFREQILRVKE--DENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQWNVNYVETSAKTR 161
Query: 96  LNVEQVFFSIARDIKQR 112
            NV++VFF + R+I+ R
Sbjct: 162 ANVDKVFFDLMREIRAR 178

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           +D R  I  +++   +NV  +LVGNK+D+ E KR V   + +  A+++ + + ETSAKT 
Sbjct: 97  ADFREQILRVKE--DENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQWNVNYVETSAKTR 153
Query: 96  LNVEQVFFSIARDIKQR 112
            NV++VFF + R+I+ R
Sbjct: 154 ANVDKVFFDLMREIRAR 170

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           +D R  I  +++   +NV  +LVGNK+D+ E KR V   + +  A+++ + + ETSAKT 
Sbjct: 109 ADFREQILRVKE--DENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQWNVNYVETSAKTR 165
Query: 96  LNVEQVFFSIARDIKQR 112
            NV++VFF + R+I+ R
Sbjct: 166 ANVDKVFFDLMREIRAR 182

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           +D R  I  +++   +NV  +LVGNK+D+ E KR V   + +  A+++ + + ETSAKT 
Sbjct: 97  ADFREQILRVKE--DENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQWNVNYVETSAKTR 153
Query: 96  LNVEQVFFSIARDIKQR 112
            NV++VFF + R+I+ R
Sbjct: 154 ANVDKVFFDLMREIRAR 170

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 56.6 bits (135), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 34/92 (36%), Positives = 52/92 (56%), Gaps = 7/92 (7%)
Query: 23  FKYCTYKIASYHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81
           F Y    +AS+H   +  WI   +QH  ++++ ++LVGNK D+  S   VPT   Q  AD
Sbjct: 99  FVYDMTNMASFH--SLPAWIEECKQHLLANDIPRILVGNKCDL-RSAIQVPTDLAQKFAD 155
Query: 82  EYGIKFFETSAKT---NLNVEQVFFSIARDIK 110
            + +  FETSAK    N +VE +F ++A  +K
Sbjct: 156 THSMPLFETSAKNPNDNDHVEAIFMTLAHKLK 187

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 56.2 bits (134), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 36/102 (35%), Positives = 55/102 (53%), Gaps = 9/102 (8%)
Query: 35  FSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW   ++ +A  +N + VL+GNKAD+ + +R V   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWXSQLQANAYCENPDIVLIGNKADLPD-QREVNERQARELAEKYGIPYFETSAA 167
Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGG 135
           T  NVE       + ++  L     R E    K   PD   G
Sbjct: 168 TGQNVE-------KSVETLLDLIXKRXEKCVEKTQVPDTVNG 202

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 51/93 (54%), Gaps = 8/93 (8%)
Query: 17  LAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG 76
           L V    K+ TY +       +  W++ +  HA   +  +LVGNK+D+ ++ R VPT + 
Sbjct: 102 LLVFDLTKHQTYAV-------VERWLKELYDHAEATIVVMLVGNKSDLSQA-REVPTEEA 153
Query: 77  QALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           +  A+  G+ F ETSA  + NVE  F ++ ++I
Sbjct: 154 RMFAENNGLLFLETSALDSTNVELAFETVLKEI 186

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 51/93 (54%), Gaps = 8/93 (8%)
Query: 17  LAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG 76
           L V    K+ TY +       +  W++ +  HA   +  +LVGNK+D+ ++ R VPT + 
Sbjct: 87  LLVFDLTKHQTYAV-------VERWLKELYDHAEATIVVMLVGNKSDLSQA-REVPTEEA 138
Query: 77  QALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           +  A+  G+ F ETSA  + NVE  F ++ ++I
Sbjct: 139 RMFAENNGLLFLETSALDSTNVELAFETVLKEI 171

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 31/79 (39%), Positives = 51/79 (64%), Gaps = 2/79 (2%)
Query: 35  FSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW   ++ +A  +N + VL+GNKAD+ + +R V   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWXSQLQANAYCENPDIVLIGNKADLPD-QREVNERQARELAEKYGIPYFETSAA 167
Query: 94  TNLNVEQVFFSIARDIKQR 112
           T  NVE+   ++   I +R
Sbjct: 168 TGQNVEKSVETLLDLIXKR 186

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F   + W++ ++   + N+   L GNK+D+ ++ R V     Q  A E G+ F ETSAKT
Sbjct: 100 FERAKKWVQELQAQGNPNMVMALAGNKSDLLDA-RKVTAEDAQTYAQENGLFFMETSAKT 158
Query: 95  NLNVEQVFFSIARDI 109
             NV+++F+ IAR +
Sbjct: 159 ATNVKEIFYEIARRL 173

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++ W++ +++H  +N+   + GNK D+ +  R VP    +  A+  G    ETSAK 
Sbjct: 111 FYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI-REVPLKDAKEYAESIGAIVVETSAKN 169
Query: 95  NLNVEQVFFSIARDI 109
            +N+E++F  I+R I
Sbjct: 170 AINIEELFQGISRQI 184

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + +W+ +     + N   +L+GNKAD+ E++R V   + +  A+E G+ F E SAKT
Sbjct: 118 YNHLSSWLTDARNLTNPNTVIILIGNKADL-EAQRDVTYEEAKQFAEENGLLFLEASAKT 176
Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVE  F   A+ I Q +
Sbjct: 177 GENVEDAFLEAAKKIYQNI 195

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 34/92 (36%), Positives = 50/92 (54%), Gaps = 7/92 (7%)
Query: 23  FKYCTYKIASYHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81
           F Y     AS+H   +  WI   +QH  ++++ ++LVGNK D+  S   VPT   Q  AD
Sbjct: 108 FVYDXTNXASFH--SLPAWIEECKQHLLANDIPRILVGNKCDL-RSAIQVPTDLAQKFAD 164
Query: 82  EYGIKFFETSAKT---NLNVEQVFFSIARDIK 110
            +    FETSAK    N +VE +F ++A  +K
Sbjct: 165 THSXPLFETSAKNPNDNDHVEAIFXTLAHKLK 196

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + +W+ +     + N   +L+GNKAD+ E++R V   + +  A+E G+ F E SAKT
Sbjct: 103 YNHLSSWLTDARNLTNPNTVIILIGNKADL-EAQRDVTYEEAKQFAEENGLLFLEASAKT 161
Query: 95  NLNVEQVFFSIARDIKQ 111
             NVE  F   A+ I Q
Sbjct: 162 GENVEDAFLEAAKKIYQ 178

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 35/109 (32%), Positives = 55/109 (50%), Gaps = 3/109 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I + + F     WI ++      +V  +LVGNK D+ + KR V   +G+  A E  
Sbjct: 94  VVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQVSIEEGERKAKELN 152
Query: 85  IKFFETSAKTNLNVEQVFFSIARDIKQRLADTD-SRSEPSTIKINQPDQ 132
           + F ETSAK   NV+Q+F  +A  +    +  D SR +   IK+ +P +
Sbjct: 153 VMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQE 201

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 35/109 (32%), Positives = 55/109 (50%), Gaps = 3/109 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I + + F     WI ++      +V  +LVGNK D+ + KR V   +G+  A E  
Sbjct: 91  VVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQVSIEEGERKAKELN 149
Query: 85  IKFFETSAKTNLNVEQVFFSIARDIKQRLADTD-SRSEPSTIKINQPDQ 132
           + F ETSAK   NV+Q+F  +A  +    +  D SR +   IK+ +P +
Sbjct: 150 VMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQE 198

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
           D+   VLVGNKAD+ ES+R VP S+  A    + + +FE SAK  LNV++ F  + R ++
Sbjct: 113 DDFPVVLVGNKADL-ESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVR 171
Query: 111 Q 111
           +
Sbjct: 172 K 172

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 33/100 (33%), Positives = 50/100 (50%), Gaps = 5/100 (5%)
Query: 9   FIGVYPPYL--AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE 66
           F  + P Y+  + +    Y      S+H      WI ++      +V  +LVGNK D+ +
Sbjct: 76  FRSLIPSYIRDSTVAVVVYDITNTNSFH--QTSKWIDDVRTERGSDVIIMLVGNKTDLSD 133
Query: 67  SKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIA 106
            KR V T +G+  A E  + F ETSAK   NV+Q+F  +A
Sbjct: 134 -KRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA 172

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 33/97 (34%), Positives = 53/97 (54%), Gaps = 3/97 (3%)
Query: 18  AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ 77
           AV     Y   K +SY   +  +W+  + ++A DNV   L+GNK+D+    RAVPT + +
Sbjct: 86  AVGALIVYDISKSSSYE--NCNHWLSELRENADDNVAVGLIGNKSDL-AHLRAVPTEESK 142
Query: 78  ALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLA 114
             A E  + F ETSA  + NV++ F  +   I Q+++
Sbjct: 143 TFAQENQLLFTETSALNSENVDKAFEELINTIYQKVS 179

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           FS ++NW+R + QH   ++   + GNK D+ +  R V     +  AD     F ETSAK 
Sbjct: 94  FSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV-REVMERDAKDYADSIHAIFVETSAKN 152
Query: 95  NLNVEQVFFSIARDI 109
            +N+ ++F  I+R I
Sbjct: 153 AININELFIEISRRI 167

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           FS ++NW+R + QH   ++   + GNK D+ +  R V     +  AD     F ETSAK 
Sbjct: 93  FSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV-REVMERDAKDYADSIHAIFVETSAKN 151
Query: 95  NLNVEQVFFSIARDI 109
            +N+ ++F  I+R I
Sbjct: 152 AININELFIEISRRI 166

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 52.4 bits (124), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 44/82 (53%), Gaps = 2/82 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I + + F     WI ++      +V  +LVGNK D+ + KR +   +G+  A E  
Sbjct: 80  VVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQITIEEGEQRAKELS 138
Query: 85  IKFFETSAKTNLNVEQVFFSIA 106
           + F ETSAKT  NV+Q+F  +A
Sbjct: 139 VMFIETSAKTGYNVKQLFRRVA 160

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/62 (43%), Positives = 41/62 (66%), Gaps = 2/62 (3%)
Query: 52  NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNL-NVEQVFFSIARDIK 110
           NV  +LVGNKAD+D S R V T +G+ LA E    F+E SA T   N+ ++F+ + R+++
Sbjct: 132 NVTLILVGNKADLDHS-RQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVR 190
Query: 111 QR 112
           +R
Sbjct: 191 RR 192

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F +I  + R I +    D    +L+GNKAD+D  +R V   +GQ LA +  + + E SAK
Sbjct: 92  FEEIYKFQRQILRVKDRDEFPMILIGNKADLD-HQRQVTQEEGQQLARQLKVTYMEASAK 150
Query: 94  TNLNVEQVFFSIARDIKQ 111
             +NV+Q F  + R I++
Sbjct: 151 IRMNVDQAFHELVRVIRK 168

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++NW++ + +   + +   +VGNK D+ E +R V   + ++ A+  G K + TSAK 
Sbjct: 108 FQKVKNWVKELRKMLGNEICLCIVGNKIDL-EKERHVSIQEAESYAESVGAKHYHTSAKQ 166
Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N  +E++F     D+ +R+ +T
Sbjct: 167 NKGIEELFL----DLCKRMIET 184

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++NW++ + +   + +   +VGNK D+ E +R V   + ++ A+  G K + TSAK 
Sbjct: 94  FQKVKNWVKELRKMLGNEICLCIVGNKIDL-EKERHVSIQEAESYAESVGAKHYHTSAKQ 152
Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N  +E++F     D+ +R+ +T
Sbjct: 153 NKGIEELFL----DLCKRMIET 170

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 50/103 (48%), Gaps = 3/103 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I + + F     WI ++      +V  +LVGNK D+ + KR V   +G+  A E  
Sbjct: 84  VVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQVSIEEGERKAKELN 142
Query: 85  IKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKI 127
           + F ETSAK   NV+Q+F  +A  +   +  T  RS    I I
Sbjct: 143 VMFIETSAKAGYNVKQLFRRVAAALPG-MESTQDRSREDMIDI 184

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++NW++ + +   + +   +VGNK D+ E +R V   + ++ A+  G K + TSAK 
Sbjct: 94  FQKVKNWVKELRKMLGNEICLCIVGNKIDL-EKERHVSIQEAESYAESVGAKHYHTSAKQ 152
Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N  +E++F     D+ +R+ +T
Sbjct: 153 NKGIEELFL----DLCKRMIET 170

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F     WI ++      +V  +LVGNK D+ + KR V   +G+  A E  + F ETSAK 
Sbjct: 94  FQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQVSIEEGERKAKELNVMFIETSAKA 152
Query: 95  NLNVEQVFFSIA 106
             NV+Q+F  +A
Sbjct: 153 GYNVKQLFRRVA 164

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAK 93
             D+R  I  ++   +D+V  +LVGNK D+ E +R V   +GQ LA ++    F E+SAK
Sbjct: 93  LQDLREQILRVKD--TDDVPMILVGNKCDL-EDERVVGKEQGQNLARQWNNCAFLESSAK 149
Query: 94  TNLNVEQVFFSIARDI 109
           + +NV ++F+ + R I
Sbjct: 150 SKINVNEIFYDLVRQI 165

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAK 93
             D+R  I  ++   +D+V  +LVGNK D+ E +R V   +GQ LA ++    F E+SAK
Sbjct: 95  LQDLREQILRVKD--TDDVPMILVGNKCDL-EDERVVGKEQGQNLARQWNNCAFLESSAK 151
Query: 94  TNLNVEQVFFSIARDI 109
           + +NV ++F+ + R I
Sbjct: 152 SKINVNEIFYDLVRQI 167

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 34/85 (40%), Positives = 44/85 (51%), Gaps = 9/85 (10%)
Query: 35  FSDIRNWIRNIEQHASDNVNK------VLVGNKADMDESKRAVPTSKGQALADEYG-IKF 87
           F +I++W      HA  NVN       V++GNK D +ESK+ V     Q LA   G I  
Sbjct: 97  FENIKSWRDEFLVHA--NVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPL 154
Query: 88  FETSAKTNLNVEQVFFSIARDIKQR 112
           F TSAK  +NV+  F  IAR   Q+
Sbjct: 155 FLTSAKNAINVDTAFEEIARSALQQ 179

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 31/89 (34%), Positives = 45/89 (50%), Gaps = 2/89 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I S   ++ + NW+ +    AS N+  +L GNK D+D + R V   +    A E  
Sbjct: 88  LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQENE 146
Query: 85  IKFFETSAKTNLNVEQVFFSIARDIKQRL 113
           + F ETSA T  NVE+ F   AR I  ++
Sbjct: 147 LMFLETSALTGENVEEAFVQCARKILNKI 175

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F     WI ++      +V  +LVGNK D+ + KR V   +G+  A E  + F ETSAK 
Sbjct: 89  FQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD-KRQVSIEEGERKAKELNVMFIETSAKA 147
Query: 95  NLNVEQVFFSIA 106
             NV+Q+F  +A
Sbjct: 148 GYNVKQLFRRVA 159

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 32/98 (32%), Positives = 51/98 (52%), Gaps = 4/98 (4%)
Query: 15  PYLAVLCRFKYC-TYKIASYH-FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAV 71
           PY  ++    Y   Y + S H F  I +  + + E H    V  VLVGNKAD+   +R V
Sbjct: 89  PYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLS-PEREV 147
Query: 72  PTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
              +G+ LA+ +G  F E+SA+ N   + +F  + ++I
Sbjct: 148 QAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 37/115 (32%), Positives = 61/115 (53%), Gaps = 8/115 (6%)
Query: 31  ASYHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQALA-DEYGI 85
           A   F  + +W       AS    +N   V++GNK D++   R V T + QA    +  I
Sbjct: 92  APNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE--NRQVATKRAQAWCYSKNNI 149
Query: 86  KFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSE-PSTIKINQPDQAGGVGQA 139
            +FETSAK  +NVEQ F +IAR+  ++  + +  +E P  IK+++ D+A    ++
Sbjct: 150 PYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNDRAKASAES 204

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 49.3 bits (116), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAK 93
             D+R  I  ++   +++V  +LVGNK D+ E +R V   +GQ LA ++    F E+SAK
Sbjct: 93  LQDLREQILRVKD--TEDVPMILVGNKCDL-EDERVVGKEQGQNLARQWCNCAFLESSAK 149
Query: 94  TNLNVEQVFFSIARDI 109
           + +NV ++F+ + R I
Sbjct: 150 SKINVNEIFYDLVRQI 165

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 49.3 bits (116), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAK 93
             D+R  I  ++   +++V  +LVGNK D+ E +R V   +GQ LA ++    F E+SAK
Sbjct: 93  LQDLREQILRVKD--TEDVPMILVGNKCDL-EDERVVGKEQGQNLARQWCNCAFLESSAK 149
Query: 94  TNLNVEQVFFSIARDI 109
           + +NV ++F+ + R I
Sbjct: 150 SKINVNEIFYDLVRQI 165

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  +D+V  +LVGNK+D+  S R V   +G+A A  +  KF ETSA  +
Sbjct: 92  SELRVQLRRARQ--TDDVPIILVGNKSDLVRS-REVSVDEGRACAVVFDCKFIETSAALH 148
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+ +F  + R I+ R
Sbjct: 149 HNVQALFEGVVRQIRLR 165

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 53/91 (58%), Gaps = 4/91 (4%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALA-DEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           +N   V++GNK D +   R V T + QA    +  I +FETSAK  +NVEQ F +IAR+ 
Sbjct: 116 ENFPFVVLGNKIDFE--NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173
Query: 110 KQRLADTDSRSE-PSTIKINQPDQAGGVGQA 139
            ++  + +  +E P  IK+++ D+A    ++
Sbjct: 174 LKQETEVELYNEFPEPIKLDKNDRAKASAES 204

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  +D+V  +LVGNK+D+  S R V   +G+A A  +  KF ETSA  +
Sbjct: 97  SELRVQLRRARQ--TDDVPIILVGNKSDLVRS-REVSVDEGRACAVVFDCKFIETSAALH 153
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+ +F  + R I+ R
Sbjct: 154 HNVQALFEGVVRQIRLR 170

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  +D+V  +LVGNK+D+  S R V   +G+A A  +  KF ETSA  +
Sbjct: 97  SELRVQLRRARQ--TDDVPIILVGNKSDLVRS-REVSVDEGRACAVVFDCKFIETSAALH 153
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+ +F  + R I+ R
Sbjct: 154 HNVQALFEGVVRQIRLR 170

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 54/91 (59%), Gaps = 4/91 (4%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALA-DEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           +N   V++GNK D++   R V T + QA    +  I +FETSAK  +NVEQ F +IAR+ 
Sbjct: 116 ENFPFVVLGNKIDLE--NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173
Query: 110 KQRLADTDSRSE-PSTIKINQPDQAGGVGQA 139
            ++  + +  +E P  IK+++ ++A    ++
Sbjct: 174 LKQETEVELYNEFPEPIKLDKNERAKASAES 204

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 44/89 (49%), Gaps = 2/89 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I S   ++ +  W+ +    AS N+  +L GNK D+D  +R V   +    A E  
Sbjct: 103 LVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQENE 161
Query: 85  IKFFETSAKTNLNVEQVFFSIARDIKQRL 113
           + F ETSA T  NVE+ F   AR I  ++
Sbjct: 162 LMFLETSALTGENVEEAFLKCARTILNKI 190

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/85 (35%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I S   ++ + NW+ +    AS N+  +L GNK D+D + R V   +    A E  
Sbjct: 89  LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQENE 147
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA T  +VE+ F   AR I
Sbjct: 148 LMFLETSALTGEDVEEAFVQCARKI 172

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 47.8 bits (112), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/85 (35%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 26  CTYKIASYH-FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG 84
             Y I S   ++ + NW+ +    AS N+  +L GNK D+D + R V   +    A E  
Sbjct: 86  LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQENE 144
Query: 85  IKFFETSAKTNLNVEQVFFSIARDI 109
           + F ETSA T  +VE+ F   AR I
Sbjct: 145 LMFLETSALTGEDVEEAFVQCARKI 169

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 36/52 (69%), Gaps = 2/52 (3%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVF 102
           +++  +LVGNK D  E++R V T + QA+A E+   F ETSAK N NV+++F
Sbjct: 113 EDIPVMLVGNKCD--ETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELF 162

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA   
Sbjct: 100 SELRIQLRRARQ--TEDIPIILVGNKSDL-VRXREVSVSEGRAXAVVFDXKFIETSAAVQ 156
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+++F  I R ++ R
Sbjct: 157 HNVKELFEGIVRQVRLR 173

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/85 (36%), Positives = 47/85 (55%), Gaps = 3/85 (3%)
Query: 18  AVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ 77
           AV     Y   K +SY   +  +W+  + ++A DNV   L+GNK+D+    RAVPT + +
Sbjct: 83  AVGALIVYDISKSSSYE--NCNHWLTELRENADDNVAVGLIGNKSDL-AHLRAVPTDEAK 139
Query: 78  ALADEYGIKFFETSAKTNLNVEQVF 102
             A E  + F ETSA  + NV++ F
Sbjct: 140 NFAMENQMLFTETSALNSDNVDKAF 164

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 46.2 bits (108), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA   
Sbjct: 100 SELRIQLRRARQ--TEDIPIILVGNKSDLVRC-REVSVSEGRACAVVFDCKFIETSAAVQ 156
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+++F  I R ++ R
Sbjct: 157 HNVKELFEGIVRQVRLR 173

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA   
Sbjct: 100 SELRIQLRRARQ--TEDIPIILVGNKSDL-VRXREVSVSEGRAXAVVFDCKFIETSAAVQ 156
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+++F  I R ++ R
Sbjct: 157 HNVKELFEGIVRQVRLR 173

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R   Q  ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA   
Sbjct: 131 SELRIQLRRARQ--TEDIPIILVGNKSDLVRC-REVSVSEGRACAVVFDCKFIETSAAVQ 187
Query: 96  LNVEQVFFSIARDIKQR 112
            NV+++F  I R ++ R
Sbjct: 188 HNVKELFEGIVRQVRLR 204

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 49/78 (62%), Gaps = 6/78 (7%)
Query: 35  FSDI---RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91
           F DI   R+ I  ++++  + V  +LVGNK D++  +    +S+G+ALA+E+G  F ETS
Sbjct: 90  FQDIKPMRDQIIRVKRY--EKVPVILVGNKVDLESEREVS-SSEGRALAEEWGCPFMETS 146
Query: 92  AKTNLNVEQVFFSIARDI 109
           AK+   V+++F  I R +
Sbjct: 147 AKSKTMVDELFAEIVRQM 164

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +   WI++I      +V   LVGNK D+ +  R V   +G   A EY   F ETSAK 
Sbjct: 89  FENTTKWIQDILNERGKDVIIALVGNKTDLGDL-RKVTYEEGXQKAQEYNTXFHETSAKA 147
Query: 95  NLNVEQVF 102
             N++ +F
Sbjct: 148 GHNIKVLF 155

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 36  SDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN 95
           S++R  +R    H +D+V  +LVGNKAD+    R V   +G+A A  +  KF ETSA   
Sbjct: 97  SELRIQLRRT--HQADHVPIILVGNKADLARC-REVSVEEGRACAVVFDCKFIETSATLQ 153
Query: 96  LNVEQVF 102
            NV ++F
Sbjct: 154 HNVAELF 160

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 37/59 (62%), Gaps = 3/59 (5%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALA-DEYGIKFFETSAKTNLNVEQVFFSIARD 108
           +N   V++GNK D++   R V T + QA    +  I +FETSAK  +NVEQ F +IAR+
Sbjct: 116 ENFPFVVLGNKIDLE--NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARN 172

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 15/30 (50%), Positives = 27/30 (90%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADM 64
           F++++ W++ I+++AS+NVNK+LVGNK D+
Sbjct: 86  FNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I  W++ +  +A  N+  +LVGNK+D+ +  R +  +     A +  + F ETSA  
Sbjct: 96  FENIEKWLKELRDNADSNIVILLVGNKSDL-KHLRVINDNDATQYAKKEKLAFIETSALE 154
Query: 95  NLNVEQVFFSIARDI 109
             NVE  F  +  +I
Sbjct: 155 ATNVELAFHQLLNEI 169

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 51  DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
           +++  +LVGNK D   S R V +S+ +ALA  +   F ETSAK N NV+++F  +    K
Sbjct: 108 ESIPIMLVGNKCDESPS-REVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEK 166
Query: 111 QR 112
           +R
Sbjct: 167 RR 168

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK-TNLNVEQVFFSIARDIKQR 112
           +LV NK D+    R V   +G+ +A +Y I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 122 ILVANKVDL-MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 178

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK-TNLNVEQVFFSIARDIKQR 112
           +LV NK D+    R V   +G+ +A +Y I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 127 ILVANKVDL-MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK-TNLNVEQVFFSIARDIKQR 112
           +LV NK D+    R V   +G+ +A +Y I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 127 ILVANKVDL-MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 56  VLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK-TNLNVEQVFFSIARDIKQR 112
           +LV NK D+    R V   +G+ +A +Y I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 127 ILVANKVDL-MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 39.3 bits (90), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ E K     +K      +  +++++ SAK+
Sbjct: 100 YKNVPNWHRDLVR-VCENIPIVLCGNKVDVKERKVK---AKTITFHRKKNLQYYDISAKS 155
Query: 95  NLNVEQVFFSIARDI 109
           N N E+ F  +AR +
Sbjct: 156 NYNFEKPFLWLARKL 170

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 39.3 bits (90), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 30  IASYHFSDIRNW--IRNIEQHASDNVNKV-----LVGNKADMDESKRAVPTSKGQALADE 82
           I  Y  + I+++  I+ I     D V KV     LVGNK D+   +R +   +G+ALA+ 
Sbjct: 82  ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL-HMERVISYEEGKALAES 140
Query: 83  YGIKFFETSAKTNLNVEQVF 102
           +   F E+SAK N     VF
Sbjct: 141 WNAAFLESSAKENQTAVDVF 160

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 39.3 bits (90), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ E K     +K      +  +++++ SAK+
Sbjct: 93  YKNVPNWHRDLVR-VCENIPIVLCGNKVDVKERKVK---AKTITFHRKKNLQYYDISAKS 148
Query: 95  NLNVEQVFFSIARDI 109
           N N E+ F  +AR +
Sbjct: 149 NYNFEKPFLWLARKL 163

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 39.3 bits (90), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ E K     +K      +  +++++ SAK+
Sbjct: 92  YKNVPNWHRDLVR-VCENIPIVLCGNKVDVKERKVK---AKTITFHRKKNLQYYDISAKS 147
Query: 95  NLNVEQVFFSIARDI 109
           N N E+ F  +AR +
Sbjct: 148 NYNFEKPFLWLARKL 162

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 39.3 bits (90), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ + K     +K      +  +++++ SAK+
Sbjct: 91  YKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDRKVK---AKSIVFHRKKNLQYYDISAKS 146
Query: 95  NLNVEQVFFSIARDI 109
           N N E+ F  +AR +
Sbjct: 147 NYNFEKPFLWLARKL 161

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	149
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-41
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-41
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-40
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-39
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-39
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-39
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-39
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-39
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-39
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	4e-39
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-39
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	5e-39
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	7e-39
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-38
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-38
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-38
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	3e-38
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	3e-38
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-37
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	4e-37
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-36
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	2e-36
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	4e-36
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	7e-36
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-35
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-35
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-35
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-35
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-35
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-35
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-35
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	5e-35
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	8e-35
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	9e-35
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-34
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-34
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-34
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	5e-34
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-34
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-33
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-33
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	3e-33
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-33
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-33
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	5e-33
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	9e-33
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-32
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-32
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-32
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-32
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-32
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-32
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	5e-32
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	7e-32
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	8e-32
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	8e-32
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-31
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	3e-31
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-31
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	8e-31
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-30
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	5e-30
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-29
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	4e-29
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-28
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-28
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	8e-26
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-23
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	3e-22
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-21
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-20
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-16
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-14
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-13
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-12
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-12
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-12
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-11
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	3e-11
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	9e-11
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-09
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-09
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-09
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	5e-09
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-08

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  136 bits (345), Expect = 1e-41
 Identities = 35/108 (32%), Positives = 61/108 (56%), Gaps = 1/108 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK DM E +R V + +G+ LAD  G +FFE SAK 
Sbjct: 96  FNAVQDWSTQIKTYSWDNAQVLLVGNKCDM-EDERVVSSERGRQLADHLGFEFFEASAKD 154

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQK 142
           N+NV+Q F  +   I ++++++   ++P+     Q  Q         +
Sbjct: 155 NINVKQTFERLVDVICEKMSESLDTADPAVTGAKQGPQLTDQQAPPHQ 202

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  136 bits (344), Expect = 2e-41
 Identities = 33/112 (29%), Positives = 55/112 (49%), Gaps = 1/112 (0%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ ++ W++ I+++A+  V K+LVGNK D+ + KR V     +  AD   + F ETSA  
Sbjct: 96  FNGVKMWLQEIDRYATSTVLKLLVGNKCDL-KDKRVVEYDVAKEFADANKMPFLETSALD 154

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           + NVE  F ++AR IK+ ++  +        +        G         CC
Sbjct: 155 STNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  133 bits (336), Expect = 2e-40
 Identities = 40/94 (42%), Positives = 63/94 (67%), Gaps = 3/94 (3%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 104 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 162

Query: 95  NLNVEQVFFSIARDIKQRLAD--TDSRSEPSTIK 126
             NVEQ F ++A +IK+R+    T   +E S +K
Sbjct: 163 ATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVK 196

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  130 bits (330), Expect = 1e-39
 Identities = 46/82 (56%), Positives = 61/82 (74%), Gaps = 1/82 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IRNWIRNIE+HAS +V K+++GNK D+   KR V   +G+ LA +YGIKF ETSAK 
Sbjct: 96  FDNIRNWIRNIEEHASADVEKMILGNKCDV-NDKRQVSKERGEKLALDYGIKFMETSAKA 154

Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N+NVE  FF++ARDIK ++   
Sbjct: 155 NINVENAFFTLARDIKAKMDKN 176

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  130 bits (329), Expect = 1e-39
 Identities = 34/82 (41%), Positives = 51/82 (62%), Gaps = 1/82 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I+ W+  I ++A  +V  +L+GNK D    +R V    G+ LA EYG+ F ETSAKT
Sbjct: 99  FDNIQAWLTEIHEYAQHDVALMLLGNKVDS-AHERVVKREDGEKLAKEYGLPFMETSAKT 157

Query: 95  NLNVEQVFFSIARDIKQRLADT 116
            LNV+  F +IA+++K+R    
Sbjct: 158 GLNVDLAFTAIAKELKRRSMKA 179

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  130 bits (330), Expect = 2e-39
 Identities = 35/82 (42%), Positives = 53/82 (64%), Gaps = 1/82 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK DM E +R VPT KGQ LA++ G  FFE SAK 
Sbjct: 111 FNAVQDWATQIKTYSWDNAQVILVGNKCDM-EEERVVPTEKGQLLAEQLGFDFFEASAKE 169

Query: 95  NLNVEQVFFSIARDIKQRLADT 116
           N++V Q F  +   I  +++D+
Sbjct: 170 NISVRQAFERLVDAICDKMSDS 191

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  130 bits (330), Expect = 2e-39
 Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 1/89 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  +  W+R IEQ+AS+ V  VLVGNK D+   +R V   + +  ++   + + ETSAK 
Sbjct: 114 FRCLPEWLREIEQYASNKVITVLVGNKIDL-AERREVSQQRAEEFSEAQDMYYLETSAKE 172

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPS 123
           + NVE++F  +A  +          +  S
Sbjct: 173 SDNVEKLFLDLACRLISEARQNTLVNNVS 201

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  130 bits (328), Expect = 3e-39
 Identities = 33/81 (40%), Positives = 53/81 (65%), Gaps = 1/81 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ +++W   I+ ++ DN   +LVGNK D+ E +R VP   G+ LAD+ G +FFE SAK 
Sbjct: 110 FAAVQDWATQIKTYSWDNAQVILVGNKCDL-EDERVVPAEDGRRLADDLGFEFFEASAKE 168

Query: 95  NLNVEQVFFSIARDIKQRLAD 115
           N+NV+QVF  +   I +++ +
Sbjct: 169 NINVKQVFERLVDVICEKMNE 189

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  130 bits (329), Expect = 3e-39
 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 7/113 (6%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F     WI ++      +V  +LVGNK D+   KR V   +G+  A E  + F ETSAK 
Sbjct: 104 FQQTTKWIDDVRTERGSDVIIMLVGNKTDL-ADKRQVSIEEGERKAKELNVMFIETSAKA 162

Query: 95  NLNVEQVFFSIARDIKQRLADTD-SRSEPSTIKINQPDQAGGVGQAAQKSACC 146
             NV+Q+F  +A  +    +  D SR +   IK+ +P +     Q   +  C 
Sbjct: 163 GYNVKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQE-----QPVSEGGCL 210

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  130 bits (328), Expect = 4e-39
 Identities = 34/83 (40%), Positives = 48/83 (57%), Gaps = 5/83 (6%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMD-----ESKRAVPTSKGQALADEYGIKFFE 89
           F +IR W+  IE  A + V  +LVGNKAD+      E ++ VP   G+ LA  YG  F E
Sbjct: 116 FLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCE 175

Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           TSAK   N+ +    +AR++K+R
Sbjct: 176 TSAKDGSNIVEAVLHLAREVKKR 198

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  130 bits (329), Expect = 4e-39
 Identities = 36/109 (33%), Positives = 66/109 (60%), Gaps = 3/109 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK 
Sbjct: 108 FTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKN 165

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKS 143
           + NV ++FF++A+ I++++         +  + N    +G  G +++ +
Sbjct: 166 DDNVNEIFFTLAKLIQEKIDSNKLVGVGNGKEGNISINSGS-GNSSKSN 213

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  129 bits (327), Expect = 5e-39
 Identities = 33/79 (41%), Positives = 56/79 (70%), Gaps = 1/79 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+ + +W+ +  QH+S N+  +L+GNK+D+ ES+R V   +G+A A E+G+ F ETSAKT
Sbjct: 109 FNHLTSWLEDARQHSSSNMVIMLIGNKSDL-ESRRDVKREEGEAFAREHGLIFMETSAKT 167

Query: 95  NLNVEQVFFSIARDIKQRL 113
             NVE+ F + A++I +++
Sbjct: 168 ACNVEEAFINTAKEIYRKI 186

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  129 bits (326), Expect = 7e-39
 Identities = 36/80 (45%), Positives = 57/80 (71%), Gaps = 1/80 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++++ W++ I+++AS+NVNK+LVGNK D+  +K+ V  +  +  AD  GI F ETSAK 
Sbjct: 121 FNNVKQWLQEIDRYASENVNKLLVGNKCDL-TTKKVVDYTTAKEFADSLGIPFLETSAKN 179

Query: 95  NLNVEQVFFSIARDIKQRLA 114
             NVEQ F ++A +IK+R+ 
Sbjct: 180 ATNVEQSFMTMAAEIKKRMG 199

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  128 bits (325), Expect = 1e-38
 Identities = 25/80 (31%), Positives = 47/80 (58%), Gaps = 1/80 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ +  W++ +  HA   +  +LVGNK+D+    R VPT + +  A+  G+ F ETSA  
Sbjct: 113 YAVVERWLKELYDHAEATIVVMLVGNKSDL-SQAREVPTEEARMFAENNGLLFLETSALD 171

Query: 95  NLNVEQVFFSIARDIKQRLA 114
           + NVE  F ++ ++I  +++
Sbjct: 172 STNVELAFETVLKEIFAKVS 191

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  127 bits (321), Expect = 2e-38
 Identities = 33/81 (40%), Positives = 56/81 (69%), Gaps = 2/81 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F++I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK 
Sbjct: 91  FTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKN 148

Query: 95  NLNVEQVFFSIARDIKQRLAD 115
           + NV ++FF++A+ I++++  
Sbjct: 149 DDNVNEIFFTLAKLIQEKIDS 169

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  127 bits (322), Expect = 2e-38
 Identities = 33/87 (37%), Positives = 53/87 (60%), Gaps = 2/87 (2%)

Query: 35  FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNWI  ++ HA S+N + VL GNK+D+ E +RAV   + + LA++YGI +FETSA 
Sbjct: 109 FLNVRNWISQLQMHAYSENPDIVLCGNKSDL-EDQRAVKEEEARELAEKYGIPYFETSAA 167

Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRS 120
              N+      +   I +R+  +  +S
Sbjct: 168 NGTNISHAIEMLLDLIMKRMERSVDKS 194

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  127 bits (321), Expect = 3e-38
 Identities = 30/87 (34%), Positives = 50/87 (57%), Gaps = 2/87 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +++ W+  I Q+  D+V ++LVGNK D    ++ V T      A + GI+ FETSAK 
Sbjct: 97  FVNVKRWLHEINQNC-DDVCRILVGNKNDD-PERKVVETEDAYKFAGQMGIQLFETSAKE 154

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSE 121
           N+NVE++F  I   + +   D  ++ +
Sbjct: 155 NVNVEEMFNCITELVLRAKKDNLAKQQ 181

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  127 bits (322), Expect = 3e-38
 Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 3/94 (3%)

Query: 35  FSDIRNWIRNIEQHASDN-VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F  + NW+  +E + + N +  +LVGNK D +   R V  ++G   A ++ + F E SAK
Sbjct: 103 FVKLDNWLNELETYCTRNDIVNMLVGNKIDKE--NREVDRNEGLKFARKHSMLFIEASAK 160

Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKI 127
           T   V+  F  +   I Q     +S ++ S    
Sbjct: 161 TCDGVQCAFEELVEKIIQTPGLWESENQNSGPSS 194

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  125 bits (315), Expect = 4e-37
 Identities = 28/79 (35%), Positives = 49/79 (62%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK-FFETSAK 93
           F  + +WI ++ ++A  N+ ++L+GNK+D+    R V  ++ Q+LA+ Y I    ETSAK
Sbjct: 117 FLSVPHWIEDVRKYAGSNIVQLLIGNKSDL-SELREVSLAEAQSLAEHYDILCAIETSAK 175

Query: 94  TNLNVEQVFFSIARDIKQR 112
            + NVE+ F  +A ++  R
Sbjct: 176 DSSNVEEAFLRVATELIMR 194

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  124 bits (314), Expect = 4e-37
 Identities = 28/80 (35%), Positives = 51/80 (63%), Gaps = 2/80 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-GIKFFETSAK 93
           F D+  W++ I+++AS++   +LVGNK D  E+ R +   +G+  A +  G++F E SAK
Sbjct: 114 FDDLPKWMKMIDKYASEDAELLLVGNKLDC-ETDREITRQQGEKFAQQITGMRFCEASAK 172

Query: 94  TNLNVEQVFFSIARDIKQRL 113
            N NV+++F  +  DI +++
Sbjct: 173 DNFNVDEIFLKLVDDILKKM 192

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  123 bits (311), Expect = 1e-36
 Identities = 32/107 (29%), Positives = 56/107 (52%), Gaps = 9/107 (8%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++  + F ETSA  
Sbjct: 93  YENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNNLSFIETSALD 151

Query: 95  NLNVEQVFFSIARDIKQRL--------ADTDSRSEPSTIKINQPDQA 133
           + NVE+ F +I  +I + +        A  D     + + I+ P   
Sbjct: 152 STNVEEAFKNILTEIYRIVSQKQIADRAAHDESPGNNVVDISVPPTT 198

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  123 bits (312), Expect = 2e-36
 Identities = 32/90 (35%), Positives = 55/90 (61%), Gaps = 2/90 (2%)

Query: 35  FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F ++RNW+  ++ +A  +N + VL+GNKAD+   +R V   + + LAD+YGI +FETSA 
Sbjct: 123 FLNVRNWMSQLQANAYCENPDIVLIGNKADL-PDQREVNERQARELADKYGIPYFETSAA 181

Query: 94  TNLNVEQVFFSIARDIKQRLADTDSRSEPS 123
           T  NVE+   ++   I +R+     +++  
Sbjct: 182 TGQNVEKAVETLLDLIMKRMEQCVEKTQIP 211

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  122 bits (308), Expect = 4e-36
 Identities = 27/87 (31%), Positives = 43/87 (49%), Gaps = 1/87 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ +  W+ +    AS N+  +L GNK D+ + +R V   +    A E  + F ETSA T
Sbjct: 113 YNSLAAWLTDARTLASPNIVVILCGNKKDL-DPEREVTFLEASRFAQENELMFLETSALT 171

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSE 121
             NVE+ F   AR I  ++   +   E
Sbjct: 172 GENVEEAFLKCARTILNKIDSGELDPE 198

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  121 bits (306), Expect = 7e-36
 Identities = 28/87 (32%), Positives = 44/87 (50%), Gaps = 1/87 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + NW+ +    AS N+  +L GNK D+ ++ R V   +    A E  + F ETSA T
Sbjct: 98  YNALTNWLTDARMLASQNIVIILCGNKKDL-DADREVTFLEASRFAQENELMFLETSALT 156

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSE 121
             NVE+ F   AR I  ++   +   E
Sbjct: 157 GENVEEAFVQCARKILNKIESGELDPE 183

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  122 bits (307), Expect = 1e-35
 Identities = 33/124 (26%), Positives = 57/124 (45%), Gaps = 13/124 (10%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + +  +W+  + ++A DNV   L+GNK+D+    RAVPT + +  A E  + F ETSA  
Sbjct: 101 YENCNHWLSELRENADDNVAVGLIGNKSDL-AHLRAVPTEESKTFAQENQLLFTETSALN 159

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVG------------QAAQK 142
           + NV++ F  +   I Q+++        S+   N    +   G            + A  
Sbjct: 160 SENVDKAFEELINTIYQKVSKHQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANG 219

Query: 143 SACC 146
           + CC
Sbjct: 220 NNCC 223

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  120 bits (303), Expect = 1e-35
 Identities = 21/77 (27%), Positives = 44/77 (57%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++NW++ + +   + +   +VGNK D+ E +R V   + ++ A+  G K + TSAK 
Sbjct: 94  FQKVKNWVKELRKMLGNEICLCIVGNKIDL-EKERHVSIQEAESYAESVGAKHYHTSAKQ 152

Query: 95  NLNVEQVFFSIARDIKQ 111
           N  +E++F  + + + +
Sbjct: 153 NKGIEELFLDLCKRMIE 169

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  120 bits (303), Expect = 2e-35
 Identities = 31/81 (38%), Positives = 44/81 (54%), Gaps = 5/81 (6%)

Query: 35  FSDIRNWIRNIEQHASDN-VNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F  +  WI   +QH   N + ++LVGNK D+  S   VPT   Q  AD + +  FETSAK
Sbjct: 109 FHSLPAWIEECKQHLLANDIPRILVGNKCDL-RSAIQVPTDLAQKFADTHSMPLFETSAK 167

Query: 94  T---NLNVEQVFFSIARDIKQ 111
               N +VE +F ++A  +K 
Sbjct: 168 NPNDNDHVEAIFMTLAHKLKS 188

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  120 bits (303), Expect = 2e-35
 Identities = 29/75 (38%), Positives = 47/75 (62%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++ G+ F ETSA  
Sbjct: 117 YENVERWLKELRDHADSNIVIMLVGNKSDL-RHLRAVPTDEARAFAEKNGLSFIETSALD 175

Query: 95  NLNVEQVFFSIARDI 109
           + NVE  F +I  +I
Sbjct: 176 STNVEAAFQTILTEI 190

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  119 bits (301), Expect = 2e-35
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           FS ++NW+R + QH   ++   + GNK D+    R V     +  AD     F ETSAK 
Sbjct: 94  FSTLKNWVRELRQHGPPSIVVAIAGNKCDL-TDVREVMERDAKDYADSIHAIFVETSAKN 152

Query: 95  NLNVEQVFFSIARDIKQ 111
            +N+ ++F  I+R I  
Sbjct: 153 AININELFIEISRRIPS 169

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  119 bits (301), Expect = 2e-35
 Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + +W+ +     + N   +L+GNKAD+ E++R V   + +  A+E G+ F E SAKT
Sbjct: 103 YNHLSSWLTDARNLTNPNTVIILIGNKADL-EAQRDVTYEEAKQFAEENGLLFLEASAKT 161

Query: 95  NLNVEQVFFSIARDIKQ 111
             NVE  F   A+ I Q
Sbjct: 162 GENVEDAFLEAAKKIYQ 178

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  120 bits (304), Expect = 2e-35
 Identities = 19/113 (16%), Positives = 42/113 (37%), Gaps = 4/113 (3%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
             ++  W++  +    +    V+  NK D+ ++++ +       +      ++FE SAKT
Sbjct: 100 CQNLARWVKEFQAVVGNEAPIVVCANKIDI-KNRQKISKKLVMEVLKGKNYEYFEISAKT 158

Query: 95  NLNVEQVFFSIARDIKQRLA---DTDSRSEPSTIKINQPDQAGGVGQAAQKSA 144
             N    F  +AR    R      ++   EP+ +  +             + A
Sbjct: 159 AHNFGLPFLHLARIFTGRPDLIFVSNVNLEPTEVNYDYHSPEESKYIDYMEQA 211

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  118 bits (299), Expect = 5e-35
 Identities = 31/77 (40%), Positives = 53/77 (68%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F+  +NW++ +++ AS N+   L GNKAD+  +KRAV   + Q+ AD+  + F ETSAKT
Sbjct: 94  FARAKNWVKELQRQASPNIVIALSGNKADL-ANKRAVDFQEAQSYADDNSLLFMETSAKT 152

Query: 95  NLNVEQVFFSIARDIKQ 111
           ++NV ++F +IA+ + +
Sbjct: 153 SMNVNEIFMAIAKKLPK 169

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  117 bits (297), Expect = 8e-35
 Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  I +W   +      ++   LV NK D+      +   + + LA    ++F+ TS K 
Sbjct: 93  FEAISSWREKVVAEV-GDIPTALVQNKIDL-LDDSCIKNEEAEGLAKRLKLRFYRTSVKE 150

Query: 95  NLNVEQVFFSIARDIKQR 112
           +LNV +VF  +A    Q+
Sbjct: 151 DLNVSEVFKYLAEKHLQK 168

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  119 bits (300), Expect = 9e-35
 Identities = 33/123 (26%), Positives = 59/123 (47%), Gaps = 11/123 (8%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I     F+   ++   I +    +NV  +LVGNK+D+ E KR V   + +  A+++
Sbjct: 91  CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQW 149

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKS 143
            + + ETSAKT  NV++VFF + R+I+ R  +          + +   +         + 
Sbjct: 150 NVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKKKRKSLAKR--------IRE 201

Query: 144 ACC 146
            CC
Sbjct: 202 RCC 204

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  118 bits (298), Expect = 1e-34
 Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F   + W++ ++   + N+   L GNK+D+    R V     Q  A E G+ F ETSAKT
Sbjct: 100 FERAKKWVQELQAQGNPNMVMALAGNKSDL-LDARKVTAEDAQTYAQENGLFFMETSAKT 158

Query: 95  NLNVEQVFFSIARDIKQ 111
             NV+++F+ IAR + +
Sbjct: 159 ATNVKEIFYEIARRLPR 175

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  118 bits (297), Expect = 1e-34
 Identities = 28/75 (37%), Positives = 40/75 (53%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F     WI ++      +V  +LVGNK D+   KR V T +G+  A E  + F ETSAK 
Sbjct: 102 FHQTSKWIDDVRTERGSDVIIMLVGNKTDL-SDKRQVSTEEGERKAKELNVMFIETSAKA 160

Query: 95  NLNVEQVFFSIARDI 109
             NV+Q+F  +A  +
Sbjct: 161 GYNVKQLFRRVAAAL 175

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  118 bits (297), Expect = 1e-34
 Identities = 24/78 (30%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++ W++ +++H  +N+   + GNK D+    R VP    +  A+  G    ETSAK 
Sbjct: 111 FYTLKKWVKELKEHGPENIVMAIAGNKCDL-SDIREVPLKDAKEYAESIGAIVVETSAKN 169

Query: 95  NLNVEQVFFSIARDIKQR 112
            +N+E++F  I+R I   
Sbjct: 170 AINIEELFQGISRQIPPL 187

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  116 bits (292), Expect = 5e-34
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           FS +   +  +       ++  +LVGNK+D+    R V   +G+ LA     K  ETSA 
Sbjct: 91  FSKVPETLLRLRAGRPHHDLPVILVGNKSDL-ARSREVSLEEGRHLAGTLSCKHIETSAA 149

Query: 94  TNLNVEQVFFSIARDIKQR 112
            + N  ++F    R I+ R
Sbjct: 150 LHHNTRELFEGAVRQIRLR 168

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  115 bits (291), Expect = 6e-34
 Identities = 32/89 (35%), Positives = 52/89 (58%), Gaps = 3/89 (3%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I     F+   ++   I +    +NV  +LVGNK+D+ E KR V   + +  AD++
Sbjct: 81  CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL-EDKRQVSVEEAKNRADQW 139

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQR 112
            + + ETSAKT  NV++VFF + R+I+ R
Sbjct: 140 NVNYVETSAKTRANVDKVFFDLMREIRAR 168

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  116 bits (292), Expect = 1e-33
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           FS +   +  +       ++  +LVGNK+D+    R V   +G+ LA     K  ETSA 
Sbjct: 112 FSKVPETLLRLRAGRPHHDLPVILVGNKSDL-ARSREVSLEEGRHLAGTLSCKHIETSAA 170

Query: 94  TNLNVEQVFFSIARDIKQR 112
            + N  ++F    R I+ R
Sbjct: 171 LHHNTRELFEGAVRQIRLR 189

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  115 bits (290), Expect = 2e-33
 Identities = 31/89 (34%), Positives = 52/89 (58%), Gaps = 3/89 (3%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I     F+   ++   I +    +NV  +LVGNK+D+ E KR V   + +  A+++
Sbjct: 95  CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDL-EDKRQVSVEEAKNRAEQW 153

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQR 112
            + + ETSAKT  NV++VFF + R+I+ R
Sbjct: 154 NVNYVETSAKTRANVDKVFFDLMREIRAR 182

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  115 bits (290), Expect = 3e-33
 Identities = 32/117 (27%), Positives = 57/117 (48%), Gaps = 11/117 (9%)

Query: 35  FSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET 90
           F  + +W       AS    +N   V++GNK D+ E+++            +  I +FET
Sbjct: 96  FKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL-ENRQVATKRAQAWCYSKNNIPYFET 154

Query: 91  SAKTNLNVEQVFFSIARDIKQRLADTDSRSE-PSTIKINQPDQAGGVGQAAQKSACC 146
           SAK  +NVEQ F +IAR+  ++  + +  +E P  IK+++ ++A          +C 
Sbjct: 155 SAKEAINVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNERAKA-----SAESCS 206

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  114 bits (288), Expect = 3e-33
 Identities = 31/83 (37%), Positives = 43/83 (51%), Gaps = 5/83 (6%)

Query: 35  FSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFE 89
           F +I++W      HA+    +    V++GNK D +ESK+ V     Q LA   G I  F 
Sbjct: 97  FENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFL 156

Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           TSAK  +NV+  F  IAR   Q+
Sbjct: 157 TSAKNAINVDTAFEEIARSALQQ 179

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  113 bits (286), Expect = 4e-33
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F         + +   +D+V  +LVGNK+D+    R V   +G+A A  +  KF ETSA 
Sbjct: 88  FEKASELRVQLRRARQTDDVPIILVGNKSDL-VRSREVSVDEGRACAVVFDCKFIETSAA 146

Query: 94  TNLNVEQVFFSIARDIKQR 112
            + NV+ +F  + R I+ R
Sbjct: 147 LHHNVQALFEGVVRQIRLR 165

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  113 bits (286), Expect = 5e-33
 Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 28  YKIASYH-FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
           Y + S   F  I+     + +      +  +LVGNK D+   +R +   +G+ALA+ +  
Sbjct: 85  YSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL-HMERVISYEEGKALAESWNA 143

Query: 86  KFFETSAKTNLNVEQVFFSIARDIKQR 112
            F E+SAK N     VF  I  + ++ 
Sbjct: 144 AFLESSAKENQTAVDVFRRIILEAEKM 170

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  113 bits (284), Expect = 9e-33
 Identities = 28/83 (33%), Positives = 42/83 (50%), Gaps = 2/83 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F         +   H +D+V  +LVGNKAD+    R V   +G+A A  +  KF ETSA 
Sbjct: 93  FESASELRIQLRRTHQADHVPIILVGNKADL-ARCREVSVEEGRACAVVFDCKFIETSAT 151

Query: 94  TNLNVEQVFFSIARDIKQRLADT 116
              NV ++F  + R ++ R  D+
Sbjct: 152 LQHNVAELFEGVVRQLRLRRRDS 174

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  113 bits (284), Expect = 1e-32
 Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 3/89 (3%)

Query: 26  CTYKIASYH-FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
             + I     F+++      I      D+   VLVGNKAD+ ES+R VP S+  A    +
Sbjct: 86  LVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL-ESQRQVPRSEASAFGASH 144

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQR 112
            + +FE SAK  LNV++ F  + R +++ 
Sbjct: 145 HVAYFEASAKLRLNVDEAFEQLVRAVRKY 173

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  113 bits (285), Expect = 1e-32
 Identities = 37/89 (41%), Positives = 51/89 (57%), Gaps = 4/89 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I +   F+DI  +   I++   SD+V  VLVGNK D+    R V T +   LA  Y
Sbjct: 98  CVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT--RTVDTKQAHELAKSY 155

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           GI F ETSAKT   VE  F+++ R+I+Q 
Sbjct: 156 GIPFIETSAKTRQGVEDAFYTLVREIRQY 184

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  113 bits (285), Expect = 1e-32
 Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 3/89 (3%)

Query: 26  CTYKIASYH-FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
             Y + S H F  I +  + + E H    V  VLVGNKAD+   +R V   +G+ LA+ +
Sbjct: 101 LVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADL-SPEREVQAVEGKKLAESW 159

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           G  F E+SA+ N   + +F  + ++I + 
Sbjct: 160 GATFMESSARENQLTQGIFTKVIQEIARV 188

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  112 bits (283), Expect = 1e-32
 Identities = 25/80 (31%), Positives = 42/80 (52%), Gaps = 3/80 (3%)

Query: 35  FSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
             +++     I +     +++  +LVGNK D     R V +S+ +ALA  +   F ETSA
Sbjct: 90  LEELKPIYEQICEIKGDVESIPIMLVGNKCDE-SPSREVQSSEAEALARTWKCAFMETSA 148

Query: 93  KTNLNVEQVFFSIARDIKQR 112
           K N NV+++F  +    K+R
Sbjct: 149 KLNHNVKELFQELLNLEKRR 168

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  112 bits (282), Expect = 1e-32
 Identities = 32/77 (41%), Positives = 47/77 (61%), Gaps = 2/77 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F DI+     I      + V  +LVGNK D+ ES+R V +S+G+ALA+E+G  F ETSAK
Sbjct: 90  FQDIKPMRDQIIRVKRYEKVPVILVGNKVDL-ESEREVSSSEGRALAEEWGCPFMETSAK 148

Query: 94  TNLNVEQVFFSIARDIK 110
           +   V+++F  I R + 
Sbjct: 149 SKTMVDELFAEIVRQMN 165

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  111 bits (281), Expect = 2e-32
 Identities = 36/88 (40%), Positives = 52/88 (59%), Gaps = 4/88 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I +   F DI  +   I++   SD+V  VLVGNK+D+    R V + + Q LA  Y
Sbjct: 80  CVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA--RTVESRQAQDLARSY 137

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQ 111
           GI + ETSAKT   VE  F+++ R+I+Q
Sbjct: 138 GIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  112 bits (282), Expect = 5e-32
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F         +     ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA 
Sbjct: 127 FEKASELRIQLRRARQTEDIPIILVGNKSDL-VRCREVSVSEGRACAVVFDCKFIETSAA 185

Query: 94  TNLNVEQVFFSIARDIKQR 112
              NV+++F  I R ++ R
Sbjct: 186 VQHNVKELFEGIVRQVRLR 204

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  111 bits (280), Expect = 7e-32
 Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 4/85 (4%)

Query: 35  FSDIRNWIRNIEQ---HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91
           F   + W   ++         +  VLV NK D+   +  V     Q  A    + FF+ S
Sbjct: 112 FESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVS 171

Query: 92  AK-TNLNVEQVFFSIARDIKQRLAD 115
           A     + +  F SIA    +   D
Sbjct: 172 ANPPGKDADAPFLSIATTFYRNYED 196

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  111 bits (279), Expect = 8e-32
 Identities = 36/103 (34%), Positives = 54/103 (52%), Gaps = 4/103 (3%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           C + I +   F DI ++   I++   S++V  VLVGNK D+    R V T + Q LA  Y
Sbjct: 81  CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS--RTVDTKQAQDLARSY 138

Query: 84  GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIK 126
           GI F ETSAKT   V+  F+++ R+I++         +    K
Sbjct: 139 GIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKK 181

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  110 bits (278), Expect = 8e-32
 Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 4/90 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
             Y +     F  +  + + I +    ++   +LV NK D+    R V   +G+ +A +Y
Sbjct: 95  IVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDL-MHLRKVTRDQGKEMATKY 153

Query: 84  GIKFFETSAKTN-LNVEQVFFSIARDIKQR 112
            I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 154 NIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  110 bits (278), Expect = 1e-31
 Identities = 29/114 (25%), Positives = 49/114 (42%), Gaps = 13/114 (11%)

Query: 35  FSDIRNWIRNIEQ--HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
             ++    + I Q   + +++  +LVGNK D  +  R V T + QA+A E+   F ETSA
Sbjct: 95  LEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ--REVDTREAQAVAQEWKCAFMETSA 152

Query: 93  KTNLNVEQVFFSIARDIKQRLADTDSRSEPSTIKINQPDQAGGVGQAAQKSACC 146
           K N NV+++F  +     +R    +   + S  +               K  C 
Sbjct: 153 KMNYNVKELFQELLTLETRRNMSLNIDGKRSGKQKRTDR---------VKGKCT 197

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  109 bits (274), Expect = 3e-31
 Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 4/78 (5%)

Query: 35  FSDIRNWIRNIEQ---HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91
           F ++ +W   +++    +       LVGNK D+ E  R +   K      E G      S
Sbjct: 95  FENLEDWYTVVKKVSEESETQPLVALVGNKIDL-EHMRTIKPEKHLRFCQENGFSSHFVS 153

Query: 92  AKTNLNVEQVFFSIARDI 109
           AKT  +V   F  +A +I
Sbjct: 154 AKTGDSVFLCFQKVAAEI 171

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  109 bits (274), Expect = 5e-31
 Identities = 28/88 (31%), Positives = 48/88 (54%), Gaps = 4/88 (4%)

Query: 28  YKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
           Y I     F ++      +++     NV  +LVGNKAD+ +  R V T +G+ LA E   
Sbjct: 106 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADL-DHSRQVSTEEGEKLATELAC 164

Query: 86  KFFETSAKTN-LNVEQVFFSIARDIKQR 112
            F+E SA T   N+ ++F+ + R++++R
Sbjct: 165 AFYECSACTGEGNITEIFYELCREVRRR 192

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  107 bits (270), Expect = 8e-31
 Identities = 29/89 (32%), Positives = 52/89 (58%), Gaps = 4/89 (4%)

Query: 26  CTYKIASYH-FSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
             Y I +   F+D+++    I +   +++V  +LVGNK D+ E +R V   +GQ LA ++
Sbjct: 80  LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDL-EDERVVGKEQGQNLARQW 138

Query: 84  -GIKFFETSAKTNLNVEQVFFSIARDIKQ 111
               F E+SAK+ +NV ++F+ + R I +
Sbjct: 139 CNCAFLESSAKSKINVNEIFYDLVRQINR 167

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  106 bits (268), Expect = 3e-30
 Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 7/83 (8%)

Query: 35  FSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFE 89
           F ++ NW +    +A     ++   V++GNK D+ E  R V T + QA   + G   +FE
Sbjct: 95  FQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE--RQVSTEEAQAWCRDNGDYPYFE 152

Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           TSAK   NV   F    R +   
Sbjct: 153 TSAKDATNVAAAFEEAVRRVLAT 175

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  106 bits (267), Expect = 5e-30
 Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 12/103 (11%)

Query: 22  RFKY--------CTYKIASYH-FSDIRNWIRNIEQHA-SDNVNKVLVGNKADMD-ESKRA 70
             ++          + +     F  + N+   +     +  V  VLVG +  +   + R 
Sbjct: 79  ELQFAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRV 138

Query: 71  VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR 112
           +  S+ + L+ +     ++ET A   LNVE+VF  +A+ +   
Sbjct: 139 IDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL 181

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  106 bits (265), Expect = 1e-29
 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 4/81 (4%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
               + W+  +    S N   +LV NK D +  K  V   + Q  A +  + F +TSAKT
Sbjct: 132 LDRAKTWVNQL--KISSNYIIILVANKIDKN--KFQVDILEVQKYAQDNNLLFIQTSAKT 187

Query: 95  NLNVEQVFFSIARDIKQRLAD 115
             N++ +F+ +A +I + + +
Sbjct: 188 GTNIKNIFYMLAEEIYKNIIN 208

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  105 bits (263), Expect = 4e-29
 Identities = 23/102 (22%), Positives = 47/102 (46%), Gaps = 7/102 (6%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           + ++ NW R++ +   +N+  VL GNK D+ + K     +K      +  +++++ SAK+
Sbjct: 103 YKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRK---VKAKSIVFHRKKNLQYYDISAKS 158

Query: 95  NLNVEQVFFSIARDIKQRLADTDSRS---EPSTIKINQPDQA 133
           N N E+ F  +AR +               P  + ++    A
Sbjct: 159 NYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAA 200

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  103 bits (258), Expect = 1e-28
 Identities = 27/89 (30%), Positives = 46/89 (51%), Gaps = 6/89 (6%)

Query: 28  YKIASYH-FSDIRNWIRNIEQHASD---NVNKVLVGNKADMDESKRAVPTSKGQALADEY 83
           Y + S   F    +++  +  HA +   ++  +L+GNK DM    R V  ++G ALA  +
Sbjct: 99  YSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDM-AQYRQVTKAEGVALAGRF 157

Query: 84  GIKFFETSAKTNL-NVEQVFFSIARDIKQ 111
           G  FFE SA  +  +V+ VF    R+ ++
Sbjct: 158 GCLFFEVSACLDFEHVQHVFHEAVREARR 186

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  102 bits (256), Expect = 2e-28
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 35  FSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
           F         +     ++++  +LVGNK+D+    R V  S+G+A A  +  KF ETSA 
Sbjct: 96  FEKASELRIQLRRARQTEDIPIILVGNKSDL-VRXREVSVSEGRAXAVVFDXKFIETSAA 154

Query: 94  TNLNVEQVFFSIARDIKQR 112
              NV+++F  I R ++ R
Sbjct: 155 VQHNVKELFEGIVRQVRLR 173

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 97.4 bits (242), Expect = 8e-26
 Identities = 19/82 (23%), Positives = 41/82 (50%), Gaps = 3/82 (3%)

Query: 31  ASYHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE 89
            + +F D   ++ N+    +      V+V  K D    +R +  +   AL+ +  ++  E
Sbjct: 176 MNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDE-GVERYIRDAHTFALSKK-NLQVVE 233

Query: 90  TSAKTNLNVEQVFFSIARDIKQ 111
           TSA++N+NV+  F ++ + I +
Sbjct: 234 TSARSNVNVDLAFSTLVQLIDK 255

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score = 88.7 bits (220), Expect = 3e-23
 Identities = 32/80 (40%), Positives = 46/80 (57%), Gaps = 2/80 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKAD--MDESKRAVPTSKGQALADEYGIKFFETSA 92
           F   R+W++ + + AS ++   LVGNK D   +  +R V   +G+ LA+E G+ FFETSA
Sbjct: 91  FIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSA 150

Query: 93  KTNLNVEQVFFSIARDIKQR 112
           KT  NV  VF  I   I  +
Sbjct: 151 KTGENVNDVFLGIGEKIPLK 170

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score = 86.1 bits (214), Expect = 3e-22
 Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 5/83 (6%)

Query: 35  FSDIRNW---IRNIEQHASDNVNKVLVGNKADMD-ESKRAVPTSKGQAL-ADEYGIKFFE 89
           F  +      + ++       +   LVG +  +   S R V  ++ +AL AD     ++E
Sbjct: 88  FQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYE 147

Query: 90  TSAKTNLNVEQVFFSIARDIKQR 112
           T A   LNV++VF  +A+ +   
Sbjct: 148 TXATYGLNVDRVFQEVAQKVVTL 170

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score = 83.9 bits (208), Expect = 3e-21
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 8/84 (9%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK--RAVPTSKGQALADEYGI-----KF 87
              ++ W+ NI+  AS +   +LVG   D+ + K  +A  +   + L ++ G        
Sbjct: 96  VDAMKPWLFNIKARASSSP-VILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYH 154

Query: 88  FETSAKTNLNVEQVFFSIARDIKQ 111
           F  + + +  + ++  +I  +   
Sbjct: 155 FVNATEESDALAKLRKTIINESLN 178

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 85.4 bits (211), Expect = 2e-20
 Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 2/77 (2%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
            S+   W+R+IE++   +   ++V NK D +     +   K          +F   S K 
Sbjct: 134 DSNKHYWLRHIEKYGGKSP-VIVVMNKIDENP-SYNIEQKKINERFPAIENRFHRISCKN 191

Query: 95  NLNVEQVFFSIARDIKQ 111
              VE +  S+   +  
Sbjct: 192 GDGVESIAKSLKSAVLH 208

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score = 71.6 bits (176), Expect = 2e-16
 Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADM-DESKRAVPTSKGQALADEYG-IKFFETSAKTNLNV 98
           W   I +H  D    VLVG K D+  +    V   +G  L  + G + + E S+   + +
Sbjct: 117 WEPEI-KHYIDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGL 175

Query: 99  EQVFFSIAR 107
            +VF     
Sbjct: 176 NEVFEKSVD 184

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score = 65.8 bits (161), Expect = 2e-14
 Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 12/84 (14%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADMDESKRA---------VPTSKGQALADEYG 84
           + ++   WI  + +H +  V  VLVG K D+ + K+          + T +G+ L    G
Sbjct: 95  YENVSKKWIPEL-KHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIG 153

Query: 85  -IKFFETSAKTNLNVEQVFFSIAR 107
              + E S+K+  NV+ VF +  R
Sbjct: 154 APAYIECSSKSQENVKGVFDAAIR 177

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score = 63.6 bits (155), Expect = 2e-13
 Identities = 21/79 (26%), Positives = 32/79 (40%), Gaps = 13/79 (16%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADMDESK-----------RAVPTSKGQALADEYG-IKFF 88
           W   +  H    V  ++VG K D+ + K             V   +GQ +A   G + + 
Sbjct: 128 WYPEV-NHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYL 186

Query: 89  ETSAKTNLNVEQVFFSIAR 107
           E SA+ + NV  VF   A 
Sbjct: 187 ECSARLHDNVHAVFQEAAE 205

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score = 61.6 bits (150), Expect = 1e-12
 Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-------DESKRAVPTSKGQALADEYG-I 85
           + ++   W+  + +  + NV  VLVG K D+        +    + +++G+ L  + G  
Sbjct: 96  YENVLKKWMPEL-RRFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAA 154

Query: 86  KFFETSAKTNLNVEQVFFSIARDI 109
            + E S+KT  NV+ VF +  + +
Sbjct: 155 AYIECSSKTQQNVKAVFDTAIKVV 178

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 14/86 (16%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADE 82
             +I   W   ++     NV  +LVGNK D+              +  V + +G+ +A+ 
Sbjct: 112 LENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANR 170

Query: 83  YG-IKFFETSAKTNLNVEQVFFSIAR 107
                + E SAKT   V +VF    R
Sbjct: 171 ISAFGYLECSAKTKEGVREVFEMATR 196

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 14/86 (16%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADE 82
             +I   W+  ++     NV  +LV NK D+              +  V T  G+A+A  
Sbjct: 112 LENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVR 170

Query: 83  YG-IKFFETSAKTNLNVEQVFFSIAR 107
                + E SAKT   V +VF +  R
Sbjct: 171 IQAYDYLECSAKTKEGVREVFETATR 196

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 58.6 bits (142), Expect = 1e-11
 Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 13/74 (17%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADEYG-IKFF 88
           W   + +H   N   +LVG K D+           ++    +   +G A+A E G +K+ 
Sbjct: 124 WYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYL 182

Query: 89  ETSAKTNLNVEQVF 102
           E SA T   ++ VF
Sbjct: 183 ECSALTQRGLKTVF 196

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 57.5 bits (139), Expect = 3e-11
 Identities = 27/116 (23%), Positives = 47/116 (40%), Gaps = 20/116 (17%)

Query: 4   LRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKAD 63
           LR L +       ++++C   +     AS+  +    W   +  H   N   +LVG K D
Sbjct: 69  LRPLSYPQTD---VSLIC---FSLVSPASFE-NVRAKWYPEVRHHCP-NTPIILVGTKLD 120

Query: 64  M-----------DESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIAR 107
           +           ++    +   +G A+A E G +K+ E SA T   ++ VF    R
Sbjct: 121 LRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 176

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 56.3 bits (136), Expect = 9e-11
 Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 22/112 (19%)

Query: 4   LRCLCFIGVYPP-YLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKA 62
           LR LC    Y    + +LC   +     +S+  +    W+  I +        +LVG ++
Sbjct: 84  LRPLC----YTNTDIFLLC---FSVVSPSSFQ-NVSEKWVPEI-RCHCPKAPIILVGTQS 134

Query: 63  DM-----------DESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVF 102
           D+              ++ VP    + LA+E     + E SA T  N+++VF
Sbjct: 135 DLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 53.7 bits (129), Expect = 1e-09
 Identities = 28/116 (24%), Positives = 47/116 (40%), Gaps = 20/116 (17%)

Query: 4   LRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKAD 63
           LR L     YP     L  F       AS+  +    W+  ++++ + NV  +L+G + D
Sbjct: 82  LRPLS----YPMTDVFLICF--SVVNPASFQ-NVKEEWVPELKEY-APNVPFLLIGTQID 133

Query: 64  M-----------DESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIAR 107
           +           D  ++ +   +GQ LA E G   + E SA T   ++ VF     
Sbjct: 134 LRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII 189

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 53.2 bits (128), Expect = 2e-09
 Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 15/82 (18%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADE 82
              +   W   I++    N   +LVG K+D+           +  +  V   +G  +A +
Sbjct: 115 LDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQ 173

Query: 83  YG-IKFFETSAKTNLN-VEQVF 102
            G   + E SA  + N V  +F
Sbjct: 174 IGAATYIECSALQSENSVRDIF 195

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 52.0 bits (125), Expect = 3e-09
 Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 15/82 (18%)

Query: 35  FSDIRN-WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADE 82
              +   W   I++    N   +LVG K+D+           +  +  V   +G  +A +
Sbjct: 94  LDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQ 152

Query: 83  YG-IKFFETSAKTNLN-VEQVF 102
            G   + E SA  + N V  +F
Sbjct: 153 IGAATYIECSALQSENSVRDIF 174

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 52.3 bits (125), Expect = 5e-09
 Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 13/74 (17%)

Query: 41  WIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADEYG-IKFF 88
           W   +  H   N   +LVG K D+           ++    +   +G A+A E G +K+ 
Sbjct: 249 WYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYL 307

Query: 89  ETSAKTNLNVEQVF 102
           E SA T   ++ VF
Sbjct: 308 ECSALTQRGLKTVF 321

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 49.9 bits (119), Expect = 2e-08
 Identities = 16/94 (17%), Positives = 37/94 (39%), Gaps = 14/94 (14%)

Query: 40  NWIRNIEQHASDNVNKVLVGNKADM-----------DESKRAVPTSKGQALADEYG-IKF 87
            W   I  +   +   +L+G K D+            + +  +   +G A+A + G   +
Sbjct: 120 KWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIY 178

Query: 88  FETSAKTN-LNVEQVFFSIARDIKQRLADTDSRS 120
            E SA T+  ++  +F + +     + +    +S
Sbjct: 179 LEGSAFTSEKSIHSIFRTASMLCLNKPSPLPQKS 212

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	149
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.95
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.85
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.82
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.81
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.79
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.78
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.77
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.77
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.77
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.77
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.76
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.76
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.76
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.75
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.75
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.75
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.75
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.75
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.74
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.74
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.74
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.74
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.74
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.74
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.74
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.74
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.74
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.74
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.74
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.73
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.73
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.73
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.73
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.73
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.73
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.73
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.72
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.72
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.72
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.72
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.72
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.72
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.72
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.72
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.71
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.71
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.71
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.71
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.71
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.71
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.7
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.7
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.7
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.7
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.7
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.7
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.7
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.7
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.69
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.69
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.69
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.69
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.68
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.68
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.67
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.67
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.67
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.67
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.67
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.66
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.66
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.66
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.66
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.66
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.65
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.65
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.65
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.64
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.64
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.63
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.63
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.62
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.61
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.61
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.61
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.59
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.59
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.59
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.59
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.58
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.57
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.57
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.57
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.57
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.56
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.56
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.56
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.55
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.54
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.53
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.26
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.49
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.49
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.48
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.46
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.46
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.43
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.43
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.41
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.4
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.4
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.39
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.39
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.38
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.37
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.33
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.33
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.32
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.32
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.31
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.29
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.29
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.27
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.26
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.23
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.21
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.2
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.19
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.16
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.16
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.16
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.14
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.12
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.12
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.1
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.99
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.96
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.96
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.96
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.96
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.94
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.94
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.94
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.9
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.89
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.85
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.85
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.82
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.8
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.79
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.79
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.78
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.73
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.72
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.69
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.69
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.68
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.67
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.65
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.65
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.64
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.64
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.59
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.57
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.56
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.56
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.56
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.55
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.55
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.53
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.49
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.47
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.45
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.44
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.42
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.41
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.41
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.37
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.31
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.31
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.3
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.29
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.27
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.25
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.24
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.22
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.16
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.15
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.14
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.14
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.13
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.12
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.11
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.09
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.08
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.04
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.04
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.02
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.92
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.88
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.71
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.68
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.64
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.59
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.53
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.16
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.1
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.09
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.02
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.82
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.8
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.54
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.08
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	95.29
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	91.65
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	85.34

>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=99.95  E-value=5e-27  Score=169.58  Aligned_cols=107  Identities=30%  Similarity=0.479  Sum_probs=95.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-|+|+++++.||+++++ +++|||+++ .||+.+..|+..+....++++|+++||||+|+. ..+.+..+++..+++.+
T Consensus        71 Gqe~~~~l~~~~~~~a~~-~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~-~~r~V~~~e~~~~a~~~  148 (216)
T 4dkx_A           71 GLERFRSLIPSYIRDSAA-AVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-DKRQVSIEEGERKAKEL  148 (216)
T ss_dssp             CTTTCGGGHHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CchhhhhHHHHHhccccE-EEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchH-hcCcccHHHHhhHHHHh
Confidence            568999999999998877 788999998 999999999999988777889999999999997 67888999999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.||+++|..|++.+....
T Consensus       149 ~~~~~e~SAktg~nV~e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          149 NVMFIETSAKAGYNVKQLFRRVAAALPGME  178 (216)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHHC----
T ss_pred             CCeeEEEeCCCCcCHHHHHHHHHHHHHhhh
Confidence            999999999999999999999999887543

>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=99.85  E-value=2.4e-20  Score=132.32  Aligned_cols=107  Identities=31%  Similarity=0.497  Sum_probs=93.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        66 G~~~~~~~~~~~~~~~d~-vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  143 (206)
T 2bcg_Y           66 GQERFRTITSSYYRGSHG-IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK-DKRVVEYDVAKEFADAN  143 (206)
T ss_dssp             TTTTTTCCCGGGGTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHhccCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHc
Confidence            457789999999988765 788889987 899999999999988766789999999999997 55667777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|.+|++.+.+..
T Consensus       144 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          144 KMPFLETSALDSTNVEDAFLTMARQIKESM  173 (206)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999987764

>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=99.82  E-value=1.3e-19  Score=128.11  Aligned_cols=107  Identities=29%  Similarity=0.494  Sum_probs=91.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+.+.+. +++|||+++ .+|..+..|+..+..... .++|+++|+||+|+. ..+.+...++..++..
T Consensus        71 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  148 (206)
T 2bov_A           71 GQEDYAAIRDNYFRSGEG-FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRAEQ  148 (206)
T ss_dssp             CTTCCHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             ChhhhHHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcc-ccccccHHHHHHHHHH
Confidence            456788899999988766 788889997 899999999999987653 579999999999997 5556777788888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .+.+++++||++|.|++++|++|++.+.+..
T Consensus       149 ~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          149 WNVNYVETSAKTRANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             HTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             hCCeEEEEeCCCCCCHHHHHHHHHHHHHHcc
Confidence            8999999999999999999999999987653

>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=99.81  E-value=1.1e-19  Score=128.54  Aligned_cols=135  Identities=27%  Similarity=0.394  Sum_probs=91.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+..+.....    .++|+++|+||+|+.  .+.+....+..+
T Consensus        66 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~  142 (207)
T 1vg8_A           66 GQERFQSLGVAFYRGADC-CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE--NRQVATKRAQAW  142 (207)
T ss_dssp             SSGGGSCSCCGGGTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS--CCCSCHHHHHHH
T ss_pred             CcHHHHHhHHHHHhCCcE-EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc--ccccCHHHHHHH
Confidence            457888999999988766 788889987 899999999999876542    468999999999997  344556667777


Q ss_pred             HH-HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC-CCCCCCCcccccCCCCCCCCCCCCCCCCccC
Q 032001           80 AD-EYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADT-DSRSEPSTIKINQPDQAGGVGQAAQKSACCG  147 (149)
Q Consensus        80 ~~-~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cc~  147 (149)
                      +. ..+.+++++||++|.|++++|++|++.+.+..... .....+.++++++...     +.+++++|||
T Consensus       143 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~c~c  207 (207)
T 1vg8_A          143 CYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNER-----AKASAESCSC  207 (207)
T ss_dssp             HHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHHHHHHHHHSCCCC----------------------
T ss_pred             HHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhccccccccCCCccccCCcccc-----cccCCCCCCC
Confidence            76 56789999999999999999999999887654322 1111234455553221     2355567766

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.79  E-value=9.4e-19  Score=125.84  Aligned_cols=107  Identities=28%  Similarity=0.456  Sum_probs=89.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++++. +|+|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        71 G~~~~~~~~~~~~~~~d~-vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~  148 (223)
T 3cpj_B           71 GQERYRAITSAYYRGAVG-ALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLA-HLRAVPTEESKTFAQEN  148 (223)
T ss_dssp             TTTTTTCCCGGGTTTCCE-EEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CccchhhhHHHHhccCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            457899999999988766 788889987 899999999999987765689999999999997 55566777788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.||+++|++|++.+.+..
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            999999999999999999999999887654

>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=99.78  E-value=3.9e-18  Score=118.47  Aligned_cols=108  Identities=46%  Similarity=0.757  Sum_probs=82.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        66 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~  143 (183)
T 2fu5_C           66 GQERFRTITTAYYRGAMG-IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-DKRQVSKERGEKLALDY  143 (183)
T ss_dssp             --------CCTTTTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-SCCCSCHHHHHHHHHHH
T ss_pred             CChhhhhhHHHHHhcCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCC-ccCcCCHHHHHHHHHHc
Confidence            456788999999988766 788889987 899999999999988765689999999999997 55667777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|.+|++.+.+...
T Consensus       144 ~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~~  174 (183)
T 2fu5_C          144 GIKFMETSAKANINVENAFFTLARDIKAKMD  174 (183)
T ss_dssp             TCEEEECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999877654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.77  E-value=1.2e-17  Score=116.93  Aligned_cols=108  Identities=36%  Similarity=0.611  Sum_probs=94.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        74 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~  151 (196)
T 3tkl_A           74 GQERFRTITSSYYRGAHG-IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-TKKVVDYTTAKEFADSL  151 (196)
T ss_dssp             CSGGGCTTHHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHT
T ss_pred             CcHhhhhhHHHHHhhCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            457889999999988766 788889987 899999999999988776789999999999997 66677778888899999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +.+++++||++|.|++++|.+|++.+.+...
T Consensus       152 ~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~  182 (196)
T 3tkl_A          152 GIPFLETSAKNATNVEQSFMTMAAEIKKRMG  182 (196)
T ss_dssp             TCCEEEECTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             CCcEEEEeCCCCCCHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999987644

>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=99.77  E-value=4.2e-18  Score=119.45  Aligned_cols=108  Identities=33%  Similarity=0.548  Sum_probs=93.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        81 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  158 (191)
T 3dz8_A           81 GQERYRTITTAYYRGAMG-FILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDME-EERVVPTEKGQLLAEQL  158 (191)
T ss_dssp             HHHHCHHHHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHc
Confidence            346788889999988766 788889997 899999999999988766789999999999997 55667778888889999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|++|++.+.+...
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          159 GFDFFEASAKENISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999877643

>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=99.77  E-value=1.5e-17  Score=116.64  Aligned_cols=108  Identities=33%  Similarity=0.572  Sum_probs=93.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        79 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~  156 (191)
T 2a5j_A           79 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-SRRDVKREEGEAFAREH  156 (191)
T ss_dssp             TGGGTSCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CchhhhhhHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-CccccCHHHHHHHHHHc
Confidence            457889999999988766 788889987 899999999999988766789999999999997 55567777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|++|++.+.+...
T Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  187 (191)
T 2a5j_A          157 GLIFMETSAKTACNVEEAFINTAKEIYRKIQ  187 (191)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999887653

>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=99.77  E-value=7.9e-18  Score=119.31  Aligned_cols=107  Identities=30%  Similarity=0.483  Sum_probs=93.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        87 G~~~~~~~~~~~~~~~d~-iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~  164 (201)
T 2hup_A           87 GQERFRTITQSYYRSANG-AILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLS-ELREVSLAEAQSLAEHY  164 (201)
T ss_dssp             TCGGGHHHHHHHHTTCSE-EEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CcHhHHHHHHHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccc-cccccCHHHHHHHHHHc
Confidence            457888999999988766 788889997 899999999999988766789999999999997 55567777888888888


Q ss_pred             CC-cEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GI-KFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ++ +++++||++|.||+++|++|++.+.+..
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            98 9999999999999999999999887653

>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=99.76  E-value=2.2e-17  Score=115.52  Aligned_cols=107  Identities=34%  Similarity=0.566  Sum_probs=92.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..++.+++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+.......++...
T Consensus        80 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  157 (189)
T 2gf9_A           80 GQERYRTITTAYYRGAMG-FLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLE-DERVVPAEDGRRLADDL  157 (189)
T ss_dssp             SCCSSCCSGGGGGTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CcHHHhhhHHHhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-cccCCCHHHHHHHHHHc
Confidence            457889999999988766 788889987 899999999999988765689999999999997 55566677788888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|++|++.+.+..
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            999999999999999999999999987764

>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=99.76  E-value=1.2e-17  Score=114.09  Aligned_cols=106  Identities=26%  Similarity=0.304  Sum_probs=78.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.++|+.++..|+++.+. +++|||+++ .+|+.+..|+..+.... ..++|+++|+||+|+. +.+.+.......++..
T Consensus        58 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~  135 (166)
T 3q72_A           58 EQDGGRWLPGHCMAMGDA-YVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-RSREVSVDEGRACAVV  135 (166)
T ss_dssp             ---------------CCE-EEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCC-SSCCSCHHHHHHHHHH
T ss_pred             CCccchhhhhhhhhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccc-cccccCHHHHHHHHHH
Confidence            457788999999988766 788889997 89999999999987743 3679999999999997 6677778888888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+.+++++||++|.|++++|++|++.+.+.
T Consensus       136 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          136 FDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             TTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             hCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999999999999999988654

>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=99.76  E-value=1.3e-17  Score=118.57  Aligned_cols=107  Identities=31%  Similarity=0.469  Sum_probs=92.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        84 G~~~~~~~~~~~~~~~d~-~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~  161 (201)
T 2ew1_A           84 GQERFRSITQSYYRSANA-LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-ERREVSQQRAEEFSEAQ  161 (201)
T ss_dssp             CSGGGHHHHGGGSTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCSSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHc
Confidence            457888889999888765 788889987 899999999999988766789999999999997 55667777788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|.+|++.+.+..
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            999999999999999999999999887764

>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=99.75  E-value=3.9e-17  Score=113.52  Aligned_cols=107  Identities=34%  Similarity=0.547  Sum_probs=89.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+.+.+. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+.  .+.+....+..++..
T Consensus        61 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~--~~~~~~~~~~~~~~~  137 (189)
T 4dsu_A           61 GQEEYSAMRDQYMRTGEG-FLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP--SRTVDTKQAQDLARS  137 (189)
T ss_dssp             CC---CTTHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSS--SCSSCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCc--ccccCHHHHHHHHHH
Confidence            457889999999998766 788889987 89999999999998754 3679999999999997  355667778888899


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .+.+++++||++|.|++++|++|++.+.+...
T Consensus       138 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          138 YGIPFIETSAKTRQGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             HTCCEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999876643

>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=3.7e-17  Score=112.81  Aligned_cols=108  Identities=28%  Similarity=0.425  Sum_probs=91.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+.+.+. +++|||+++ .+|..+..|+.++.. ....++|+++|+||+|+. ..+.+....+..++..
T Consensus        66 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~  143 (181)
T 2fn4_A           66 GQEEFGAMREQYMRAGHG-FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-SQRQVPRSEASAFGAS  143 (181)
T ss_dssp             CTTTTSCCHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhhCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHH
Confidence            456789999999988766 788889998 899999999999855 334678999999999997 5556777778888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .+.+++++||++|.|++++|++|.+.+.+...
T Consensus       144 ~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          144 HHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             TTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             cCCeEEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            89999999999999999999999998876543

>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=99.75  E-value=4.4e-17  Score=113.10  Aligned_cols=105  Identities=27%  Similarity=0.403  Sum_probs=91.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+... ...++|+++|+||+|+. ..+.+...++..++..
T Consensus        75 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~v~~~~~~~~~~~  152 (183)
T 3kkq_A           75 GQEEFSAMREQYMRTGDG-FLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-HLRKVTRDQGKEMATK  152 (183)
T ss_dssp             SCGGGCSSHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-TTCCSCHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCch-hccCcCHHHHHHHHHH
Confidence            457899999999998766 788889997 8999999999998763 34678999999999997 5667788888899999


Q ss_pred             hCCcEEEecCC-CCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAK-TNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak-~~~~i~el~~~l~~~i~~  111 (149)
                      .+.+++++||+ +|.|++++|++|++.+.+
T Consensus       153 ~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          153 YNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             hCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            99999999999 999999999999998754

>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=99.75  E-value=3e-17  Score=115.95  Aligned_cols=104  Identities=24%  Similarity=0.303  Sum_probs=87.2

Q ss_pred             ccccc-cchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            7 LCFIG-VYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         7 ~~~~~-~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      ++|.. ++..||++++. +++|||+++ .+|..+..|+.++..... .++|+++|+||+|+. ..+.+...++..++...
T Consensus        83 ~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~a~~~  160 (195)
T 3cbq_A           83 GDAGGWLRDHCLQTGDA-FLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-RSREVSLEEGRHLAGTL  160 (195)
T ss_dssp             SGGGHHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCT-TTCCSCHHHHHHHHHHT
T ss_pred             ccchhhhHHHhhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhcc-ccCCcCHHHHHHHHHHh
Confidence            45554 77777776654 788999997 899999999999887553 579999999999997 55667777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.+++++||++|.|++++|+.|++.+.+.
T Consensus       161 ~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~  189 (195)
T 3cbq_A          161 SCKHIETSAALHHNTRELFEGAVRQIRLR  189 (195)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCCCHHHHHHHHHHHHHHh
Confidence            89999999999999999999999988653

>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=99.75  E-value=3.2e-17  Score=115.77  Aligned_cols=110  Identities=31%  Similarity=0.531  Sum_probs=93.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        66 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  143 (203)
T 1zbd_A           66 GLERYRTITTAYYRGAMG-FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-DERVVSSERGRQLADHL  143 (203)
T ss_dssp             CSGGGHHHHHTTGGGCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCT-TSCCSCHHHHHHHHHHH
T ss_pred             CchhhcchHHHhhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-cccccCHHHHHHHHHHC
Confidence            446788889999988765 788889987 899999999999987665679999999999997 55667777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcCC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLADT  116 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~~  116 (149)
                      +++++++||++|.|++++|++|++.+.+...+.
T Consensus       144 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~~  176 (203)
T 1zbd_A          144 GFEFFEASAKDNINVKQTFERLVDVICEKMSES  176 (203)
T ss_dssp             TCEEEECBTTTTBSSHHHHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999887765443

>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=99.74  E-value=7.6e-18  Score=118.29  Aligned_cols=104  Identities=26%  Similarity=0.310  Sum_probs=86.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      |.++|..++..++.+++. +++|||+++ .+|..+..|+..+.....  .++|+++|+||+|+. . +.+....+..++.
T Consensus        65 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~-~-~~~~~~~~~~~~~  141 (199)
T 2gf0_A           65 GSHQFPAMQRLSISKGHA-FILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDET-Q-REVDTREAQAVAQ  141 (199)
T ss_dssp             GGGSCHHHHHHHHHHCSE-EEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCS-S-CSSCHHHHHHHHH
T ss_pred             ChHHhHHHHHHhhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCC-c-cccCHHHHHHHHH
Confidence            456788889999888765 788889987 899999999888776432  468999999999997 3 5566677777888


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ..+.+++++||++|.|++++|++|++.+.+
T Consensus       142 ~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          142 EWKCAFMETSAKMNYNVKELFQELLTLETR  171 (199)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHHHHHHCSS
T ss_pred             HhCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            889999999999999999999999987643

>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=99.74  E-value=1.2e-17  Score=119.88  Aligned_cols=102  Identities=27%  Similarity=0.361  Sum_probs=83.5

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      ++.+++.|++.+ +++++|||+++ .+|+.+..|+..+.... ..++|+|+|+||+|+. ..+.+...+...++..++.+
T Consensus       101 ~~~l~~~~~~~a-~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~-~~r~v~~~e~~~~a~~~~~~  178 (211)
T 2g3y_A          101 NEWLHDHCMQVG-DAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RCREVSVSEGRACAVVFDCK  178 (211)
T ss_dssp             HHHHHHCCCCCC-SEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCE
T ss_pred             hhhHHHHHHhhC-CEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHh-cCceEeHHHHHHHHHHcCCE
Confidence            445666666554 55899999998 89999999998887632 2579999999999997 55667777777788888899


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           87 FFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++++||++|.||+++|++|++.+...
T Consensus       179 ~~e~SAk~g~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          179 FIETSAAVQHNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999999988654

>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=99.74  E-value=3.8e-17  Score=111.84  Aligned_cols=106  Identities=24%  Similarity=0.295  Sum_probs=84.7

Q ss_pred             ccccccc-cchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIG-VYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~-~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      +.++|.. ++..+++++ +++++|||+++ .+|..+..|+.++..... .++|+++|+||+|+. ..+.+....+..++.
T Consensus        60 g~~~~~~~~~~~~~~~~-d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~  137 (169)
T 3q85_A           60 EQGDAGGWLQDHCLQTG-DAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-RSREVSLEEGRHLAG  137 (169)
T ss_dssp             CC--------CHHHHHC-SEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCG-GGCCSCHHHHHHHHH
T ss_pred             CccccchhhhhhhhccC-CEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchh-hcccCCHHHHHHHHH
Confidence            3456665 666667665 45888999998 899999999999987654 479999999999997 567778888888999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+.+++++||++|.|++++|+++++.+..+
T Consensus       138 ~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          138 TLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999987653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.74  E-value=6.9e-17  Score=111.42  Aligned_cols=107  Identities=31%  Similarity=0.497  Sum_probs=92.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+.+++. +++|||+++ .++..+..|+..+.... .++|+++|+||+|+. ..+.+.......++...
T Consensus        67 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~  143 (181)
T 3tw8_B           67 GQERFRTITSTYYRGTHG-VIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDP-ERKVVETEDAYKFAGQM  143 (181)
T ss_dssp             TGGGCSSCCGGGGTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CchhhhhhHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCc-hhcccCHHHHHHHHHHc
Confidence            457889999999988866 788889987 89999999999987765 578999999999997 55667777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +.+++++||++|.|++++|++|.+.+.+...
T Consensus       144 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (181)
T 3tw8_B          144 GIQLFETSAKENVNVEEMFNCITELVLRAKK  174 (181)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999998877654

>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=99.74  E-value=4.8e-17  Score=112.36  Aligned_cols=106  Identities=36%  Similarity=0.575  Sum_probs=84.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..|+++.+. +++|||+++ .++..+..|+..+......++|+++|+||+|+. ..+.+.......++...
T Consensus        69 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  146 (180)
T 2g6b_A           69 GQERFRSVTHAYYRDAHA-LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA-HERVVKREDGEKLAKEY  146 (180)
T ss_dssp             CC--------CCGGGCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT-SCCCSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccC-cccccCHHHHHHHHHHc
Confidence            456788899999988766 788889987 899999999999988765789999999999997 55666777788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++++||++|.|++++|++|.+.+.+.
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            99999999999999999999999988643

>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=99.74  E-value=3.7e-17  Score=113.06  Aligned_cols=106  Identities=27%  Similarity=0.484  Sum_probs=90.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|+.++..++++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+...+...++...
T Consensus        70 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~  147 (181)
T 2efe_B           70 GQERYHSLAPMYYRGAAA-AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLL-DARKVTAEDAQTYAQEN  147 (181)
T ss_dssp             CSGGGGGGTHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHT
T ss_pred             CChhhhhhhHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-ccccCCHHHHHHHHHHc
Confidence            457888999999988765 788889987 899999999999988766689999999999997 55666777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++++||++|.|++++|.+|++.+.+.
T Consensus       148 ~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  176 (181)
T 2efe_B          148 GLFFMETSAKTATNVKEIFYEIARRLPRV  176 (181)
T ss_dssp             TCEEEECCSSSCTTHHHHHHHHHHTCC--
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999999877543

>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=99.74  E-value=2.9e-17  Score=113.84  Aligned_cols=107  Identities=23%  Similarity=0.277  Sum_probs=90.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++++. +++|||+++ .+|+.+..|+.++..... .++|+++|+||+|+. ..+.+...++..++..
T Consensus        63 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~  140 (181)
T 3t5g_A           63 GQDEYSIFPQTYSIDING-YILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-MERVISYEEGKALAES  140 (181)
T ss_dssp             CCCTTCCCCGGGTTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCT-TTCCSCHHHHHHHHHH
T ss_pred             CchhhhHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccch-hcceecHHHHHHHHHH
Confidence            456788899999888766 788889997 899999999999877543 578999999999997 6677888888899999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .+.+++++||++|.|++++|.+|++.+.+..
T Consensus       141 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  171 (181)
T 3t5g_A          141 WNAAFLESSAKENQTAVDVFRRIILEAEKMD  171 (181)
T ss_dssp             TTCEEEECCTTSHHHHHHHHHHHHHHHHTC-
T ss_pred             hCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999886653

>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=99.74  E-value=3.9e-17  Score=115.52  Aligned_cols=108  Identities=31%  Similarity=0.441  Sum_probs=92.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        83 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~~  160 (200)
T 2o52_A           83 GQERFRSVTRSYYRGAAG-ALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD-PEREVTFLEASRFAQEN  160 (200)
T ss_dssp             THHHHSCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CcHhHHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc-cccccCHHHHHHHHHHc
Confidence            346788899999988766 788889987 899999999999987665789999999999997 55566677788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|.+|++.+.+...
T Consensus       161 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          161 ELMFLETSALTGENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999887654

>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=3.5e-17  Score=112.71  Aligned_cols=104  Identities=29%  Similarity=0.483  Sum_probs=90.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++++. +++|||+++ .+++.+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        73 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  150 (179)
T 1z0f_A           73 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-AQRDVTYEEAKQFAEEN  150 (179)
T ss_dssp             TGGGTCHHHHHHHHTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CChHhhhhHHHHhccCCE-EEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            456788899999988866 788889987 899999999999988766789999999999997 55566677888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +++++++||++|.|++++|++|++.+.
T Consensus       151 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~  177 (179)
T 1z0f_A          151 GLLFLEASAKTGENVEDAFLEAAKKIY  177 (179)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999998774

>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=3.5e-17  Score=113.76  Aligned_cols=109  Identities=31%  Similarity=0.447  Sum_probs=93.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+.+++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        68 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  145 (186)
T 2bme_A           68 GQERFRSVTRSYYRGAAG-ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQEN  145 (186)
T ss_dssp             CSGGGHHHHHTTSTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHhcCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            456788888888888766 788889987 899999999999887666789999999999997 55667777788888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +++++++||++|.|++++|+++++.+.+...+
T Consensus       146 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~  177 (186)
T 2bme_A          146 ELMFLETSALTGENVEEAFVQCARKILNKIES  177 (186)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHHHHHS
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999876543

>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=7.1e-17  Score=110.29  Aligned_cols=105  Identities=35%  Similarity=0.635  Sum_probs=90.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .++..+..|+..+......++|+++|+||+|+.  .+.+.......+++..
T Consensus        61 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~  137 (170)
T 1g16_A           61 GQERFRTITTAYYRGAMG-IILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKEL  137 (170)
T ss_dssp             TGGGTSCCCHHHHTTEEE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT--TCCSCHHHHHHHHHHH
T ss_pred             CChhhhhhHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC--cCccCHHHHHHHHHHc
Confidence            457788999999988755 788889987 899999999999988766689999999999995  3456677778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++++||++|.|++++|.+|.+.+.+.
T Consensus       138 ~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          138 GIPFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999988764

>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=99.73  E-value=6.6e-17  Score=113.30  Aligned_cols=108  Identities=24%  Similarity=0.470  Sum_probs=92.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|..++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        83 G~~~~~~~~~~~~~~~d~-vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  160 (193)
T 2oil_A           83 GLERYRAITSAYYRGAVG-ALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS-QAREVPTEEARMFAENN  160 (193)
T ss_dssp             CCCTTCTTHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhhhhHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcc-cccccCHHHHHHHHHHc
Confidence            446788999999988766 788889987 899999999999987655689999999999997 54566677788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|.+|++.+.+...
T Consensus       161 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  191 (193)
T 2oil_A          161 GLLFLETSALDSTNVELAFETVLKEIFAKVS  191 (193)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999998876643

>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=99.73  E-value=2.8e-17  Score=112.20  Aligned_cols=103  Identities=34%  Similarity=0.564  Sum_probs=88.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++.+++. +++|||+++ .++..+..|+..+......++|+++|+||+|+. ..+.+...++..++...
T Consensus        64 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~~~~  141 (170)
T 1r2q_A           64 GQERYHSLAPMYYRGAQA-AIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-NKRAVDFQEAQSYADDN  141 (170)
T ss_dssp             CSGGGGGGHHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CcHHhhhhhHHhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-cccccCHHHHHHHHHHc
Confidence            456788899998888765 788889987 899999999999988766789999999999997 44566677778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.|++++|++|++.+
T Consensus       142 ~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          142 SLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999998765

>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=99.73  E-value=1.2e-16  Score=112.58  Aligned_cols=103  Identities=27%  Similarity=0.357  Sum_probs=84.4

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      ++.+++.|++.+++ +++|||+++ .+|+.+..|+..+.... ..++|+++|+||+|+. ..+.+.......++..++.+
T Consensus        70 ~~~~~~~~~~~~~~-~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-~~r~v~~~~~~~~a~~~~~~  147 (192)
T 2cjw_A           70 NEWLHDHCMQVGDA-YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RXREVSVSEGRAXAVVFDXK  147 (192)
T ss_dssp             -CTTGGGHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCE
T ss_pred             hhhHHHhhcccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhh-ccccccHHHHHHHHHHhCCc
Confidence            56677777776654 899999998 89999999998887643 3578999999999997 45566666777777788889


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           87 FFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ++++||++|.||+++|.++++.+....
T Consensus       148 ~~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          148 FIETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             eEEeccccCCCHHHHHHHHHHHHHhhc
Confidence            999999999999999999999886543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.73  E-value=1.2e-17  Score=118.89  Aligned_cols=105  Identities=23%  Similarity=0.367  Sum_probs=85.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--------CCHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRA--------VPTS   74 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--------~~~~   74 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+. .|+..+.... +++|+++|+||+|+. ....        +...
T Consensus        66 G~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~v~~~  142 (212)
T 2j0v_A           66 GQEDYSRLRPLSYRGADI-FVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLR-DDKGYLADHTNVITST  142 (212)
T ss_dssp             CCCCCCC--CGGGTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHH-TCHHHHHTCSSCCCHH
T ss_pred             CcHHHHHHHHhhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhh-hCccccccccCCCCHH
Confidence            447899999999988866 788889987 8999986 8999988765 478999999999986 3222        3566


Q ss_pred             HHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           75 KGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        75 ~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++..++...+. +++++||++|.|++++|++|++.+.+.
T Consensus       143 ~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          143 QGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             HHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            77778888885 999999999999999999999988654

>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=99.73  E-value=2.7e-17  Score=112.52  Aligned_cols=105  Identities=24%  Similarity=0.480  Sum_probs=83.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++++++. +++|||+++ .++..+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        64 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  141 (170)
T 1z08_A           64 GQERFHALGPIYYRDSNG-AILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAESYAESV  141 (170)
T ss_dssp             CC-------CCSSTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CcHhhhhhHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            456788888888888765 788889987 899999999999877655679999999999997 55566777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|++|++.+.+
T Consensus       142 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          142 GAKHYHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             CCeEEEecCCCCCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999988753

>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=99.73  E-value=3.1e-17  Score=117.42  Aligned_cols=107  Identities=17%  Similarity=0.263  Sum_probs=91.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHH-HHHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSD-IRNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~-~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..++..|+++++. +++|||+++ .+|.. +..|+..+.... .++|+++|+||+|+..+           .+.+
T Consensus        84 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  161 (214)
T 3q3j_B           84 GSPYYDNVRPLCYSDSDA-VLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPI  161 (214)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCC
T ss_pred             CCHhHHHHHHHHcCCCeE-EEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCcc
Confidence            567899999999998766 788899998 89998 689999998765 57999999999999721           2567


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCC-HHHHHHHHHHHHHHHh
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLN-VEQVFFSIARDIKQRL  113 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~-i~el~~~l~~~i~~~~  113 (149)
                      ...++..++...+. +++++||++|.| |+++|+.|++.+.+..
T Consensus       162 ~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          162 SYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             CHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             CHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhccC
Confidence            78888899999998 999999999998 9999999999887553

>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=99.73  E-value=7.2e-17  Score=110.89  Aligned_cols=103  Identities=29%  Similarity=0.330  Sum_probs=83.4

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      +..++..|++.. +++++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. ..+.+...+...++...+.+
T Consensus        67 ~~~~~~~~~~~~-~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~  144 (175)
T 2nzj_A           67 KSWSQESCLQGG-SAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLA-RCREVSVEEGRACAVVFDCK  144 (175)
T ss_dssp             -CHHHHHTTTSC-SEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCT-TTCCSCHHHHHHHHHHHTSE
T ss_pred             hhhhHHhhcccC-CEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhc-cccccCHHHHHHHHHHcCCe
Confidence            556666676665 45788999997 89999999999887743 2578999999999997 55667777777888888999


Q ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           87 FFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        87 ~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ++++||++|.|++++|++|++.+.+..
T Consensus       145 ~~~~Sa~~g~gi~~l~~~l~~~~~~~~  171 (175)
T 2nzj_A          145 FIETSATLQHNVAELFEGVVRQLRLRR  171 (175)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999887654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.72  E-value=5.3e-17  Score=114.09  Aligned_cols=105  Identities=30%  Similarity=0.558  Sum_probs=89.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...++..+++..
T Consensus        84 G~~~~~~~~~~~~~~~d~-iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~~~~~  161 (192)
T 2il1_A           84 GQERFNSITSAYYRSAKG-IILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-TDREITRQQGEKFAQQI  161 (192)
T ss_dssp             CSGGGHHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHTS
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHhc
Confidence            456788889999988766 788889987 899999999999887766789999999999997 55566677777777764


Q ss_pred             -CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 -GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 -~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                       +.+++++||++|.|++++|++|++.+.+
T Consensus       162 ~~~~~~~~SA~~g~gi~~l~~~l~~~i~~  190 (192)
T 2il1_A          162 TGMRFCEASAKDNFNVDEIFLKLVDDILK  190 (192)
T ss_dssp             TTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence             7899999999999999999999998865

>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=1.2e-16  Score=109.10  Aligned_cols=103  Identities=30%  Similarity=0.505  Sum_probs=89.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|..++..++++.+. +++|||+++ .++..+..|+..+.....+.+|+++|+||+|+. ..+.+.......++...
T Consensus        64 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~-~~~~v~~~~~~~~~~~~  141 (170)
T 1z0j_A           64 GLERFRALAPMYYRGSAA-AIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-DVREVMERDAKDYADSI  141 (170)
T ss_dssp             CSGGGGGGTHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhcccHhhCcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccc-cccccCHHHHHHHHHHc
Confidence            347788999999888865 788889987 899999999999988766789999999999997 55566777788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.|++++|++|.+.+
T Consensus       142 ~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          142 HAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            99999999999999999999998865

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.72  E-value=4.6e-17  Score=115.08  Aligned_cols=107  Identities=24%  Similarity=0.364  Sum_probs=90.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. ..+.+....+..++..
T Consensus        81 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~~  158 (201)
T 3oes_A           81 GQDEYSILPYSFIIGVHG-YVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLS-PEREVQAVEGKKLAES  158 (201)
T ss_dssp             CCCTTCCCCGGGTTTCCE-EEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             CccchHHHHHHHHhcCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCc-cccccCHHHHHHHHHH
Confidence            457889999999998766 788889997 89999999999987753 2578999999999997 5667777888889999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .+.+++++||++|.|++++|++|++.+.+..
T Consensus       159 ~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~  189 (201)
T 3oes_A          159 WGATFMESSARENQLTQGIFTKVIQEIARVE  189 (201)
T ss_dssp             HTCEEEECCTTCHHHHHHHHHHHHHHHHHC-
T ss_pred             hCCeEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999887653

>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=99.72  E-value=5.1e-17  Score=113.60  Aligned_cols=105  Identities=19%  Similarity=0.168  Sum_probs=88.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCC------h-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIA------S-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ   77 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~------~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~   77 (149)
                      |.++|+.+++.|+++++. +++|||++      + .+|..+..|+.++.. ...++|+++|+||+|+.   ..+...++.
T Consensus        83 G~~~~~~~~~~~~~~~d~-~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~Dl~---~~~~~~~~~  157 (198)
T 3t1o_A           83 GQVFYNASRKLILRGVDG-IVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRDLP---DALPVEMVR  157 (198)
T ss_dssp             SCCSCSHHHHHHTTTCCE-EEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTTST---TCCCHHHHH
T ss_pred             ChHHHHHHHHHHHhcCCE-EEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchhcc---cccCHHHHH
Confidence            457899999999998866 78888998      5 788888889888743 23679999999999997   346677888


Q ss_pred             HHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           78 ALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        78 ~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .++...+. +++++||++|.|++++|++|++.+.+...
T Consensus       158 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          158 AVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             HHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            88888888 99999999999999999999999987654

>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=99.72  E-value=5e-17  Score=114.12  Aligned_cols=105  Identities=28%  Similarity=0.509  Sum_probs=90.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+..+++..+++..
T Consensus        81 G~~~~~~~~~~~~~~~d~-iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-~~~~v~~~~~~~~~~~~  158 (192)
T 2fg5_A           81 GQERFHSLAPMYYRGSAA-AVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLS-DIREVPLKDAKEYAESI  158 (192)
T ss_dssp             CSGGGGGGTHHHHTTCSE-EEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHTT
T ss_pred             CchhhHhhhHHhhccCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            457889999999988765 788889987 899999999999988766689999999999997 54566777888888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|++|.+.+.+
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          159 GAIVVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            9999999999999999999999987643

>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=99.72  E-value=7.7e-17  Score=109.68  Aligned_cols=105  Identities=30%  Similarity=0.501  Sum_probs=87.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+..... .++|+++|+||+|+. ..+.+...++..++..
T Consensus        61 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  138 (168)
T 1u8z_A           61 GQEDYAAIRDNYFRSGEG-FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRADQ  138 (168)
T ss_dssp             C---CHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CcchhHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccc-ccCccCHHHHHHHHHH
Confidence            446788899999988766 788889987 899999999999887553 579999999999997 5556677788888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+.+++++||++|.|++++|++|++.+.+
T Consensus       139 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          139 WNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            89999999999999999999999988753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.72  E-value=7.4e-17  Score=111.25  Aligned_cols=106  Identities=22%  Similarity=0.245  Sum_probs=87.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|..++..|+++++. +++|||+++ .+|+.+..|+..+.....   ...|+++|+||+|+. ..+.+..+.+..++
T Consensus        65 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~-~~~~~~~~~~~~~~  142 (178)
T 2hxs_A           65 GQTIGGKMLDKYIYGAQG-VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLE-HMRTIKPEKHLRFC  142 (178)
T ss_dssp             TCCTTCTTHHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGG-GGCSSCHHHHHHHH
T ss_pred             CCccccchhhHHHhhCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccc-cccccCHHHHHHHH
Confidence            457889999999988766 788889987 899999999999876431   233489999999997 54566677788888


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ...+++++++||++|.|++++|++|++.+.+.
T Consensus       143 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          143 QENGFSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             HHHTCEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             HHcCCcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            88899999999999999999999999987543

>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=1.2e-16  Score=112.09  Aligned_cols=106  Identities=21%  Similarity=0.306  Sum_probs=89.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-CCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-KRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-~~~~~~~~~~~~~~   81 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+ ..|+..+.... .++|+++|+||+|+... .+.+....+..++.
T Consensus        80 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~  157 (194)
T 3reg_A           80 GQEEYDRLRPLSYADSDV-VLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQ  157 (194)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHH
T ss_pred             CcHHHHHHhHhhccCCcE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHH
Confidence            457899999999998766 788889997 899997 78988887654 57999999999999721 35677788888999


Q ss_pred             HhCCc-EEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 EYGIK-FFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~~~~~-~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+.. ++++||++|.|++++|++|++.+.+.
T Consensus       158 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          158 KLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             hcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            99987 99999999999999999999988654

>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=99.71  E-value=5.4e-17  Score=110.76  Aligned_cols=103  Identities=35%  Similarity=0.566  Sum_probs=88.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC---CCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK---RAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~---~~~~~~~~~~~~   80 (149)
                      |.++|..++..++++++. +++|||+++ .++..+..|+..+......++|+++|+||+|+. ..   +.+.......++
T Consensus        61 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~v~~~~~~~~~  138 (170)
T 1ek0_A           61 GQERFASLAPXYYRNAQA-ALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXL-QEGGERKVAREEGEKLA  138 (170)
T ss_dssp             CSGGGGGGHHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GSSCCCCSCHHHHHHHH
T ss_pred             CChhhhhhhhhhhccCcE-EEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc-ccccccCCCHHHHHHHH
Confidence            456788999999988766 788889987 899999999999988766789999999999987 33   556677778888


Q ss_pred             HHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        81 ~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ...+.+++++||++|.|++++|++|.+.+
T Consensus       139 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          139 EEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            88899999999999999999999998754

>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=99.71  E-value=1.3e-16  Score=111.12  Aligned_cols=108  Identities=29%  Similarity=0.504  Sum_probs=91.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|..++..++++++. +++|||+++ .++..+..|+..+..... .++|+++|+||+|+. ..+.+....+..++..
T Consensus        79 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  156 (195)
T 3bc1_A           79 GLERFRSLTTAFFRDAMG-FLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE-DQRAVKEEEARELAEK  156 (195)
T ss_dssp             CSGGGHHHHHHTTTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-cccccCHHHHHHHHHH
Confidence            346788888888888765 788889987 899999999999887654 678999999999997 5456667778888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .+++++++||++|.|++++|.+|.+.+.+...
T Consensus       157 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  188 (195)
T 3bc1_A          157 YGIPYFETSAANGTNISHAIEMLLDLIMKRME  188 (195)
T ss_dssp             HTCCEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            89999999999999999999999998877654

>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=99.71  E-value=1.8e-16  Score=107.98  Aligned_cols=103  Identities=29%  Similarity=0.506  Sum_probs=87.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. ..+.+.......+++.
T Consensus        60 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  137 (167)
T 1c1y_A           60 GTEQFTAMRDLYMKNGQG-FALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQ  137 (167)
T ss_dssp             SSCSSTTHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECcccc-ccccCCHHHHHHHHHH
Confidence            456788999999988766 788889987 89999999999987753 3679999999999997 5566667777888888


Q ss_pred             h-CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 Y-GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~-~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      . +.+++++||++|.|++++|++|++.+
T Consensus       138 ~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (167)
T 1c1y_A          138 WCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             TTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ccCCcEEEecCCCCCCHHHHHHHHHHHH
Confidence            7 78999999999999999999999876

>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=99.71  E-value=1.5e-16  Score=110.20  Aligned_cols=107  Identities=29%  Similarity=0.494  Sum_probs=91.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+..... .++|+++|+||+|+. ..+.+...++..++..
T Consensus        75 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  152 (187)
T 2a9k_A           75 GQEDYAAIRDNYFRSGEG-FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRAEQ  152 (187)
T ss_dssp             CTTCCHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CCcccHHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccCccCHHHHHHHHHH
Confidence            446788899999988766 788889987 899999999999887553 478999999999997 5456677788888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .+.+++++||++|.|++++|++|++.+.+..
T Consensus       153 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          153 WNVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            8999999999999999999999999887653

>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=5e-16  Score=110.14  Aligned_cols=107  Identities=34%  Similarity=0.628  Sum_probs=91.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+.+++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+.  .+.+.......++...
T Consensus        78 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~  154 (213)
T 3cph_A           78 GQERFRTITTAYYRGAMG-IILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKEL  154 (213)
T ss_dssp             TGGGGTCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS--SCCSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc--ccccCHHHHHHHHHHc
Confidence            457888999999988766 788889987 889999999999988765679999999999995  3555667777888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.|++++|.+|.+.+.+...
T Consensus       155 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  185 (213)
T 3cph_A          155 GIPFIESSAKNDDNVNEIFFTLAKLIQEKID  185 (213)
T ss_dssp             TCCEEECBTTTTBSSHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999887654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.71  E-value=2.9e-16  Score=110.63  Aligned_cols=107  Identities=23%  Similarity=0.317  Sum_probs=89.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|+.++..|+.+++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+...           .+.+
T Consensus        77 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v  154 (201)
T 2q3h_A           77 GQDEFDKLRPLCYTNTDI-FLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPV  154 (201)
T ss_dssp             CSTTCSSSGGGGGTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCC
T ss_pred             CCHHHHHHhHhhcCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccC
Confidence            447899999999888765 788889987 8999986 8999988765 47999999999999721           2456


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ....+..++...+. +++++||++|.|++++|++|++.+.+..
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          155 PEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             CHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            67777888888886 8999999999999999999999887654

>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=1.1e-16  Score=110.25  Aligned_cols=104  Identities=32%  Similarity=0.511  Sum_probs=89.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+.+.+. +++|||+++ .+|..+..|+..+......++|+++|+||+|+. ..+.+...+...++...
T Consensus        72 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  149 (179)
T 2y8e_A           72 GQERFRSLIPSYIRDSTV-AVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLS-DKRQVSTEEGERKAKEL  149 (179)
T ss_dssp             CSGGGGGGSHHHHHTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGG-GGCCSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-ccCcCCHHHHHHHHHHc
Confidence            456788999999988766 788889987 899999999999887665689999999999997 55666677777888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.+++++||++|.|++++|++|.+.+.
T Consensus       150 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          150 NVMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             TCEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999987653

>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=99.70  E-value=2e-16  Score=109.18  Aligned_cols=108  Identities=30%  Similarity=0.380  Sum_probs=80.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+.++.....    .++|+++|+||+|+....+.+....+..+
T Consensus        67 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~  145 (182)
T 1ky3_A           67 GQERFQSLGVAFYRGADC-CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQEL  145 (182)
T ss_dssp             ----------CCSTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHH
T ss_pred             CChHhhhhhHHHhhcCCE-EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHH
Confidence            456788889988888765 788889987 899999999999877543    57899999999999633445667777777


Q ss_pred             HHH-hCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           80 ADE-YGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        80 ~~~-~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +.. .+.+++++||++|.|++++|++|++.+.+..
T Consensus       146 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          146 AKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             HHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            774 5679999999999999999999999887653

>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=99.70  E-value=1.8e-16  Score=108.08  Aligned_cols=104  Identities=22%  Similarity=0.338  Sum_probs=89.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..++.+++. +++|||+++ .+++.+..|+..+.... .+.|+++|+||+|+. ..+.+...++..++...
T Consensus        63 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  139 (168)
T 1z2a_A           63 GQEEFDAITKAYYRGAQA-CVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLL-DDSCIKNEEAEGLAKRL  139 (168)
T ss_dssp             TGGGTTCCCHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGG-GGCSSCHHHHHHHHHHH
T ss_pred             CcHhHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccC-cccccCHHHHHHHHHHc
Confidence            456788999999988765 788889987 88999999999987765 578999999999997 44566677788888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+++++||++|.|++++|++|.+.+.+
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            9999999999999999999999987753

>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=99.70  E-value=4.3e-16  Score=109.17  Aligned_cols=104  Identities=21%  Similarity=0.344  Sum_probs=87.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+...           .+.+
T Consensus        75 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  152 (194)
T 2atx_A           75 GQEDYDRLRPLSYPMTDV-FLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPI  152 (194)
T ss_dssp             CSSSSTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCC
T ss_pred             CCcchhHHHHHhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCccc
Confidence            457899999999988766 788889987 8899987 8999988765 47899999999999721           1356


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ...++..++...+. +++++||++|.|++++|++|++.+.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          153 CVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             CHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            67778888888887 8999999999999999999998775

>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=99.70  E-value=1.5e-16  Score=113.55  Aligned_cols=107  Identities=17%  Similarity=0.236  Sum_probs=89.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|..++..++.+++. +++|||+++ .++..+..|+..+......++|+++|+||+|+. ..+.+.......++...
T Consensus        70 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~  147 (218)
T 4djt_A           70 GQEKKAVLKDVYYIGASG-AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIK-NRQKISKKLVMEVLKGK  147 (218)
T ss_dssp             SGGGTSCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC-----CCHHHHHHHTTTC
T ss_pred             CchhhchHHHHHhhcCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-cccccCHHHHHHHHHHc
Confidence            456788899999888766 788889997 899999999999988766679999999999997 55566777777777788


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +.+++++||++|.|++++|.+|++.+.+..
T Consensus       148 ~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  177 (218)
T 4djt_A          148 NYEYFEISAKTAHNFGLPFLHLARIFTGRP  177 (218)
T ss_dssp             CCEEEEEBTTTTBTTTHHHHHHHHHHHCCT
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            899999999999999999999999887653

>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=99.70  E-value=1.1e-16  Score=112.19  Aligned_cols=103  Identities=28%  Similarity=0.404  Sum_probs=84.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|+.+ ..|++++ +++++|||+++ .+|..+..|+.++....   ..++|+++|+||+|+. ..+.+...++..++
T Consensus        78 G~~~~~~~-~~~~~~~-~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~  154 (187)
T 3c5c_A           78 DLDTPRNC-ERYLNWA-HAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMA-QYRQVTKAEGVALA  154 (187)
T ss_dssp             C---CCCT-HHHHTTC-SEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGG-GGCSSCHHHHHHHH
T ss_pred             CCCcchhH-HHHHhhC-CEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchh-hcCccCHHHHHHHH
Confidence            34567775 5677765 45799999997 89999999999987753   2578999999999997 55667778888899


Q ss_pred             HHhCCcEEEecC-CCCCCHHHHHHHHHHHHH
Q 032001           81 DEYGIKFFETSA-KTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        81 ~~~~~~~~~~Sa-k~~~~i~el~~~l~~~i~  110 (149)
                      ...+++++++|| ++|.||+++|+.|++.+.
T Consensus       155 ~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          155 GRFGCLFFEVSACLDFEHVQHVFHEAVREAR  185 (187)
T ss_dssp             HHHTCEEEECCSSSCSHHHHHHHHHHHHHHH
T ss_pred             HHcCCcEEEEeecCccccHHHHHHHHHHHHh
Confidence            999999999999 899999999999998774

>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=99.70  E-value=6.4e-17  Score=115.39  Aligned_cols=108  Identities=31%  Similarity=0.520  Sum_probs=90.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      .++|+.++..|+++++. +++|||+++ .+|..+..|+..+..... .++|+++|+||+|+. ..+.+....+..++...
T Consensus        94 ~~~~~~~~~~~~~~~d~-iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~-~~~~v~~~~~~~~~~~~  171 (217)
T 2f7s_A           94 QERFRSLTTAFFRDAMG-FLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-DQREVNERQARELADKY  171 (217)
T ss_dssp             HHHHHHHHHHHHTTCCE-EEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             cHhHHhHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccc-cccccCHHHHHHHHHHC
Confidence            45678888888888765 788889987 899999999988765443 578999999999997 55566777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +++++++||++|.|++++|++|++.+.+...+
T Consensus       172 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          172 GIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             TCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999988776443

>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=99.70  E-value=4e-16  Score=109.11  Aligned_cols=97  Identities=22%  Similarity=0.389  Sum_probs=81.5

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCc-CCCCCCHHHHHHHHHHhC-CcEEEec
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDE-SKRAVPTSKGQALADEYG-IKFFETS   91 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~-~~~~~~S   91 (149)
                      |++++ +++++|||+++ .+|..+..|+.++..... .++|+++|+||+|+.+ ..+.+...++..++...+ .+++++|
T Consensus        82 ~~~~~-~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  160 (184)
T 3ihw_A           82 FAAWV-DAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETC  160 (184)
T ss_dssp             HHHHC-SEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEB
T ss_pred             eecCC-CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEec
Confidence            56665 45889999998 899999999999987643 5789999999999841 346677788888998887 8999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Q 032001           92 AKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~i~~~~  113 (149)
                      |++|.||+++|++|++.+.+..
T Consensus       161 a~~~~gv~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          161 ATYGLNVERVFQDVAQKVVALR  182 (184)
T ss_dssp             TTTTBTHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.69  E-value=8.9e-17  Score=113.39  Aligned_cols=107  Identities=20%  Similarity=0.329  Sum_probs=81.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcC-CCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDES-KRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~-~~~~~~~~~~~~   79 (149)
                      |-++|..++..|+++++. +++|||+++ .+|+.+..|+..+.....   .++|+++|+||+|+. . .+.+...++..+
T Consensus        82 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-~~~~~v~~~~~~~~  159 (208)
T 2yc2_C           82 GSDLYKEQISQYWNGVYY-AILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLP-PQRHQVRLDMAQDW  159 (208)
T ss_dssp             TTHHHHHHHSTTCCCCCE-EEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC--------CCCHHHHHHH
T ss_pred             CcHHHHHHHHHHHhhCcE-EEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccc-hhhccCCHHHHHHH
Confidence            345677888888887755 788889987 899999999999988765   589999999999997 4 456777888888


Q ss_pred             HHHhCCcEEEecCCC-CCCHHHHHHHHHHHHHHHh
Q 032001           80 ADEYGIKFFETSAKT-NLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        80 ~~~~~~~~~~~Sak~-~~~i~el~~~l~~~i~~~~  113 (149)
                      ++..+.+++++||++ |.|++++|++|++.+.+..
T Consensus       160 ~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          160 ATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNY  194 (208)
T ss_dssp             HHHTTCEEEECCC-------CHHHHHHHHHHHHHH
T ss_pred             HHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHHH
Confidence            999999999999999 9999999999999887654

>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=99.69  E-value=1.3e-16  Score=112.51  Aligned_cols=105  Identities=33%  Similarity=0.523  Sum_probs=86.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----CCCCCCHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----SKRAVPTSKGQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----~~~~~~~~~~~~   78 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+..+......++|+++|+||+|+..     ..+.+....+..
T Consensus        86 G~~~~~~~~~~~~~~~d~-iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~  164 (199)
T 2p5s_A           86 GQERFRSIAKSYFRKADG-VLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEK  164 (199)
T ss_dssp             TCTTCHHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHH
T ss_pred             CCcchhhhHHHHHhhCCE-EEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHH
Confidence            456788899999988766 788889987 8999999999998876656799999999999851     235566777788


Q ss_pred             HHHHhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           79 LADEYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        79 ~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++...+.+++++||++|.|++++|.+|++.+.
T Consensus       165 ~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          165 LAMTYGALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             HHHHHTCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            88888999999999999999999999998774

>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=99.69  E-value=2.1e-16  Score=107.40  Aligned_cols=104  Identities=33%  Similarity=0.490  Sum_probs=88.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+.+.+. +++|||+++ .++..+..|+..+..... .++|+++|+||+|+. ..+.+.......++..
T Consensus        60 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  137 (167)
T 1kao_A           60 GTEQFASMRDLYIKNGQG-FILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-SEREVSSSEGRALAEE  137 (167)
T ss_dssp             CTTCCHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CchhhHHHHHHHhccCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccc-ccccCCHHHHHHHHHH
Confidence            446788889999888866 788889987 899999999999877543 579999999999997 5566677777888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+.+++++||++|.|++++|++|++.+.
T Consensus       138 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A          138 WGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             hCCCEEEecCCCCcCHHHHHHHHHHHHh
Confidence            8999999999999999999999998774

>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=99.69  E-value=6.7e-16  Score=107.84  Aligned_cols=105  Identities=27%  Similarity=0.408  Sum_probs=89.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+++++. +++|||+++ .++..+..|+.++..... .++|+++|+||+|+.  .+.+....+..++..
T Consensus        73 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~--~~~~~~~~~~~~~~~  149 (195)
T 1x3s_A           73 GQERFRTLTPSYYRGAQG-VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE--NREVDRNEGLKFARK  149 (195)
T ss_dssp             SSGGGCCSHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS--SCCSCHHHHHHHHHH
T ss_pred             CchhhhhhhHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc--ccccCHHHHHHHHHH
Confidence            456789999999988765 788889987 899999999999876542 578999999999996  345666777888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+.+++++||++|.|++++|++|.+.+.+.
T Consensus       150 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (195)
T 1x3s_A          150 HSMLFIEASAKTCDGVQCAFEELVEKIIQT  179 (195)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             cCCEEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            899999999999999999999999988754

>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=99.68  E-value=2.9e-16  Score=109.71  Aligned_cols=104  Identities=31%  Similarity=0.514  Sum_probs=85.4

Q ss_pred             cccccc-ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFI-GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~-~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      |.++|+ .++..|+++++. +++|||+++ .+|..+..|+.++.... ..++|+++|+||+|+. ..+.+.......++.
T Consensus        78 G~~~~~~~~~~~~~~~~d~-iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~v~~~~~~~~~~  155 (189)
T 1z06_A           78 GQERFRKSMVQHYYRNVHA-VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-SAIQVPTDLAQKFAD  155 (189)
T ss_dssp             CSHHHHTTTHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHH
T ss_pred             CchhhhhhhhHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-ccceeCHHHHHHHHH
Confidence            345677 788888887755 788889987 89999999999998765 4679999999999997 555667778888888


Q ss_pred             HhCCcEEEecCCCC---CCHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTN---LNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ~~~~~~~~~Sak~~---~~i~el~~~l~~~i~  110 (149)
                      ..+++++++||++|   .|++++|.+|++.+.
T Consensus       156 ~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          156 THSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             HTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             HcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            88999999999999   999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.68  E-value=2e-15  Score=105.62  Aligned_cols=104  Identities=23%  Similarity=0.393  Sum_probs=88.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..+++.++. +++|||+++ .++..+..|+..+....  ++|+++|+||+|+  ..+.+...++..++...
T Consensus       102 G~~~~~~~~~~~~~~~d~-~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D~--~~~~~~~~~~~~~~~~~  176 (208)
T 3clv_A          102 GQERYASIVPLYYRGATC-AIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKIDK--NKFQVDILEVQKYAQDN  176 (208)
T ss_dssp             TGGGCTTTHHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTTC--C-CCSCHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHhcCCCE-EEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCCc--ccccCCHHHHHHHHHHc
Confidence            457788899999888765 788889987 88999999999988765  3899999999994  44566777888888889


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++++||++|.|++++|++|++.+.+..
T Consensus       177 ~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          177 NLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999887654

>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=99.67  E-value=7.5e-16  Score=106.05  Aligned_cols=104  Identities=26%  Similarity=0.364  Sum_probs=86.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS----DNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      |.++|+.++..|+++.+. +++|||+++ .++..+..|+..+.....    .++|+++|+||+|+.  .+.+....+..+
T Consensus        65 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~--~~~~~~~~~~~~  141 (177)
T 1wms_A           65 GQERFRSLRTPFYRGSDC-CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS--ERQVSTEEAQAW  141 (177)
T ss_dssp             CCGGGHHHHGGGGTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS--SCSSCHHHHHHH
T ss_pred             CchhhhhhHHHHHhcCCE-EEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc--ccccCHHHHHHH
Confidence            456788888888887765 788889987 899999999999877543    578999999999996  355666777777


Q ss_pred             HH-HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           80 AD-EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        80 ~~-~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +. ..+.+++++||++|.|++++|++|++.+.+
T Consensus       142 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          142 CRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             HHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            77 456899999999999999999999998864

>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=99.67  E-value=1.7e-15  Score=102.56  Aligned_cols=104  Identities=35%  Similarity=0.570  Sum_probs=87.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+...+. +++|||+++ .++..+..|+..+..... .++|+++|+||+|+. . +.+.......++..
T Consensus        60 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~-~-~~~~~~~~~~~~~~  136 (166)
T 2ce2_X           60 GQEEYSAMRDQYMRTGEG-FLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA-A-RTVESRQAQDLARS  136 (166)
T ss_dssp             CCSSCCHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCS-C-CCSCHHHHHHHHHH
T ss_pred             CchhhhHHHHHhhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhh-h-cccCHHHHHHHHHH
Confidence            456788889989888766 788889987 899999999999877543 479999999999997 3 45667777888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++++||++|.|++++|.+|.+.+.+
T Consensus       137 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X          137 YGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HTCCEEEECTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999987743

>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=99.67  E-value=1.6e-15  Score=104.69  Aligned_cols=99  Identities=18%  Similarity=0.308  Sum_probs=79.3

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCc-CCCCCCHHHHHHHHHHh-CCcE
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDE-SKRAVPTSKGQALADEY-GIKF   87 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~-~~~~~~~~~~~~~~~~~-~~~~   87 (149)
                      ..|+++++. +++|||+++ .+|..+..|+..+....   ..++|+++|+||+|+.. ..+.+...++..++... +.++
T Consensus        67 ~~~~~~~d~-~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~  145 (178)
T 2iwr_A           67 AKFSGWADA-VIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSY  145 (178)
T ss_dssp             HHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEE
T ss_pred             hHHHHhCCE-EEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeE
Confidence            456666655 788999997 89999999877665532   25789999999999941 34566777778888776 6899


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++||++|.|++++|++|++.+.+..
T Consensus       146 ~~~Sa~~~~~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          146 YETXATYGLNVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             EEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             EEEeccccCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999887654

>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=99.67  E-value=4.6e-16  Score=108.37  Aligned_cols=105  Identities=19%  Similarity=0.324  Sum_probs=86.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..+++.|+++++. +++|||+++ .+|..+ ..|+..+.... +++|+++|+||+|+..+           .+.+
T Consensus        64 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  141 (184)
T 1m7b_A           64 GSPYYDNVRPLSYPDSDA-VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPV  141 (184)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCC
T ss_pred             CChhhhhhHHhhcCCCcE-EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCC
Confidence            457889999999888766 788889987 899998 78999887765 57899999999999621           1456


Q ss_pred             CHHHHHHHHHHhC-CcEEEecCC-CCCCHHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYG-IKFFETSAK-TNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        72 ~~~~~~~~~~~~~-~~~~~~Sak-~~~~i~el~~~l~~~i~~  111 (149)
                      ..+++..+++..+ .+++++||+ ++.|++++|+.+++.+.+
T Consensus       142 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          142 SYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             CHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            6777888888877 699999999 689999999999987753

>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=99.67  E-value=3.7e-16  Score=108.06  Aligned_cols=103  Identities=23%  Similarity=0.337  Sum_probs=84.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC----------CC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRA----------VP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~----------~~   72 (149)
                      |.++|+.++..++++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+. ..+.          +.
T Consensus        65 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~v~  141 (182)
T 3bwd_D           65 GQEDYNRLRPLSYRGADV-FILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLR-DDKQFFIDHPGAVPIT  141 (182)
T ss_dssp             C-CTTTTTGGGGGTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHH-TCHHHHHHC--CCCCC
T ss_pred             CChhhhhhHHhhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhh-cCcccccccccCCCCC
Confidence            457899999999988766 788889987 8999987 7999988765 478999999999986 3222          35


Q ss_pred             HHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        73 ~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..++..++...+. +++++||++|.|++++|++|++.+.
T Consensus       142 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          142 TVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            6677778888886 9999999999999999999998763

>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=99.66  E-value=1.2e-15  Score=107.23  Aligned_cols=101  Identities=29%  Similarity=0.427  Sum_probs=86.4

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF   87 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   87 (149)
                      ..++..|+++++. +++|||+++ .+|+.+..|+..+.... ..++|+++|+||+|+. ..+.+...++..++...++++
T Consensus        89 ~~~~~~~~~~~d~-iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~-~~~~v~~~~~~~~~~~~~~~~  166 (196)
T 2atv_A           89 TIQREGHMRWGEG-FVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-HSRQVSTEEGEKLATELACAF  166 (196)
T ss_dssp             CHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHTSEE
T ss_pred             ccchhhhhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccc-cccccCHHHHHHHHHHhCCeE
Confidence            5677888887755 788899987 89999999999987753 3679999999999997 556677778888888889999


Q ss_pred             EEecCCCCC-CHHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNL-NVEQVFFSIARDIKQR  112 (149)
Q Consensus        88 ~~~Sak~~~-~i~el~~~l~~~i~~~  112 (149)
                      +++||++|. |++++|++|++.+.+.
T Consensus       167 ~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          167 YECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             EECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             EEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            999999999 9999999999988764

>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=99.66  E-value=1.6e-15  Score=107.20  Aligned_cols=103  Identities=24%  Similarity=0.327  Sum_probs=85.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC------------CC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK------------RA   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~------------~~   70 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+ ..|+..+.... .++|+++|+||+|+. ..            +.
T Consensus        82 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  158 (201)
T 2gco_A           82 GQEDYDRLRPLSYPDTDV-ILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLR-QDEHTRRELAKMKQEP  158 (201)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGT-TCHHHHHHHHTTTCCC
T ss_pred             CchhHHHHHHHhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhh-cCccchhhhcccccCc
Confidence            457889999999888765 788889997 899998 68988887755 478999999999997 32            34


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +...++..++...+. +++++||++|.|++++|++|++.+.
T Consensus       159 v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          159 VRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            566677788888887 8999999999999999999998764

>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=99.66  E-value=2e-15  Score=105.31  Aligned_cols=105  Identities=35%  Similarity=0.556  Sum_probs=80.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|..++..|+..++. +++|||+++ .++..+..|+..+..... .++|+++|+||+|+. . +.+....+..+++.
T Consensus        78 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~-~~~~~~~~~~~~~~  154 (190)
T 3con_A           78 GQEEYSAMRDQYMRTGEG-FLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP-T-RTVDTKQAHELAKS  154 (190)
T ss_dssp             C-----------CTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCS-C-CCSCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHhhCcCCE-EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCC-c-ccCCHHHHHHHHHH
Confidence            346788888988887766 678889987 899999999999877543 578999999999997 3 55667778888888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+++++++||++|.|++++|++|++.+.+.
T Consensus       155 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          155 YGIPFIETSAKTRQGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             HTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            899999999999999999999999988664

>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=99.66  E-value=6.6e-16  Score=110.34  Aligned_cols=105  Identities=22%  Similarity=0.335  Sum_probs=76.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC------------CC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK------------RA   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~------------~~   70 (149)
                      |.++|..++..|+.+++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+. ..            +.
T Consensus        91 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  167 (214)
T 2j1l_A           91 GQDDYDRLRPLFYPDASV-LLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLR-KDKSLVNKLRRNGLEP  167 (214)
T ss_dssp             --------------CEEE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGG-SCHHHHHHHHHTTCCC
T ss_pred             CchhhhHHHHHHhccCCE-EEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhh-ccchhhhhhcccccCc
Confidence            456788999998887755 788889987 8999986 7999887765 578999999999997 32            24


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +...++..+++..+. +++++||++|.|++++|++|++.+.+.
T Consensus       168 v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          168 VTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            566677788888887 999999999999999999999988754

>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=5.9e-16  Score=107.25  Aligned_cols=104  Identities=24%  Similarity=0.375  Sum_probs=86.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCC------------CC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESK------------RA   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~------------~~   70 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+. ..            +.
T Consensus        62 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  138 (186)
T 1mh1_A           62 GQEDYDRLRPLSYPQTDV-SLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLR-DDKDTIEKLKEKKLTP  138 (186)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHH-TCHHHHHHHHHTTCCC
T ss_pred             CCHhHHHHHHHhccCCcE-EEEEEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEccccc-ccchhhhhhccccccc
Confidence            446788999998887755 788889987 8899987 7999888765 378999999999986 32            34


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +...+...++...+. +++++||++|.|++++|++|++.+.+
T Consensus       139 v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          139 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHhc
Confidence            566677778888886 99999999999999999999988753

>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=99.65  E-value=8.8e-16  Score=109.30  Aligned_cols=105  Identities=19%  Similarity=0.324  Sum_probs=86.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+ ..|+..+.... .++|+++|+||+|+...           .+.+
T Consensus        85 G~~~~~~~~~~~~~~~d~-~ilv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  162 (205)
T 1gwn_A           85 GSPYYDNVRPLSYPDSDA-VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPV  162 (205)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCC
T ss_pred             CcHhhhHHHHhhccCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCC
Confidence            457899999999888766 788889997 899998 79999987765 57899999999999621           2456


Q ss_pred             CHHHHHHHHHHhC-CcEEEecCC-CCCCHHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYG-IKFFETSAK-TNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        72 ~~~~~~~~~~~~~-~~~~~~Sak-~~~~i~el~~~l~~~i~~  111 (149)
                      ...++..+++..+ .+++++||+ ++.|++++|+.|++.+..
T Consensus       163 ~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          163 SYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            6777888888877 689999999 689999999999988754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=6.9e-16  Score=105.41  Aligned_cols=103  Identities=26%  Similarity=0.314  Sum_probs=85.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      |.++|..++..++.+.+. +++|||+++ .+++.+..|+..+.....  .++|+++|+||+|+. ..+.+.......++.
T Consensus        60 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~-~~~~v~~~~~~~~~~  137 (172)
T 2erx_A           60 GSHQFPAMQRLSISKGHA-FILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-PSREVQSSEAEALAR  137 (172)
T ss_dssp             SCSSCHHHHHHHHHHCSE-EEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-GGCCSCHHHHHHHHH
T ss_pred             CchhhHHHHHHhcccCCE-EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccc-cccccCHHHHHHHHH
Confidence            456788888999888765 788889987 889999999988876532  478999999999997 555666677777888


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ..+.+++++||++|.|++++|++|.+.+
T Consensus       138 ~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A          138 TWKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             HhCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            8899999999999999999999998755

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.65  E-value=1.6e-17  Score=117.21  Aligned_cols=105  Identities=36%  Similarity=0.603  Sum_probs=79.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..++..|+++++. +++|||+++ .+|+.+..|+..+......++|+++|+||+|+. ..+.+....+..++...
T Consensus        91 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-~~~~v~~~~~~~~~~~~  168 (199)
T 3l0i_B           91 GQERFRTITSSYYRGAHG-IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-TKKVVDYTTAKEFADSL  168 (199)
T ss_dssp             TCTTCCCCSCC--CCCSE-EEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC---CCCCSCC-CHHHHTT
T ss_pred             CcHhHHHHHHHHhhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCC-ccccCCHHHHHHHHHHc
Confidence            457888999999988765 788899998 899999999999977665689999999999997 54555555566778888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++++++||++|.|++++|.+|++.+.+
T Consensus       169 ~~~~~~vSA~~g~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          169 GIPFLETSAKNATNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             TCCBCCCCC---HHHHHHHHHHTTTTTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            8999999999999999999999876643

>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=99.64  E-value=2.9e-15  Score=106.32  Aligned_cols=105  Identities=26%  Similarity=0.350  Sum_probs=86.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCC------------CC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESK------------RA   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~------------~~   70 (149)
                      |.++|..++..|+.+++. +++|||+++ .+|..+ ..|+..+.... +++|+++|+||+|+. ..            +.
T Consensus        82 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  158 (207)
T 2fv8_A           82 GQEDYDRLRPLSYPDTDV-ILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLR-SDEHVRTELARMKQEP  158 (207)
T ss_dssp             TCTTCTTTGGGGCTTCCE-EEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGG-GCHHHHHHHHHTTCCC
T ss_pred             CcHHHHHHHHhhcCCCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhh-ccccchhhhhhcccCC
Confidence            456788899999888765 788889997 889998 68988887754 578999999999997 32            34


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.......++...+. +++++||++|.|++++|++|++.+...
T Consensus       159 v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          159 VRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            566677778888887 899999999999999999999987643

>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=99.64  E-value=9.4e-16  Score=108.37  Aligned_cols=100  Identities=15%  Similarity=0.141  Sum_probs=76.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|.....|+.++.+.. ..++|+++|+||+|+. .  .+..+++..++..
T Consensus        78 G~~~~~~~~~~~~~~~d~-~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~~~~~~~~  153 (198)
T 1f6b_A           78 GHIQARRVWKNYLPAING-IVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP-E--AISEERLREMFGL  153 (198)
T ss_dssp             C----CCGGGGGGGGCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTST-T--CCCHHHHHHHHTC
T ss_pred             CcHhhHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCcc-c--cCCHHHHHHHhCc
Confidence            456789999999998766 788889987 89999999999987642 2579999999999997 2  4455555555442


Q ss_pred             -----------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 -----------------YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 -----------------~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                                       .+.+++++||++|.|++++|++|++.
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          154 YGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             TTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence                             23579999999999999999999864

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.63  E-value=3.8e-15  Score=104.41  Aligned_cols=105  Identities=12%  Similarity=0.180  Sum_probs=80.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--------CCCeEEEEeeCCCCCcCCCCCCHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--------DNVNKVLVGNKADMDESKRAVPTSK   75 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--------~~~~iilv~nK~Dl~~~~~~~~~~~   75 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|..+..|+..+.....        .++|+++|+||+|+. ...  ...+
T Consensus        72 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~~~--~~~~  147 (199)
T 4bas_A           72 GAKKFRGLWETYYDNIDA-VIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAA-GAK--TAAE  147 (199)
T ss_dssp             CSGGGGGGGGGGCTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTST-TCC--CHHH
T ss_pred             CCHhHHHHHHHHHhcCCE-EEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCC-CCC--CHHH
Confidence            457899999999988766 788889997 899999999998866421        278999999999997 321  1222


Q ss_pred             HH-HH-----HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           76 GQ-AL-----ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        76 ~~-~~-----~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .. .+     ++..+++++++||++|.||+++|++|++.+.+..
T Consensus       148 ~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          148 LVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             HHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             HHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            11 11     1335678999999999999999999999887764

>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=99.63  E-value=1.2e-15  Score=109.28  Aligned_cols=103  Identities=24%  Similarity=0.447  Sum_probs=86.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..|+++.+. +++|||+++ .+|..+..|+..+.... .++|+++|+||+|+. ... +. .....++...
T Consensus        73 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~-~~~-~~-~~~~~~~~~~  147 (221)
T 3gj0_A           73 GQEKFGGLRDGYYIQAQC-AIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIK-DRK-VK-AKSIVFHRKK  147 (221)
T ss_dssp             SGGGTSCCCHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSS-SCS-SC-GGGCCHHHHH
T ss_pred             ChHHHhHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCccc-ccc-cc-HHHHHHHHHc
Confidence            457899999999998766 788889997 89999999999998865 578999999999997 322 22 2444567778


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.+++++||++|.|++++|.+|++.+...
T Consensus       148 ~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          148 NLQYYDISAKSNYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             TCEEEECBGGGTBTTTHHHHHHHHHHHTC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            89999999999999999999999988765

>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=99.62  E-value=6.1e-15  Score=103.06  Aligned_cols=103  Identities=11%  Similarity=0.082  Sum_probs=79.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCCcCCCCCCHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS---DNVNKVLVGNKADMDESKRAVPTSKGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~---~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~   80 (149)
                      |.++|+.++..|+.+++. +++|||+++ .+|..+..|+..+.....   .++|+++|+||+|+. .  .....+.....
T Consensus        76 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~--~~~~~~~~~~~  151 (190)
T 2h57_A           76 GQGRYRNLWEHYYKEGQA-IIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLR-D--AVTSVKVSQLL  151 (190)
T ss_dssp             CSTTTGGGGGGGGGGCSE-EEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTST-T--CCCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCCE-EEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcc-c--CCCHHHHHHHh
Confidence            456889999999988865 788889987 889999999999876532   478999999999997 2  23344444443


Q ss_pred             H-----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           81 D-----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        81 ~-----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .     ..+.+++++||++|.|++++|++|.+.+.+
T Consensus       152 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          152 CLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             TGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             ChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            2     124689999999999999999999987643

>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=99.61  E-value=2.1e-15  Score=107.01  Aligned_cols=102  Identities=25%  Similarity=0.398  Sum_probs=84.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR------------A   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~   70 (149)
                      |-++|..++..|+++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+. ...            .
T Consensus        87 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  163 (204)
T 4gzl_A           87 GLEDYDRLRPLSYPQTDV-FLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLR-DDKDTIEKLKEKKLTP  163 (204)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHH-TCHHHHHHHHHTTCCC
T ss_pred             CchhhHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhc-cchhhhhhhhcccccc
Confidence            447889999999888766 788889997 8999987 8999888765 678999999999986 322            2


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +...++..+++..+. +++++||++|.|++++|++|++.+
T Consensus       164 v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          164 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            556677778888875 699999999999999999998753

>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=99.61  E-value=2.3e-15  Score=105.70  Aligned_cols=100  Identities=16%  Similarity=0.132  Sum_probs=78.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|.....|+.++.... ..++|+++|+||+|+. .  .+..++.......
T Consensus        76 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~~~~~~~~  151 (190)
T 1m2o_B           76 GHIQARRLWKDYFPEVNG-IVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAP-N--AVSEAELRSALGL  151 (190)
T ss_dssp             CSGGGTTSGGGGCTTCCE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTST-T--CCCHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHhcCCE-EEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCc-C--CCCHHHHHHHhCC
Confidence            456788999999987755 788899997 89999999999987632 2578999999999997 2  4445554444332


Q ss_pred             ------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 ------------YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ------------~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                                  .+.+++++||++|.|++++|++|++.
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          152 LNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             SSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ccccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence                        23579999999999999999999753

>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=99.61  E-value=9.4e-16  Score=112.73  Aligned_cols=102  Identities=20%  Similarity=0.221  Sum_probs=79.9

Q ss_pred             ccccccccchhhhhh--------------------cCeEEEEEeeCCh---hhHHHHHHHHHHHHHh-cCCCCeEEEEee
Q 032001            5 RCLCFIGVYPPYLAV--------------------LCRFKYCTYKIAS---YHFSDIRNWIRNIEQH-ASDNVNKVLVGN   60 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~--------------------~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~-~~~~~~iilv~n   60 (149)
                      +-++|+++++.||+.                    .++++++|||+++   .+|+.+..|+.++... ...++|+++|+|
T Consensus       127 g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~N  206 (255)
T 3c5h_A          127 AATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLT  206 (255)
T ss_dssp             TCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             hhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEE
Confidence            457888888888871                    3466899999986   6999999999998765 335799999999


Q ss_pred             CCCCCcCCCCCCHHHHHHHHHH-hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           61 KADMDESKRAVPTSKGQALADE-YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        61 K~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      |+|+. ..+.+  .+...++.. .+.+++++||++|.|++++|++|++.+
T Consensus       207 K~Dl~-~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l  253 (255)
T 3c5h_A          207 KCDEG-VERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLI  253 (255)
T ss_dssp             CGGGB-CHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ccccc-ccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            99996 32222  345556655 378999999999999999999999876

>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=99.59  E-value=5.7e-15  Score=100.40  Aligned_cols=103  Identities=7%  Similarity=0.004  Sum_probs=76.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |-++|+.++..|+.+++. +++|||+++ .+|.....|+..+... ...++|+++|+||+|+. ..  ........... 
T Consensus        53 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~--~~~~~~~~~~~~  128 (164)
T 1r8s_A           53 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP-NA--MNAAEITDKLGL  128 (164)
T ss_dssp             CCGGGHHHHHHHTTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             CChhhHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCc-CC--CCHHHHHHHhCc
Confidence            446788889888888766 788889987 8999999999988653 22578999999999997 32  22222221111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+++++++||++|.|++++|++|++.+.+
T Consensus       129 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          129 HSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             GGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             ccccCccEEEEEcccCCCcCHHHHHHHHHHHHhh
Confidence                123468999999999999999999987743

>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=99.59  E-value=3.9e-15  Score=103.65  Aligned_cols=103  Identities=13%  Similarity=0.077  Sum_probs=76.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|.....|+.++... ...++|+++|+||+|+. ...  ...+...... 
T Consensus        69 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~~~--~~~~~~~~~~~  144 (181)
T 1fzq_A           69 GQRKIRPYWRSYFENTDI-LIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL-TAA--PASEIAEGLNL  144 (181)
T ss_dssp             SCGGGHHHHHHHHTTCSE-EEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTST-TCC--CHHHHHHHTTG
T ss_pred             CCHHHHHHHHHHhCCCCE-EEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcc-cCC--CHHHHHHHhCc
Confidence            446788889999988766 788889987 8999999999887553 22578999999999997 322  2222222111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+.+++++||++|.|++++|++|++.+.+
T Consensus       145 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          145 HTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             hhccCCceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence                124578999999999999999999987654

>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=99.59  E-value=1.7e-14  Score=100.57  Aligned_cols=103  Identities=11%  Similarity=0.035  Sum_probs=76.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |-++|+.++..|+++++. +++|||+++ .+|.....|+..+.... ..++|+++|+||+|+. .  .....+...... 
T Consensus        69 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~  144 (187)
T 1zj6_A           69 GQESLRSSWNTYYTNTEF-VIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVK-E--CMTVAEISQFLKL  144 (187)
T ss_dssp             C----CGGGHHHHTTCCE-EEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTST-T--CCCHHHHHHHHTG
T ss_pred             CCHhHHHHHHHHhcCCCE-EEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCc-C--CCCHHHHHHHhCh
Confidence            446789999999988765 788889987 89999999999987642 2578999999999997 2  223333333322 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+++++++||++|.|++++|++|++.+..
T Consensus       145 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          145 TSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHCC
T ss_pred             hhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence                234589999999999999999999987743

>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=99.59  E-value=2.2e-15  Score=103.06  Aligned_cols=103  Identities=13%  Similarity=0.102  Sum_probs=78.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHH-H--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQA-L--   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~-~--   79 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|.....|+..+.... ..++|+++|+||+|+. ...  ...+... +  
T Consensus        60 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~--~~~~~~~~~~~  135 (171)
T 1upt_A           60 GLTSIRPYWRCYYSNTDA-VIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDME-QAM--TSSEMANSLGL  135 (171)
T ss_dssp             CCGGGGGGGGGGCTTCSE-EEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TCC--CHHHHHHHHTG
T ss_pred             CChhhhHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCc-CCC--CHHHHHHHhCc
Confidence            456788999999987766 788889987 88999999998876642 2578999999999997 321  2222221 1  


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                        +...+++++++||++|.|++++|++|++.+.+
T Consensus       136 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          136 PALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             GGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhccCCceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence              12234579999999999999999999998754

>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=99.58  E-value=4.3e-15  Score=111.80  Aligned_cols=95  Identities=19%  Similarity=0.159  Sum_probs=77.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      -++|+++++.||++++. +++|||+++ . +|..+..|+.++..   .++|+++|+||+||. +.+.+  .+...++..+
T Consensus        71 qer~~~l~~~~~~~ad~-vilV~D~~~~~~s~~~l~~~l~~~~~---~~~piilv~NK~DL~-~~~~v--~~~~~~~~~~  143 (301)
T 1u0l_A           71 LHRKNLLTKPHVANVDQ-VILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLY-DEDDL--RKVRELEEIY  143 (301)
T ss_dssp             CCCSCEETTTTEESCCE-EEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGC-CHHHH--HHHHHHHHHH
T ss_pred             ccccceeeccccccCCE-EEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEeHHHcC-CchhH--HHHHHHHHHH
Confidence            47999999999999877 788889986 5 78999999998865   478999999999997 32221  3355666766


Q ss_pred             C--CcEEEecCCCCCCHHHHHHHHHH
Q 032001           84 G--IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        84 ~--~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      +  .+++++||++|.|++++|..+..
T Consensus       144 ~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          144 SGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             TTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             hhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            6  89999999999999999988764

>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=99.57  E-value=9.6e-15  Score=101.38  Aligned_cols=100  Identities=10%  Similarity=0.022  Sum_probs=76.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|+.++..|+++++. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. .  .....+...... 
T Consensus        74 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~--~~~~~~i~~~~~~  149 (181)
T 2h17_A           74 GQESLRSSWNTYYTNTEF-VIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVK-E--CMTVAEISQFLKL  149 (181)
T ss_dssp             SSGGGTCGGGGGGTTCCE-EEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-T--CCCHHHHHHHTTG
T ss_pred             CCHhHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcc-c--CCCHHHHHHHhCc
Confidence            457889999999988765 788889987 89999999998887642 2578999999999997 2  222333333221 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                          ..+++++++||++|.|++++|++|++.
T Consensus       150 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          150 TSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             ccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence                234579999999999999999999753

>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=99.57  E-value=1.2e-14  Score=101.04  Aligned_cols=103  Identities=12%  Similarity=0.056  Sum_probs=78.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |-++|+.++..++.+++. +++|||+++ .+|..+..|+.++.... ..++|+++|+||+|+. ..  ....+...... 
T Consensus        71 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~--~~~~~~~~~~~~  146 (186)
T 1ksh_A           71 GQKSLRSYWRNYFESTDG-LIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP-GA--LSCNAIQEALEL  146 (186)
T ss_dssp             CSHHHHTTGGGGCTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             CCHhHHHHHHHHhcCCCE-EEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCC-CC--CCHHHHHHHhCh
Confidence            346788899999888765 788889987 88999999998887642 2578999999999997 32  22233222211 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+.+++++||++|.|++++|++|++.+.+
T Consensus       147 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  180 (186)
T 1ksh_A          147 DSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  180 (186)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence                234579999999999999999999998754

>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=99.57  E-value=2.1e-14  Score=108.18  Aligned_cols=105  Identities=24%  Similarity=0.357  Sum_probs=87.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~   71 (149)
                      |-++|..++..|+++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+...           .+.+
T Consensus       212 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v  289 (332)
T 2wkq_A          212 GLEDYDRLRPLSYPQTDV-FLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPI  289 (332)
T ss_dssp             CCGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCC
T ss_pred             CchhhhHHHHHhccCCCE-EEEEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccc
Confidence            447888999999888766 788889987 8899987 7988887765 37999999999998621           1456


Q ss_pred             CHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        72 ~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ...++..++...+. +++++||++|.|++++|+.|++.+..
T Consensus       290 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          290 TYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             CHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            67778888888886 99999999999999999999988754

>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=99.57  E-value=1.6e-15  Score=106.68  Aligned_cols=102  Identities=10%  Similarity=0.029  Sum_probs=73.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |-++|+.++..++++++. +++|||+++ .+|.....|+..+.... ..++|+++|+||+|+. ..  ....+...... 
T Consensus        82 G~~~~~~~~~~~~~~~d~-iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~-~~--~~~~~i~~~~~~  157 (192)
T 2b6h_A           82 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMP-NA--MPVSELTDKLGL  157 (192)
T ss_dssp             -----CTTHHHHHHTCCE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             CCHhHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCC-CC--CCHHHHHHHhCc
Confidence            346788999999988766 788889987 89999999999886532 2578999999999997 32  22222221111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                          ..+++++++||++|.|++++|++|++.+.
T Consensus       158 ~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          158 QHLRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             GGCSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             ccccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence                12346899999999999999999998763

>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=99.56  E-value=1.2e-14  Score=102.24  Aligned_cols=102  Identities=12%  Similarity=0.102  Sum_probs=75.5

Q ss_pred             ccccccccc---hhhhhhcCeEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC------CCCCC
Q 032001            5 RCLCFIGVY---PPYLAVLCRFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES------KRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~---~~~~~~~~~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~------~~~~~   72 (149)
                      |.++|..+.   ..||++++. +++|||+++   +++..+..|+.++.... .++|+++|+||+|+...      .+.+.
T Consensus        78 G~~~~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~l~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~v~  155 (196)
T 3llu_A           78 GQMDFFDPTFDYEMIFRGTGA-LIYVIDAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIHKVDGLSDDHKIETQRDIH  155 (196)
T ss_dssp             SSCCTTCTTCCHHHHHHTCSE-EEEEEETTSCCHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             CCHHHHhhhhhcccccccCCE-EEEEEECCCchHHHHHHHHHHHHHHHhcC-CCCcEEEEEeccccCchhhhhHHHhHHH
Confidence            457787777   788888766 788889986   56666777777765433 58999999999998611      12233


Q ss_pred             HHHHHHHHH----HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           73 TSKGQALAD----EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        73 ~~~~~~~~~----~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ......++.    ..+++++++||++ .||+++|..+++.+
T Consensus       156 ~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          156 QRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            334455566    5567899999999 99999999999764

>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=99.56  E-value=3.5e-14  Score=98.23  Aligned_cols=104  Identities=13%  Similarity=0.036  Sum_probs=77.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|+.++..++.+++. +++|+|+++ .+|.....|+..+.... ..++|+++|+||+|+. .  .....+.......
T Consensus        71 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~--~~~~~~i~~~~~~  146 (183)
T 1moz_A           71 GQTSIRPYWRCYYADTAA-VIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQP-G--ALSASEVSKELNL  146 (183)
T ss_dssp             ----CCTTGGGTTTTEEE-EEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTST-T--CCCHHHHHHHTTT
T ss_pred             CCHhHHHHHHHHhccCCE-EEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCC-C--CCCHHHHHHHhCc
Confidence            346788899999887755 788889987 89999999999887643 3678999999999997 2  2223333322211


Q ss_pred             -----hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 -----YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 -----~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                           .+.+++++||++|.|++++|++|++.+.++
T Consensus       147 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          147 VELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             TTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             ccccCCceEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence                 234789999999999999999999988654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.56  E-value=4.1e-15  Score=103.75  Aligned_cols=104  Identities=7%  Similarity=-0.005  Sum_probs=78.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALA--   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~--   80 (149)
                      |-++|+.++..|+++++. +++|+|+++ .+|.....|+..+.... ..++|+++|+||+|+. ..  ....+.....  
T Consensus        75 G~~~~~~~~~~~~~~~d~-ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~--~~~~~~~~~~~~  150 (189)
T 2x77_A           75 GQTGVRPYWRCYFSDTDA-VIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLP-DA--ASEAEIAEQLGV  150 (189)
T ss_dssp             CSSSSCCCCSSSSTTCCE-EEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             CCHhHHHHHHHHhhcCCE-EEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCc-CC--CCHHHHHHHhCh
Confidence            346788999999887766 788889987 88999999998886643 2578999999999997 32  1222222111  


Q ss_pred             ---HHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           81 ---DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        81 ---~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                         ...+.+++++||++|.|++++|++|.+.+.+.
T Consensus       151 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          151 SSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             hhccCCceEEEEccCCCccCHHHHHHHHHHHHHhc
Confidence               12235799999999999999999999988653

>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=99.55  E-value=2.4e-13  Score=95.75  Aligned_cols=108  Identities=30%  Similarity=0.512  Sum_probs=90.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|+.++..++.+.+. +++|||+++ .+|..+..|+..+......+.|+++|+||+|+. ..+.+....+..++...
T Consensus        63 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-~~~~~~~~~a~~l~~~~  140 (199)
T 2f9l_A           63 GQERYRRITSAYYRGAVG-ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEKN  140 (199)
T ss_dssp             SGGGTTCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhhhhHHHHhcCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-cccCcCHHHHHHHHHHc
Confidence            346788889988887655 788899987 889999999988876554678999999999997 54556667778888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      ++.++.+||+++.|++++|+.|.+.+.+...
T Consensus       141 ~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~~  171 (199)
T 2f9l_A          141 NLSFIETSALDSTNVEEAFKNILTEIYRIVS  171 (199)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999998876543

>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=99.54  E-value=1.4e-14  Score=101.27  Aligned_cols=102  Identities=14%  Similarity=0.158  Sum_probs=76.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. ..  ....+...... 
T Consensus        76 G~~~~~~~~~~~~~~~d~-ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-~~--~~~~~~~~~~~~  151 (188)
T 1zd9_A           76 GQPRFRSMWERYCRGVSA-IVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP-GA--LDEKELIEKMNL  151 (188)
T ss_dssp             CSHHHHTTHHHHHTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             CCHhHHHHHHHHHccCCE-EEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCc-cC--CCHHHHHHHhCh
Confidence            446788899999887765 788889987 89999999998886632 2578999999999997 22  22222221111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                          ..+.+++++||++|.|++++|++|++.+.
T Consensus       152 ~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  184 (188)
T 1zd9_A          152 SAIQDREICCYSISCKEKDNIDITLQWLIQHSK  184 (188)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC
T ss_pred             hhhccCCeeEEEEECCCCCCHHHHHHHHHHHHH
Confidence                12357899999999999999999998664

>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=99.53  E-value=7.1e-15  Score=102.47  Aligned_cols=105  Identities=14%  Similarity=0.260  Sum_probs=78.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC---HHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP---TSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~---~~~~~~~   79 (149)
                      |-++|..+++.|+++.+. +++|||+++  .+|+.+..|+.++.... .++|+++|+||+|+. ..+.+.   ......+
T Consensus        65 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~  141 (184)
T 2zej_A           65 GREEFYSTHPHFMTQRAL-YLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVS-DEKQRKACMSKITKEL  141 (184)
T ss_dssp             SHHHHHTTSHHHHHHSEE-EEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGC-CHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHhhHHHccCCcE-EEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcc-cchhhHHHHHHHHHHH
Confidence            346788899888887654 778899986  47999999999987654 478999999999987 322211   1122334


Q ss_pred             HHHhCCc----EEEecCCCCC-CHHHHHHHHHHHHHHH
Q 032001           80 ADEYGIK----FFETSAKTNL-NVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~~~----~~~~Sak~~~-~i~el~~~l~~~i~~~  112 (149)
                      ++..+++    ++++||++|. ++++++..+.+.+.+.
T Consensus       142 ~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          142 LNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             TTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHCC
T ss_pred             HHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhcc
Confidence            4445665    8999999996 9999999999877653

>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=99.26  E-value=1.3e-15  Score=107.62  Aligned_cols=102  Identities=25%  Similarity=0.395  Sum_probs=80.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCC------------C
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKR------------A   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~------------~   70 (149)
                      |-++|..++..|+++++. +++|||+++ .+|..+. .|+..+.... .++|+++|+||+|+. ...            .
T Consensus        87 G~~~~~~~~~~~~~~~d~-iilv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~-~~~~~~~~~~~~~~~~  163 (204)
T 3th5_A           87 GQEDYDRLRPLSYPQTDV-FLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLR-DDKDTIEKLKEKKLTP  163 (204)
Confidence            346788899999888765 788889987 8899886 8988887654 378999999999997 322            3


Q ss_pred             CCHHHHHHHHHHhCC-cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           71 VPTSKGQALADEYGI-KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        71 ~~~~~~~~~~~~~~~-~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +....+..+++..+. +++++||++|.|++++|++|++.+
T Consensus       164 v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          164 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            344455666777776 899999999999999999998754

>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=99.49  E-value=2.3e-14  Score=110.05  Aligned_cols=107  Identities=15%  Similarity=0.053  Sum_probs=82.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCC----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESK----   68 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~----   68 (149)
                      |-++|+++|+.||+++++ +|+|||+++           .++.....|+..+..+. ..++|+|+++||+|+.+..    
T Consensus       202 GQe~~r~~w~~yf~~a~~-iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~  280 (353)
T 1cip_A          202 GQRSERKKWIHCFEGVTA-IIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKS  280 (353)
T ss_dssp             CSGGGGGGGGGGCTTCSE-EEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTS
T ss_pred             CchhhhHHHHHHHhcCCE-EEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhcccc
Confidence            457899999999999876 688888886           35888888888887632 2579999999999985110    


Q ss_pred             ----------CCCCHHHHHHHHHH-----------hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           69 ----------RAVPTSKGQALADE-----------YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        69 ----------~~~~~~~~~~~~~~-----------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                ..+...++..++..           .++.++++||+++.||.++|.++++.+...
T Consensus       281 ~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          281 PLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             CGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence                      02455666666652           356788999999999999999999988654

>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=99.49  E-value=6.1e-13  Score=93.32  Aligned_cols=103  Identities=32%  Similarity=0.563  Sum_probs=86.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|+.++..++.+.+. +++|||+++ .+|+.+..|+.++......+.|+++|+||+|+. ..+.+....+..++...
T Consensus        87 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-~~~~~~~~~a~~l~~~~  164 (191)
T 1oix_A           87 GLERYRAITSAYYRGAVG-ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEKN  164 (191)
T ss_dssp             SCCSSSCCCHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CCcchhhhhHHHhhcCCE-EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-cccccCHHHHHHHHHHc
Confidence            346788999999887655 688889987 789999899988876554678999999999997 44556677788888888


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ++.++.+||+++.+++++|+.|.+.+
T Consensus       165 ~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          165 GLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            89999999999999999999998765

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.48  E-value=1.5e-13  Score=104.54  Aligned_cols=103  Identities=7%  Similarity=-0.008  Sum_probs=74.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|..++..|+++++. +++|||+++ .+|..+..|+..+.... ..++|+++|+||+|+. ...  .......... 
T Consensus       218 G~~~~~~~~~~~~~~ad~-vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~-~~~--~~~~i~~~~~~  293 (329)
T 3o47_A          218 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP-NAM--NAAEITDKLGL  293 (329)
T ss_dssp             -----CCSHHHHHTTEEE-EEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TCC--CHHHHHHHHTC
T ss_pred             CCHhHHHHHHHHhccCCE-EEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCC-ccc--CHHHHHHHhch
Confidence            457899999999988755 788899987 89999998888876533 2579999999999997 221  2222222111 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+++++++||++|.||+++|++|++.+.+
T Consensus       294 ~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          294 HSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             TTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             hhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence                123468999999999999999999987743

>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=99.46  E-value=5.1e-14  Score=108.20  Aligned_cols=107  Identities=12%  Similarity=0.088  Sum_probs=79.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCC----------h-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcC-CCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIA----------S-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDES-KRAV   71 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~----------~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~-~~~~   71 (149)
                      |-++|+++|+.||+++++ +|+|||++          + .+|.....|+..+.+.. ..++|+|+|+||+|+.+. ...+
T Consensus       192 GQe~~r~~~~~y~~~~~~-iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~k~~~v  270 (354)
T 2xtz_A          192 GQRNERRKWIHLFEGVTA-VIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIFEKKVLDV  270 (354)
T ss_dssp             CSTTGGGGTGGGCTTEEE-EEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHTTTS
T ss_pred             CchhhhHHHHHHhCCCCE-EEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchhhhhcccc
Confidence            457899999999999876 78888986          5 78999999999887642 267999999999998511 0011


Q ss_pred             -------------------CHHHHHHHHHH----------------hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           72 -------------------PTSKGQALADE----------------YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        72 -------------------~~~~~~~~~~~----------------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                         ..+++..++..                ..+.++++||+++.||.++|+++++.+...
T Consensus       271 ~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~~I~~~  346 (354)
T 2xtz_A          271 PLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDETLRRR  346 (354)
T ss_dssp             CGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHHHHHHHH
Confidence                               12344444322                123468999999999999999999988654

>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=99.43  E-value=2.3e-13  Score=102.39  Aligned_cols=97  Identities=16%  Similarity=0.060  Sum_probs=75.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-h-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-Y-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQALADE   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~~   82 (149)
                      -+||..+.+.|+++++. +++|+|+++ . ++..++.|+..+..   .++|+++|+||+|+. +...+. ......+.+.
T Consensus        66 ~er~~~l~r~~~~naD~-vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~-~~~~v~~~~~~~~~~~~  140 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDR-VIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLL-NEEEKKELERWISIYRD  140 (302)
T ss_dssp             CCCSCEEETTEEESCCE-EEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGC-CHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHhHHHHHhcCE-EEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCC-CccccHHHHHHHHHHHH
Confidence            47889999999998877 688889984 4 89989999998766   578999999999997 322111 2333445566


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      .+.+++++||++|.|+++++..+..
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            7889999999999999999987643

>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=99.43  E-value=2.4e-13  Score=93.10  Aligned_cols=92  Identities=14%  Similarity=0.123  Sum_probs=69.1

Q ss_pred             ccchhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE
Q 032001           11 GVYPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE   89 (149)
Q Consensus        11 ~~~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   89 (149)
                      .+...|++ ...+++++|+|.++  ++....|+.++.+   .++|+++|+||+|+. ..+.+.. ....+++..+.++++
T Consensus        71 ~~~~~~~~~~~~~~~i~v~D~~~--~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~-~~~~~~~-~~~~~~~~~~~~~~~  143 (165)
T 2wji_A           71 IIARDYIINEKPDLVVNIVDATA--LERNLYLTLQLME---MGANLLLALNKMDLA-KSLGIEI-DVDKLEKILGVKVVP  143 (165)
T ss_dssp             HHHHHHHHHHCCSEEEEEEETTC--HHHHHHHHHHHHH---TTCCEEEEEECHHHH-HHTTCCC-CHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhcCCCCEEEEEecCCc--hhHhHHHHHHHHh---cCCCEEEEEEchHhc-cccChhh-HHHHHHHHhCCCEEE
Confidence            45577776 24567889999885  3445668887765   368999999999986 3223322 345677778899999


Q ss_pred             ecCCCCCCHHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i  109 (149)
                      +||++|.|++++|++|++.+
T Consensus       144 ~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          144 LSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             CBGGGTBSHHHHHHHHHHHT
T ss_pred             EEcCCCCCHHHHHHHHHHHh
Confidence            99999999999999998764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.41  E-value=6.9e-14  Score=106.19  Aligned_cols=103  Identities=14%  Similarity=0.120  Sum_probs=72.5

Q ss_pred             ccccccc---cchhhhhhcCeEEEEEeeCChh---hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-------CCC
Q 032001            5 RCLCFIG---VYPPYLAVLCRFKYCTYKIASY---HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK-------RAV   71 (149)
Q Consensus         5 ~~~~~~~---~~~~~~~~~~~~vi~v~~~~~~---s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-------~~~   71 (149)
                      |-|+|++   +++.||+++++ +++|||+++.   ++.....|+.++.... +++|++++|||+|+. ..       +.+
T Consensus        55 GQErf~~~~l~~~~yyr~a~~-~IlV~Ditd~~~~~~~~l~~~l~~~~~~~-~~ipillvgNK~DL~-~~~~R~~~~R~V  131 (331)
T 3r7w_B           55 GQLNYFEPSYDSERLFKSVGA-LVYVIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHKVDGL-SEDFKVDAQRDI  131 (331)
T ss_dssp             SCSSSCCCSHHHHHHHTTCSE-EEEECCCSSCTTHHHHHHHHHHHHHHHHC-TTCEEEEECCCCCSS-CSHHHHHHHHHH
T ss_pred             CchhccchhhhhhhhccCCCE-EEEEEECCchHHHHHHHHHHHHHHHhhcC-CCCcEEEEEECcccC-chhhhhhHHHHh
Confidence            5678875   46889988766 7888899864   2333334455544433 579999999999997 32       223


Q ss_pred             CHHHHHHHHHH----hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           72 PTSKGQALADE----YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        72 ~~~~~~~~~~~----~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ...++..+++.    .++.++++||++ .+|.++|..+++.+..
T Consensus       132 ~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          132 MQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             HHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSST
T ss_pred             hHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHh
Confidence            34445555554    467899999997 6999999999976643

>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=99.40  E-value=8.5e-13  Score=91.56  Aligned_cols=103  Identities=17%  Similarity=0.146  Sum_probs=73.9

Q ss_pred             cccccccchhhhhh-cCeEEEEEeeCCh-hhHHHH-HHHHHH--------HHH-hcCCCCeEEEEeeCCCCCcCCCCCCH
Q 032001            6 CLCFIGVYPPYLAV-LCRFKYCTYKIAS-YHFSDI-RNWIRN--------IEQ-HASDNVNKVLVGNKADMDESKRAVPT   73 (149)
Q Consensus         6 ~~~~~~~~~~~~~~-~~~~vi~v~~~~~-~s~~~~-~~~~~~--------i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~   73 (149)
                      .++|..++..|+++ ++. +++++++.+ .+|..+ ..|...        +.. ....++|+++|+||+|+. ...   .
T Consensus        65 ~~~~~~~~~~~~~~~~~~-~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~---~  139 (190)
T 2cxx_A           65 QERIKDEIVHFIEDNAKN-IDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKI-KNV---Q  139 (190)
T ss_dssp             HHHHHHHHHHHHHHHGGG-CCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGC-SCH---H
T ss_pred             HHHHHHHHHHHHHhhhcc-CCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhcc-CcH---H
Confidence            46788889999987 554 344444444 677776 677653        222 122578999999999997 322   4


Q ss_pred             HHHHHHHHHhCCc-------EEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           74 SKGQALADEYGIK-------FFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        74 ~~~~~~~~~~~~~-------~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      .....+++..+.+       ++++||++|.|++++|++|++.+.+..
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  186 (190)
T 2cxx_A          140 EVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQ  186 (190)
T ss_dssp             HHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhh
Confidence            5566777777753       699999999999999999999886643

>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=99.40  E-value=1.3e-13  Score=104.86  Aligned_cols=106  Identities=14%  Similarity=0.064  Sum_probs=80.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeC----------Ch-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCC---
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKI----------AS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKR---   69 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~----------~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~---   69 (149)
                      |-++|+++|.+||+++.+ +|+|||+          ++ .++.....|+..+.... ..++|+++++||+|+. ..+   
T Consensus       176 GQe~~R~~w~~yf~~~~~-iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~-~~ki~~  253 (327)
T 3ohm_A          176 GQRSERRKWIHCFENVTS-IMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL-EEKIMY  253 (327)
T ss_dssp             CSHHHHTTGGGGCSSCSE-EEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHH-HHHTTT
T ss_pred             CchhHHHHHHHHhCCCCE-EEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhh-hhhhcc
Confidence            457899999999999877 6777754          34 67888888888876532 2679999999999985 211   


Q ss_pred             -------------CCCHHHHHHHHH----------HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           70 -------------AVPTSKGQALAD----------EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        70 -------------~~~~~~~~~~~~----------~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                   .+..+.+..+..          ..++.++++||+++.||+++|..+++.+.+.
T Consensus       254 ~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          254 SHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             SCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             chHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence                         344555655532          2345678999999999999999999988764

>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=99.39  E-value=5.8e-13  Score=103.74  Aligned_cols=106  Identities=12%  Similarity=0.023  Sum_probs=79.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCC--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRA--   70 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~--   70 (149)
                      |-++|+++|+.||+++.+ +|+|||+++           .+|.....|+..+.+.. ..++|+|+|+||+|+. ..+.  
T Consensus       226 GQe~~r~~w~~yf~~a~~-iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~-~~ki~~  303 (402)
T 1azs_C          226 GQRDERRKWIQCFNDVTA-IIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL-AEKVLA  303 (402)
T ss_dssp             CSGGGGGGGGGGTTTCCE-EEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHH-HHHHHH
T ss_pred             hhhhhhhhhHhhccCCCE-EEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhh-hhhhcc
Confidence            557899999999998876 788888875           58999999999987742 3679999999999985 2111  


Q ss_pred             -C---------------------------CHHHHHHH-----HHH--------hCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           71 -V---------------------------PTSKGQAL-----ADE--------YGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        71 -~---------------------------~~~~~~~~-----~~~--------~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                       +                           ....+..+     +..        .++.++++||+++.||.++|..+.+.+
T Consensus       304 ~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF~~v~~~I  383 (402)
T 1azs_C          304 GKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDII  383 (402)
T ss_dssp             CSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             cccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHHHHHHHHH
Confidence             1                           02334333     222        134567999999999999999999888


Q ss_pred             HHH
Q 032001          110 KQR  112 (149)
Q Consensus       110 ~~~  112 (149)
                      ...
T Consensus       384 ~~~  386 (402)
T 1azs_C          384 QRM  386 (402)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.39  E-value=3.1e-12  Score=92.00  Aligned_cols=94  Identities=20%  Similarity=0.140  Sum_probs=68.3

Q ss_pred             hhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH---HHHHHHHHhC--CcEEE
Q 032001           18 AVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS---KGQALADEYG--IKFFE   89 (149)
Q Consensus        18 ~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~---~~~~~~~~~~--~~~~~   89 (149)
                      ....+++++|||+++ .+|.  ....|+..+.... .++|+++|+||+|+. ..+.+...   ....++...+  .++++
T Consensus       106 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (228)
T 2qu8_A          106 AHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKC-NMDSLSIDNKLLIKQILDNVKNPIKFSS  183 (228)
T ss_dssp             HTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGC-C--CCCHHHHHHHHHHHHHCCSCEEEEE
T ss_pred             hccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccC-CchhhHHHHHHHHHHHHHhcCCCceEEE
Confidence            344567899999987 6664  2346666665432 378999999999997 44444443   3455666666  78999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +||++|.||+++|++|++.+.+..
T Consensus       184 ~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          184 FSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EecccCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999887553

>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=99.38  E-value=2.1e-12  Score=91.65  Aligned_cols=100  Identities=13%  Similarity=0.160  Sum_probs=64.2

Q ss_pred             cccccc-cchhhhhhcCeEEEEEeeCCh--hhHHHHHHHHHH-HHHh--cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            6 CLCFIG-VYPPYLAVLCRFKYCTYKIAS--YHFSDIRNWIRN-IEQH--ASDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         6 ~~~~~~-~~~~~~~~~~~~vi~v~~~~~--~s~~~~~~~~~~-i~~~--~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      -++|+. ++..|+++++. +++|||+++  .++.....|+.. +...  ...++|+++|+||+|+. ..... ......+
T Consensus        64 ~~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~-~~~~~~l  140 (214)
T 2fh5_B           64 HESLRFQLLDRFKSSARA-VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIA-MAKSA-KLIQQQL  140 (214)
T ss_dssp             CHHHHHHHHHHHGGGEEE-EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTST-TCCCH-HHHHHHH
T ss_pred             ChhHHHHHHHHHHhhCCE-EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCC-CcccH-HHHHHHH
Confidence            456776 78888777655 788889986  346565554444 4332  23578999999999997 32221 1111111


Q ss_pred             H---H---------------------------------Hh--CCcEEEecCCCC------CCHHHHHHHHHHH
Q 032001           80 A---D---------------------------------EY--GIKFFETSAKTN------LNVEQVFFSIARD  108 (149)
Q Consensus        80 ~---~---------------------------------~~--~~~~~~~Sak~~------~~i~el~~~l~~~  108 (149)
                      .   .                                 ..  +.+++++||++|      .||+++|++|++.
T Consensus       141 ~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          141 EKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             HHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             HHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence            1   1                                 01  457999999999      9999999999874

>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=99.37  E-value=3.8e-13  Score=103.59  Aligned_cols=107  Identities=16%  Similarity=0.066  Sum_probs=75.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCC----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-----------YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESK----   68 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-----------~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~----   68 (149)
                      |-++|+++|+.||+++.+ +|+|||+++           .++.....|+..+.+.. ..++|+|+++||+|+.+..    
T Consensus       210 Gq~~~r~~w~~~f~~~~~-iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~  288 (362)
T 1zcb_A          210 GQRSERKRWFECFDSVTS-ILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVV  288 (362)
T ss_dssp             C-------CTTSCTTCCE-EEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTC
T ss_pred             chhhhhhhHHHHhCCCCE-EEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhcccc
Confidence            457899999999998876 677778875           47888889998887642 2579999999999985111    


Q ss_pred             -----------CCCCHHHHHHHHH-----------HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           69 -----------RAVPTSKGQALAD-----------EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        69 -----------~~~~~~~~~~~~~-----------~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                 ..+....+..++.           ..++.++++||+++.||.++|.++++.+...
T Consensus       289 ~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~  354 (362)
T 1zcb_A          289 SIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  354 (362)
T ss_dssp             CGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHH
Confidence                       1144555555541           2346788999999999999999999988654

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.33  E-value=2.4e-12  Score=97.01  Aligned_cols=97  Identities=15%  Similarity=0.177  Sum_probs=74.1

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCCcC--CCC----CCHHHHHHHH
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDES--KRA----VPTSKGQALA   80 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~--~~~~~iilv~nK~Dl~~~--~~~----~~~~~~~~~~   80 (149)
                      ..++..||++++. +++|||+++ .+|+.+..|...+....  .+++|+++|+||+|+. .  .+.    +....+..++
T Consensus        71 ~~~~~~~~~~ad~-vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~-~~~~r~~~~~v~~~~~~~~~  148 (307)
T 3r7w_A           71 TKQKDHIFQMVQV-LIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLV-QLDKREELFQIMMKNLSETS  148 (307)
T ss_dssp             TTTHHHHHTTCSE-EEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGS-CHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHhccCCE-EEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEeccccc-chhhhhHHHHHHHHHHHHHH
Confidence            6788888887765 788899997 89999987765554321  3579999999999997 3  222    3345566777


Q ss_pred             HHhC---CcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           81 DEYG---IKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        81 ~~~~---~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ...|   .+++++||++ .++.++|..++..+
T Consensus       149 ~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          149 SEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             HTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             HHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            7776   6899999999 88999988887643

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.33  E-value=2.8e-12  Score=103.15  Aligned_cols=102  Identities=16%  Similarity=0.131  Sum_probs=78.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      |-++|..++..++++. +++++|+|++.  ++....|+..+.... .+.|+|+|+||+|+. ..+.+.......++...+
T Consensus       107 G~e~~~~~~~~~l~~~-d~ii~V~D~s~--~~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~-~~~~v~~~~~~~~~~~~~  181 (535)
T 3dpu_A          107 GQEIMHASHQFFMTRS-SVYMLLLDSRT--DSNKHYWLRHIEKYG-GKSPVIVVMNKIDEN-PSYNIEQKKINERFPAIE  181 (535)
T ss_dssp             SCCTTTTTCHHHHHSS-EEEEEEECGGG--GGGHHHHHHHHHHHS-SSCCEEEEECCTTTC-TTCCCCHHHHHHHCGGGT
T ss_pred             cHHHHHHHHHHHccCC-cEEEEEEeCCC--chhHHHHHHHHHHhC-CCCCEEEEEECCCcc-cccccCHHHHHHHHHhcC
Confidence            3467888888888875 55788888874  467789999998866 468999999999997 556666667777777778


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++||++|.|++++|+.|++.+.+
T Consensus       182 ~~~~~vSA~~g~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          182 NRFHRISCKNGDGVESIAKSLKSAVLH  208 (535)
T ss_dssp             TCEEECCC-----CTTHHHHHHHHHTC
T ss_pred             CceEEEecCcccCHHHHHHHHHHHHhc
Confidence            889999999999999999999988754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.32  E-value=2.1e-12  Score=89.63  Aligned_cols=95  Identities=15%  Similarity=0.132  Sum_probs=72.9

Q ss_pred             ccchhhhhh-cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE
Q 032001           11 GVYPPYLAV-LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE   89 (149)
Q Consensus        11 ~~~~~~~~~-~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   89 (149)
                      .++..|++. ..+++++|+|.+  +++....|+..+..   .++|+++|+||+|+. ....+. .....+++..+.++++
T Consensus        75 ~~~~~~~~~~~~~~~i~v~d~~--~~~~~~~~~~~~~~---~~~piilv~nK~Dl~-~~~~~~-~~~~~~~~~~~~~~~~  147 (188)
T 2wjg_A           75 IIARDYIINEKPDLVVNIVDAT--ALERNLYLTLQLME---MGANLLLALNKMDLA-KSLGIE-IDVDKLEKILGVKVVP  147 (188)
T ss_dssp             HHHHHHHHHHCCSEEEEEEEGG--GHHHHHHHHHHHHT---TTCCEEEEEECHHHH-HHTTCC-CCHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhccCCCEEEEEecch--hHHHHHHHHHHHHh---cCCCEEEEEEhhhcc-ccccch-HHHHHHHHHhCCCeEE
Confidence            457777764 356688888887  46677788888765   468999999999986 322222 2455677778899999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +||+++.|++++|+++++.+.+.
T Consensus       148 ~Sa~~~~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          148 LSAAKKMGIEELKKAISIAVKDK  170 (188)
T ss_dssp             CBGGGTBSHHHHHHHHHHHHTTC
T ss_pred             EEecCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999887543

>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=99.32  E-value=6.7e-12  Score=99.22  Aligned_cols=103  Identities=10%  Similarity=-0.069  Sum_probs=76.1

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh--
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY--   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~--   83 (149)
                      -|+|..++..++...++++++|+|.+....+....|...+..   .++|+|+|+||+|+. ..+....++....+...  
T Consensus       263 ~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~---~~~~~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~  338 (456)
T 4dcu_A          263 TEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHE---AGKAVVIVVNKWDAV-DKDESTMKEFEENIRDHFQ  338 (456)
T ss_dssp             CSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH---TTCEEEEEEECGGGS-CCCSSHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHH---cCCCEEEEEEChhcC-CCchHHHHHHHHHHHHhcc
Confidence            377888888755556666888889886323445566666655   468999999999997 44444445555555443  


Q ss_pred             ---CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 ---GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ---~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                         +.+++++||++|.|++++|..+.+.+.+.
T Consensus       339 ~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          339 FLDYAPILFMSALTKKRIHTLMPAIIKASENH  370 (456)
T ss_dssp             GGTTSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             cCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence               47899999999999999999999877654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.31  E-value=9.1e-12  Score=85.44  Aligned_cols=100  Identities=17%  Similarity=0.059  Sum_probs=65.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~-   83 (149)
                      |-++|..++..++..++. +++|||+++........++..+..   .++|+++|+||+|+. ..   ............ 
T Consensus        64 G~~~~~~~~~~~~~~~d~-~i~v~d~~~~~~~~~~~~l~~~~~---~~~p~ilv~nK~Dl~-~~---~~~~~~~~~~~~~  135 (178)
T 2lkc_A           64 GHEAFTTMRARGAQVTDI-VILVVAADDGVMPQTVEAINHAKA---ANVPIIVAINKMDKP-EA---NPDRVMQELMEYN  135 (178)
T ss_dssp             SSSSSSCSCCSSCCCCCE-EEEEEETTCCCCHHHHHHHHHHGG---GSCCEEEEEETTTSS-CS---CHHHHHHHHTTTT
T ss_pred             CCHHHHHHHHHHHhhCCE-EEEEEECCCCCcHHHHHHHHHHHh---CCCCEEEEEECccCC-cC---CHHHHHHHHHhcC
Confidence            346788888888766654 788888875211222222233222   468999999999997 32   122222222221 


Q ss_pred             ------C--CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 ------G--IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ------~--~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                            +  .+++++||++|.|++++|++|++.+...
T Consensus       136 ~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          136 LVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             CCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHHT
T ss_pred             cChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhhh
Confidence                  1  4799999999999999999999877553

>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=99.29  E-value=4.2e-12  Score=88.54  Aligned_cols=98  Identities=10%  Similarity=0.082  Sum_probs=68.1

Q ss_pred             cccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            6 CLCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      .++|..++..|+.+..  +++++|+|.++ .++.... ++..+..   .++|+++|+||+|+. ....+.. ....+.+ 
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~-~~~~~~~-~~~~~~~~  162 (195)
T 1svi_A           89 REAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKI-PKGKWDK-HAKVVRQT  162 (195)
T ss_dssp             HHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGS-CGGGHHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccC-ChHHHHH-HHHHHHHH
Confidence            4677888888888774  66888999886 5565542 2222322   468999999999997 3222211 1122222 


Q ss_pred             ---HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 ---EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ---~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                         ..+.+++++||++|.|++++|++|.+.+
T Consensus       163 ~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          163 LNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             HTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HcccCCCceEEEEccCCCCHHHHHHHHHHHh
Confidence               2356899999999999999999999876

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.29  E-value=4.2e-12  Score=88.28  Aligned_cols=99  Identities=13%  Similarity=0.160  Sum_probs=68.1

Q ss_pred             cccccccchhhhhhcC--eEEEEEeeCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLC--RFKYCTYKIAS---YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQA   78 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~--~~vi~v~~~~~---~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~   78 (149)
                      .++|..++..|+++..  +++++|+|.+.   ..+..+..|+...      ++|+++|+||+|+. ....  ........
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~  160 (195)
T 3pqc_A           88 RMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKV-KMSERAKKLEEHRK  160 (195)
T ss_dssp             HHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGS-CGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcC-ChHHHHHHHHHHHH
Confidence            5568888899998874  56788888764   2233334454432      58999999999986 2221  11223334


Q ss_pred             HHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           79 LADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        79 ~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ++...+ .+++++||++|.|++++|++|.+.+.+
T Consensus       161 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          161 VFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             HHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            444433 689999999999999999999987743

>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=99.27  E-value=1.6e-12  Score=99.26  Aligned_cols=106  Identities=14%  Similarity=0.122  Sum_probs=79.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCC----------h-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCC----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIA----------S-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESK----   68 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~----------~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~----   68 (149)
                      |.++|+++|..||+++.+ +|+|||++          + .++.....|+..+.... ..++|+++++||+|+.+..    
T Consensus       170 GQe~~R~~w~~yy~~a~~-iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~  248 (340)
T 4fid_A          170 GQRSERKXWVSFFSDVDC-AIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKV  248 (340)
T ss_dssp             SCHHHHHHHHTTSCSCSE-EEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHS
T ss_pred             CcccccccHHHHhccCCE-EEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcc
Confidence            567899999999999877 67788886          5 78888888888887643 2679999999999985100    


Q ss_pred             ----------CCCCHHHHHHHH-HHh--------------------------CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           69 ----------RAVPTSKGQALA-DEY--------------------------GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        69 ----------~~~~~~~~~~~~-~~~--------------------------~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                                .....+.+..+. ..+                          ++.+.++||++..||..+|..+.+.+.+
T Consensus       249 ~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          249 PLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             CGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence                      011234443333 223                          2567899999999999999999999876

>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=99.26  E-value=1.5e-11  Score=92.69  Aligned_cols=99  Identities=12%  Similarity=0.040  Sum_probs=76.8

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC--
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG--   84 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--   84 (149)
                      .+...+..++.+++. +++|+|.++ .++.....|+..+..   .++|+++|+||+|+. ............+....+  
T Consensus        81 ~~~~~~~~~l~~aD~-il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~-~~~~~~~~~~~~l~~~~~~~  155 (308)
T 3iev_A           81 SMVEIAKQSLEEADV-ILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKI-GPAKNVLPLIDEIHKKHPEL  155 (308)
T ss_dssp             HHHHHHHHHHHHCSE-EEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGS-SSGGGGHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHhhcCCE-EEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCC-CCHHHHHHHHHHHHHhccCC
Confidence            344566777777655 788889987 778888888888766   368999999999986 334444555666777765  


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++||++|.|++++|+.|.+.+.+
T Consensus       156 ~~i~~vSA~~g~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          156 TEIVPISALKGANLDELVKTILKYLPE  182 (308)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHSCB
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHhCcc
Confidence            689999999999999999999987743

>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=99.23  E-value=3.2e-12  Score=88.17  Aligned_cols=85  Identities=12%  Similarity=0.068  Sum_probs=62.8

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      +++++ +++++|||.++ .+++ ...|+..+.+....++|+++|+||+|+. .....       ++...+.+++++||++
T Consensus        80 ~~~~a-d~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~-------~~~~~~~~~~~~SA~~  149 (172)
T 2gj8_A           80 EIEQA-DRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADIT-GETLG-------MSEVNGHALIRLSART  149 (172)
T ss_dssp             HHHTC-SEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHH-CCCCE-------EEEETTEEEEECCTTT
T ss_pred             HHHhC-CEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCC-cchhh-------hhhccCCceEEEeCCC
Confidence            45555 55888899987 6765 4578888877655679999999999986 22110       1112356899999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIK  110 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~  110 (149)
                      |.|++++|++|.+.+.
T Consensus       150 g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          150 GEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             CTTHHHHHHHHHHHC-
T ss_pred             CCCHHHHHHHHHHHhh
Confidence            9999999999998663

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.21  E-value=1.1e-10  Score=89.52  Aligned_cols=90  Identities=12%  Similarity=0.170  Sum_probs=70.6

Q ss_pred             hcCeEEEEEeeCCh-h--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCC
Q 032001           19 VLCRFKYCTYKIAS-Y--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTN   95 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~   95 (149)
                      ...+++++|+|+++ .  ++.....|+.++....+ +.|+++|+||.|+. ....  ......++...+.+++++||++|
T Consensus       245 ~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~-~~~~--~~~~~~~~~~~~~~~~~iSA~~g  320 (357)
T 2e87_A          245 YLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVA-DEEN--IKRLEKFVKEKGLNPIKISALKG  320 (357)
T ss_dssp             GTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTC-CHHH--HHHHHHHHHHTTCCCEECBTTTT
T ss_pred             hcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccC-ChHH--HHHHHHHHHhcCCCeEEEeCCCC
Confidence            34677899999876 4  68888899999877553 78999999999997 3211  13344555667789999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 032001           96 LNVEQVFFSIARDIKQR  112 (149)
Q Consensus        96 ~~i~el~~~l~~~i~~~  112 (149)
                      .|++++|+++.+.+...
T Consensus       321 ~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          321 TGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHH
Confidence            99999999999988654

>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=99.20  E-value=3.1e-11  Score=89.56  Aligned_cols=92  Identities=15%  Similarity=0.083  Sum_probs=69.1

Q ss_pred             ccchhhhhh-cCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE
Q 032001           11 GVYPPYLAV-LCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE   89 (149)
Q Consensus        11 ~~~~~~~~~-~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   89 (149)
                      .++..|+.. ..+++++|+|.++  ++....|...+..   .++|+++|+||+|+. ..+.+. .....++...++++++
T Consensus        70 ~v~~~~~~~~~~d~vi~V~D~t~--~e~~~~~~~~l~~---~~~p~ilv~NK~Dl~-~~~~~~-~~~~~l~~~lg~~vi~  142 (272)
T 3b1v_A           70 KVARDYLLSQRADSILNVVDATN--LERNLYLTTQLIE---TGIPVTIALNMIDVL-DGQGKK-INVDKLSYHLGVPVVA  142 (272)
T ss_dssp             HHHHHHHHTTCCSEEEEEEEGGG--HHHHHHHHHHHHH---TCSCEEEEEECHHHH-HHTTCC-CCHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhcCCCCEEEEEecCCc--hHhHHHHHHHHHh---cCCCEEEEEEChhhC-CcCCcH-HHHHHHHHHcCCCEEE
Confidence            456777764 4567899999986  2334567776665   468999999999986 322222 2345677778999999


Q ss_pred             ecCCCCCCHHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i  109 (149)
                      +||++|.|++++|+++++.+
T Consensus       143 ~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          143 TSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             CBTTTTBSHHHHHHHHHHSC
T ss_pred             EEccCCCCHHHHHHHHHHHH
Confidence            99999999999999998754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.19  E-value=9.4e-11  Score=92.16  Aligned_cols=100  Identities=12%  Similarity=-0.014  Sum_probs=71.2

Q ss_pred             ccccccchh-hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH-HHHHHH-
Q 032001            7 LCFIGVYPP-YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG-QALADE-   82 (149)
Q Consensus         7 ~~~~~~~~~-~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~-~~~~~~-   82 (149)
                      |+|..++.. ++++ ++++++|+|+++ .++.+. .|...+..   .++|+++|+||+|+. +.......+. ..+... 
T Consensus       244 e~~~~~~~~~~~~~-ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~-~~~~~~~~~~~~~~~~~l  317 (436)
T 2hjg_A          244 EKYSVLRALKAIDR-SEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAV-DKDESTMKEFEENIRDHF  317 (436)
T ss_dssp             SHHHHHHHHHHHHH-CSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGS-CCCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHh-CCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCC-CcchHHHHHHHHHHHHhc
Confidence            667666665 4555 566889999987 666654 57777665   468999999999997 4333322222 222222 


Q ss_pred             ---hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 ---YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ---~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                         .+.+++++||++|.|++++|..+.+.+.+.
T Consensus       318 ~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          318 QFLDYAPILFMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             GGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             ccCCCCCEEEEecccCCCHHHHHHHHHHHHHHh
Confidence               357899999999999999999999877653

>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=99.16  E-value=8.5e-11  Score=86.49  Aligned_cols=90  Identities=16%  Similarity=0.059  Sum_probs=67.2

Q ss_pred             hhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001           14 PPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA   92 (149)
Q Consensus        14 ~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   92 (149)
                      ..|+. ...+++++|+|.++  ++....|...+..   .++|+++|+||+|+. ..+.+.. ....+++..+++++++||
T Consensus        76 ~~~~~~~~~d~ii~V~D~t~--~~~~~~~~~~l~~---~~~pvilv~NK~Dl~-~~~~i~~-~~~~l~~~lg~~vi~~SA  148 (258)
T 3a1s_A           76 RDYLLKGDADLVILVADSVN--PEQSLYLLLEILE---MEKKVILAMTAIDEA-KKTGMKI-DRYELQKHLGIPVVFTSS  148 (258)
T ss_dssp             HHHHHHSCCSEEEEEEETTS--CHHHHHHHHHHHT---TTCCEEEEEECHHHH-HHTTCCB-CHHHHHHHHCSCEEECCT
T ss_pred             HHHHhhcCCCEEEEEeCCCc--hhhHHHHHHHHHh---cCCCEEEEEECcCCC-CccchHH-HHHHHHHHcCCCEEEEEe
Confidence            56665 35577899999986  2233457666655   368999999999986 3233322 256677888999999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~  110 (149)
                      ++|.|++++|+.+.+.+.
T Consensus       149 ~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          149 VTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             TTCTTHHHHHHHHHHHHH
T ss_pred             eCCcCHHHHHHHHHHHhh
Confidence            999999999999998664

>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=99.16  E-value=1.2e-10  Score=89.03  Aligned_cols=99  Identities=16%  Similarity=0.244  Sum_probs=76.0

Q ss_pred             cccccchhhhhh--cCeEEEEEeeCCh----hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            8 CFIGVYPPYLAV--LCRFKYCTYKIAS----YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         8 ~~~~~~~~~~~~--~~~~vi~v~~~~~----~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      .+..+...|++.  ..+++++|+|+++    .++.....|+.++..+..  .++|+++|+||+|+. ..    .+....+
T Consensus       222 ~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~-~~----~e~~~~l  296 (342)
T 1lnz_A          222 QGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMP-EA----AENLEAF  296 (342)
T ss_dssp             CTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTST-TH----HHHHHHH
T ss_pred             ccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCC-CC----HHHHHHH
Confidence            455677777765  2466888889863    578889999999987643  478999999999987 21    1334555


Q ss_pred             HHHhC--CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           80 ADEYG--IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        80 ~~~~~--~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+...  .+++++||+++.|+++++.+|.+.+.+
T Consensus       297 ~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          297 KEKLTDDYPVFPISAVTREGLRELLFEVANQLEN  330 (342)
T ss_dssp             HHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             HHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhh
Confidence            66655  689999999999999999999988744

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.16  E-value=3.6e-11  Score=85.61  Aligned_cols=101  Identities=11%  Similarity=-0.053  Sum_probs=66.8

Q ss_pred             ccccccchhhhhhcC--eEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLC--RFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALAD   81 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~--~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~   81 (149)
                      ++|..++..|++...  +++++|+|.++ .+ .....|+..+..   .++|+++|+||+|+. ......  .........
T Consensus       100 ~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~-~~~~~~~~~l~~---~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~l~  174 (223)
T 4dhe_A          100 AHWEQLLSSYLQTRPQLCGMILMMDARRPLT-ELDRRMIEWFAP---TGKPIHSLLTKCDKL-TRQESINALRATQKSLD  174 (223)
T ss_dssp             HHHHHHHHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHGG---GCCCEEEEEECGGGS-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcCcCEEEEEEeCCCCCC-HHHHHHHHHHHh---cCCCEEEEEeccccC-ChhhHHHHHHHHHHHHH
Confidence            556777888888853  45788888875 22 233455555544   468999999999987 221111  111122222


Q ss_pred             H-------hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 E-------YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~-------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .       .+.+++++||++|.|++++|++|.+.+...
T Consensus       175 ~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          175 AYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             HHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             hhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence            2       346899999999999999999999988544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.14  E-value=1.8e-11  Score=82.58  Aligned_cols=89  Identities=12%  Similarity=-0.007  Sum_probs=59.2

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cE
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KF   87 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~   87 (149)
                      ..++..++...+. +++|+|.++ .+.  ...|+.+....  .++|+++|+||+|+. ...    .....++ ..+. ++
T Consensus        70 ~~~~~~~~~~~~~-~i~v~d~~~~~~~--~~~~~~~~~~~--~~~p~ilv~nK~Dl~-~~~----~~~~~~~-~~~~~~~  138 (161)
T 2dyk_A           70 QEKVDRALEDAEV-VLFAVDGRAELTQ--ADYEVAEYLRR--KGKPVILVATKVDDP-KHE----LYLGPLY-GLGFGDP  138 (161)
T ss_dssp             HHHHHHHTTTCSE-EEEEEESSSCCCH--HHHHHHHHHHH--HTCCEEEEEECCCSG-GGG----GGCGGGG-GGSSCSC
T ss_pred             HHHHHHHHHhCCE-EEEEEECCCcccH--hHHHHHHHHHh--cCCCEEEEEECcccc-cch----HhHHHHH-hCCCCCe
Confidence            3445556666655 788889885 322  22333332222  358999999999997 321    2222333 4566 89


Q ss_pred             EEecCCCCCCHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +++||++|.|++++|++|++.+
T Consensus       139 ~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          139 IPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHC
T ss_pred             EEEecccCCChHHHHHHHHHhC
Confidence            9999999999999999998764

>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=99.12  E-value=8.6e-11  Score=83.91  Aligned_cols=102  Identities=13%  Similarity=-0.019  Sum_probs=61.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHH---hc--CCCCeEEEEeeCC-CCCcCCCCCCHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQ---HA--SDNVNKVLVGNKA-DMDESKRAVPTSKGQA   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~---~~--~~~~~iilv~nK~-Dl~~~~~~~~~~~~~~   78 (149)
                      |-+++|.+|..||.+.+++|++|.+.|.+.++ ....+.++..   ..  -.++|++|.+||. |++   ......+...
T Consensus       111 GQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp---~Ams~~EI~e  186 (227)
T 3l82_B          111 SRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV---KRMPCFYLAH  186 (227)
T ss_dssp             ------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS---CBCCHHHHHH
T ss_pred             cHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc---CCCCHHHHHH
Confidence            44689999999999998865555444434333 3333322222   11  1468999999995 776   2233344333


Q ss_pred             HHHH----hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           79 LADE----YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        79 ~~~~----~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ....    ..+.+..|||++|+|+.+.++||++.+.
T Consensus       187 ~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~  222 (227)
T 3l82_B          187 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  222 (227)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTT
T ss_pred             HcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHH
Confidence            2211    2346789999999999999999987663

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.12  E-value=1.8e-10  Score=88.89  Aligned_cols=97  Identities=20%  Similarity=0.214  Sum_probs=71.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----H
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL----A   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~----~   80 (149)
                      ..++|++++..+++..+. +++|+|+.+.    ...|..++.+.. .+.|+++|+||+|+. + ..........+    +
T Consensus        55 ~~e~f~~~l~~i~~~~~~-il~VvD~~d~----~~~~~~~l~~~~-~~~p~ilV~NK~DL~-~-~~~~~~~~~~~l~~~~  126 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDAL-VVKIVDIFDF----NGSWLPGLHRFV-GNNKVLLVGNKADLI-P-KSVKHDKVKHWMRYSA  126 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCE-EEEEEETTSH----HHHCCTTHHHHS-SSSCEEEEEECGGGS-C-TTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcE-EEEEEECCCC----cccHHHHHHHHh-CCCcEEEEEEChhcC-C-cccCHHHHHHHHHHHH
Confidence            467899999988876544 7888899852    256777777655 378999999999997 3 22233333333    4


Q ss_pred             HHhCC---cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           81 DEYGI---KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        81 ~~~~~---~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +..+.   +++.+||++|.|+++++..+.+..
T Consensus       127 ~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          127 KQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            55676   789999999999999999987643

>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=99.10  E-value=5.6e-11  Score=84.42  Aligned_cols=92  Identities=12%  Similarity=0.107  Sum_probs=62.2

Q ss_pred             ccccccccchhhhhhc---CeEEEEEeeCC-h-hhHHHHHHHHHHHHHh----cCCCCeEEEEeeCCCCCcCCCCCC---
Q 032001            5 RCLCFIGVYPPYLAVL---CRFKYCTYKIA-S-YHFSDIRNWIRNIEQH----ASDNVNKVLVGNKADMDESKRAVP---   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~---~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~----~~~~~~iilv~nK~Dl~~~~~~~~---   72 (149)
                      |-++|+.++..|++..   .+++++|+|.+ + .+|.....|+.++...    ...++|+++|+||+|+. ....+.   
T Consensus        64 G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~  142 (218)
T 1nrj_B           64 GHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF-TARPPSKIK  142 (218)
T ss_dssp             CCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST-TCCCHHHHH
T ss_pred             CcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhc-ccCCHHHHH
Confidence            4467888999999872   45578999998 6 7899999998888664    33679999999999997 433322   


Q ss_pred             ---HHHHHHHHHHhCCcEEEecCCCCCC
Q 032001           73 ---TSKGQALADEYGIKFFETSAKTNLN   97 (149)
Q Consensus        73 ---~~~~~~~~~~~~~~~~~~Sak~~~~   97 (149)
                         ..+...++...+.+++++||++|.+
T Consensus       143 ~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          143 DALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHHHHHHhccccccccccccc
Confidence               2334555566667889999998876

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.99  E-value=2.2e-09  Score=87.43  Aligned_cols=99  Identities=23%  Similarity=0.229  Sum_probs=74.3

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      -+.|...+..+++.++. +++|+|.++ .++.....|...+.    .++|+++|+||+|+. ..+  .......+....+
T Consensus        81 h~dF~~ev~~~l~~aD~-aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~-~a~--~~~v~~ei~~~lg  152 (599)
T 3cb4_D           81 HVDFSYEVSRSLAACEG-ALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLP-AAD--PERVAEEIEDIVG  152 (599)
T ss_dssp             CGGGHHHHHHHHHHCSE-EEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTST-TCC--HHHHHHHHHHHTC
T ss_pred             chHHHHHHHHHHHHCCE-EEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCcc-ccc--HHHHHHHHHHHhC
Confidence            35677778888888766 677778876 66777778876553    368999999999997 322  2333455666666


Q ss_pred             C---cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 I---KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~---~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .   +++.+||++|.|++++|+++++.++..
T Consensus       153 ~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          153 IDATDAVRCSAKTGVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             CCCTTCEEECTTTCTTHHHHHHHHHHHSCCC
T ss_pred             CCcceEEEeecccCCCchhHHHHHhhcCCCc
Confidence            5   489999999999999999999877543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.96  E-value=4e-10  Score=88.40  Aligned_cols=90  Identities=13%  Similarity=0.027  Sum_probs=66.8

Q ss_pred             hhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCC
Q 032001           14 PPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK   93 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak   93 (149)
                      ..++.+++. +++|+|....  .....|+..+...   ++|+++|+||+|+. .....  .....+.+..+.+++++||+
T Consensus       108 ~~~l~~aD~-vllVvD~~~~--~~~~~~l~~l~~~---~~piIvV~NK~Dl~-~~~~~--~~~~~l~~~~g~~v~~vSAk  178 (423)
T 3qq5_A          108 RRVFYRADC-GILVTDSAPT--PYEDDVVNLFKEM---EIPFVVVVNKIDVL-GEKAE--ELKGLYESRYEAKVLLVSAL  178 (423)
T ss_dssp             HHHHTSCSE-EEEECSSSCC--HHHHHHHHHHHHT---TCCEEEECCCCTTT-TCCCT--HHHHHSSCCTTCCCCCCSSC
T ss_pred             HHHHhcCCE-EEEEEeCCCh--HHHHHHHHHHHhc---CCCEEEEEeCcCCC-CccHH--HHHHHHHHHcCCCEEEEECC
Confidence            345666544 7888888432  4457788887763   68999999999997 33322  44555556677899999999


Q ss_pred             CCCCHHHHHHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~~~  112 (149)
                      +|.|++++|+.|++.+.+.
T Consensus       179 tg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          179 QKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             CTTSTTTHHHHHHHHSCCC
T ss_pred             CCCCHHHHHHHHHHhhhhh
Confidence            9999999999999887543

>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=98.96  E-value=2.3e-09  Score=87.34  Aligned_cols=97  Identities=18%  Similarity=0.202  Sum_probs=72.1

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      +.|...+..+++.++. +++|+|.++ .++.....|...+.    .++|+++|+||+|+. ...  .......+....+.
T Consensus        84 ~dF~~ev~r~l~~aD~-aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~-~a~--~~~v~~el~~~lg~  155 (600)
T 2ywe_A           84 VDFSYEVSRALAACEG-ALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLP-SAD--VDRVKKQIEEVLGL  155 (600)
T ss_dssp             GGGHHHHHHHHHTCSE-EEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTST-TCC--HHHHHHHHHHTSCC
T ss_pred             HhHHHHHHHHHHhCCE-EEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCcc-ccC--HHHHHHHHHHhhCC
Confidence            4566677778877766 677778887 67777888876543    368999999999997 322  22334445555565


Q ss_pred             ---cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           86 ---KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        86 ---~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                         +++++||++|.|++++|+++++.++.
T Consensus       156 ~~~~vi~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          156 DPEEAILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             CGGGCEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             CcccEEEEEeecCCCchHHHHHHHHhccc
Confidence               48999999999999999999987754

>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=98.96  E-value=1.2e-09  Score=80.53  Aligned_cols=94  Identities=17%  Similarity=0.086  Sum_probs=66.4

Q ss_pred             cchhhhh-hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEe
Q 032001           12 VYPPYLA-VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFET   90 (149)
Q Consensus        12 ~~~~~~~-~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (149)
                      ++..|+. ...+++++|+|.++  +.....|...+...  ..+|+++|+||+|+. ..+.... ....+.+..+.+++++
T Consensus        72 ~~~~~~~~~~~d~vi~v~D~~~--~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~-~~~~~~~-~~~~l~~~lg~~~~~~  145 (271)
T 3k53_A           72 IARNFILDGNADVIVDIVDSTC--LMRNLFLTLELFEM--EVKNIILVLNKFDLL-KKKGAKI-DIKKMRKELGVPVIPT  145 (271)
T ss_dssp             HHHHHHHTTCCSEEEEEEEGGG--HHHHHHHHHHHHHT--TCCSEEEEEECHHHH-HHHTCCC-CHHHHHHHHSSCEEEC
T ss_pred             HHHHhhhccCCcEEEEEecCCc--chhhHHHHHHHHhc--CCCCEEEEEEChhcC-cccccHH-HHHHHHHHcCCcEEEE
Confidence            4555553 34566888888885  34445555555543  238999999999986 2222221 2556677889999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ||++|.|++++|..+.+.+..
T Consensus       146 Sa~~g~gi~~l~~~i~~~~~~  166 (271)
T 3k53_A          146 NAKKGEGVEELKRMIALMAEG  166 (271)
T ss_dssp             BGGGTBTHHHHHHHHHHHHHT
T ss_pred             EeCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999987644

>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=98.96  E-value=2e-09  Score=83.73  Aligned_cols=100  Identities=16%  Similarity=0.146  Sum_probs=69.7

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh-
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY-   83 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~-   83 (149)
                      -++|...+..++..++. +++|+|.++ .++.+...|+..+....  ..|+++|+||+|+. +.... ......+.... 
T Consensus        85 h~~~~~~~~~~~~~~D~-~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~-~~~~~-~~~~~~i~~~l~  159 (403)
T 3sjy_A           85 HEVLMATMLSGAALMDG-AILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVV-SKEEA-LSQYRQIKQFTK  159 (403)
T ss_dssp             CGGGHHHHHHHHTTCSE-EEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGS-CHHHH-HHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHhhCCE-EEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECcccc-chHHH-HHHHHHHHHHHH
Confidence            35677777777777655 677788887 55778888877766543  25899999999997 32111 11111222221 


Q ss_pred             -----CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 -----GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 -----~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                           +.+++++||++|.|+++|++.|.+.++
T Consensus       160 ~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          160 GTWAENVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             hhCCCCCEEEEEECCCCcChHHHHHHHHHhCC
Confidence                 468999999999999999999998664

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.94  E-value=1.5e-09  Score=83.77  Aligned_cols=96  Identities=23%  Similarity=0.202  Sum_probs=68.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL----   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~----   79 (149)
                      ..++|++++..++.+.+. +++|+|+.+ .     ..|..++.+.. .+.|+++|+||+|+. + ..........+    
T Consensus        57 ~~e~f~~~L~~~~~~~~l-il~VvD~~d~~-----~s~~~~l~~~l-~~~piilV~NK~DLl-~-~~~~~~~~~~~l~~~  127 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKAL-VVNIVDIFDFN-----GSFIPGLPRFA-ADNPILLVGNKADLL-P-RSVKYPKLLRWMRRM  127 (369)
T ss_dssp             --CHHHHHHHHHHHHCCE-EEEEEETTCSG-----GGCCSSHHHHC-TTSCEEEEEECGGGS-C-TTCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcE-EEEEEECCCCC-----CchhhHHHHHh-CCCCEEEEEEChhcC-C-CccCHHHHHHHHHHH
Confidence            357899999988877655 788889886 3     25666665554 368999999999997 3 22223333333    


Q ss_pred             HHHhCC---cEEEecCCCCCCHHHHHHHHHHHH
Q 032001           80 ADEYGI---KFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        80 ~~~~~~---~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ....+.   .++.+||++|.|++++++.+.+..
T Consensus       128 ~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          128 AEELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HHTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            444565   689999999999999999987644

>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=98.94  E-value=3.6e-10  Score=83.07  Aligned_cols=89  Identities=10%  Similarity=0.069  Sum_probs=61.6

Q ss_pred             cchhhhh-hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE
Q 032001           12 VYPPYLA-VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE   89 (149)
Q Consensus        12 ~~~~~~~-~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   89 (149)
                      ++..|+. ...+++++|+|.++ +++..+.   ..+..   .++|+++|+||+|+. ..+.... ....+....+.++++
T Consensus        74 i~~~~~~~~~~d~vi~VvDas~~~~~~~l~---~~l~~---~~~pvilv~NK~Dl~-~~~~~~~-~~~~l~~~lg~~vi~  145 (256)
T 3iby_A           74 IAAQSVIDLEYDCIINVIDACHLERHLYLT---SQLFE---LGKPVVVALNMMDIA-EHRGISI-DTEKLESLLGCSVIP  145 (256)
T ss_dssp             HHHHHHHHSCCSEEEEEEEGGGHHHHHHHH---HHHTT---SCSCEEEEEECHHHH-HHTTCEE-CHHHHHHHHCSCEEE
T ss_pred             HHHHHHhhCCCCEEEEEeeCCCchhHHHHH---HHHHH---cCCCEEEEEEChhcC-CcCCcHH-HHHHHHHHcCCCEEE
Confidence            4445551 23466888889986 4444333   33332   368999999999986 2222211 234466778999999


Q ss_pred             ecCCCCCCHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~  108 (149)
                      +||++|.|++++|+++.+.
T Consensus       146 ~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          146 IQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             CBGGGTBSHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            9999999999999999875

>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=98.94  E-value=9.7e-10  Score=81.95  Aligned_cols=100  Identities=10%  Similarity=-0.016  Sum_probs=64.6

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHH---HH-Hh-cCCCCeEEEEeeC-CCCCcCCCCCCHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRN---IE-QH-ASDNVNKVLVGNK-ADMDESKRAVPTSKGQA   78 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~---i~-~~-~~~~~~iilv~nK-~Dl~~~~~~~~~~~~~~   78 (149)
                      -+++|.+|..||.+.+++|++| |.++ +.++ ....+.+   +. +. .-.++|++|.+|| .|++   ......+...
T Consensus       197 Q~~lRplWr~Yy~~tdglIfVV-DSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp---~Ams~~EI~e  271 (312)
T 3l2o_B          197 RYSVIPQIQKVCEVVDGFIYVA-NAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV---KRMPCFYLAH  271 (312)
T ss_dssp             CCCCCHHHHHHHHHCSEEEECC-BCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS---CBCCHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCEEEEEe-cCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc---CCCCHHHHHH
Confidence            3688999999999998855555 5554 4333 2222221   11 11 1147899999996 6886   2233343332


Q ss_pred             HHHH----hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           79 LADE----YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        79 ~~~~----~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ....    ..+.+..+||.+|+|+.+.++||++.+.
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~  307 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  307 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSC
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHH
Confidence            2211    2345789999999999999999998763

>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=98.90  E-value=5.9e-10  Score=82.57  Aligned_cols=85  Identities=11%  Similarity=0.065  Sum_probs=60.5

Q ss_pred             hcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001           19 VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV   98 (149)
Q Consensus        19 ~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i   98 (149)
                      ...+++++|+|.++  ++....|...+...   ++|+++|+||+|+. ..+... .....+.+..+.+++++||++|.|+
T Consensus        84 ~~~d~ii~VvD~~~--~~~~~~~~~~l~~~---~~p~ivv~NK~Dl~-~~~~~~-~~~~~l~~~lg~~~i~~SA~~g~gi  156 (274)
T 3i8s_A           84 GDADLLINVVDASN--LERNLYLTLQLLEL---GIPCIVALNMLDIA-EKQNIR-IEIDALSARLGCPVIPLVSTRGRGI  156 (274)
T ss_dssp             TCCSEEEEEEEGGG--HHHHHHHHHHHHHH---TCCEEEEEECHHHH-HHTTEE-ECHHHHHHHHTSCEEECCCGGGHHH
T ss_pred             cCCCEEEEEecCCC--hHHHHHHHHHHHhc---CCCEEEEEECccch-hhhhHH-HHHHHHHHhcCCCEEEEEcCCCCCH
Confidence            45566888889886  23334444444442   58999999999986 222211 1245567778899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIK  110 (149)
Q Consensus        99 ~el~~~l~~~i~  110 (149)
                      +++|+.+.+.+.
T Consensus       157 ~el~~~i~~~~~  168 (274)
T 3i8s_A          157 EALKLAIDRYKA  168 (274)
T ss_dssp             HHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHh
Confidence            999999887553

>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=98.89  E-value=7.6e-09  Score=82.26  Aligned_cols=88  Identities=14%  Similarity=0.084  Sum_probs=59.7

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      ++.. .+++++|+|.++ .++.....|..-+.. . .++|+++|+||+|+. .....   ....+......+++++||++
T Consensus       309 ~~~~-aD~vl~VvD~s~~~s~~~~~~~~~~l~~-l-~~~piIvV~NK~Dl~-~~~~~---~~~~l~~~~~~~~i~vSAkt  381 (476)
T 3gee_A          309 KMAE-ADLILYLLDLGTERLDDELTEIRELKAA-H-PAAKFLTVANKLDRA-ANADA---LIRAIADGTGTEVIGISALN  381 (476)
T ss_dssp             CCSS-CSEEEEEEETTTCSSGGGHHHHHHHHHH-C-TTSEEEEEEECTTSC-TTTHH---HHHHHHHHHTSCEEECBTTT
T ss_pred             hccc-CCEEEEEEECCCCcchhhhHHHHHHHHh-c-CCCCEEEEEECcCCC-Cccch---hHHHHHhcCCCceEEEEECC
Confidence            4444 456888999987 666543333322222 2 268999999999997 33221   11223333346899999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDIK  110 (149)
Q Consensus        95 ~~~i~el~~~l~~~i~  110 (149)
                      |.|++++|++|.+.+.
T Consensus       382 g~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          382 GDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TBSHHHHHHHHTHHHH
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999999875

>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=98.85  E-value=1.7e-08  Score=80.41  Aligned_cols=87  Identities=16%  Similarity=0.110  Sum_probs=60.7

Q ss_pred             hhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecC
Q 032001           14 PPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA   92 (149)
Q Consensus        14 ~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa   92 (149)
                      ..++..+ +++++|+|.++ .+++... +++.+     .++|+++|+||+|+. .  .+.......+.. .+.+++++||
T Consensus       318 ~~~~~~a-D~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~-~--~~~~~~~~~~~~-~~~~~i~iSA  386 (482)
T 1xzp_A          318 LQEIEKA-DIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVV-E--KINEEEIKNKLG-TDRHMVKISA  386 (482)
T ss_dssp             HHHHHHC-SEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSC-C--CCCHHHHHHHHT-CSTTEEEEEG
T ss_pred             HHHhhcc-cEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccc-c--ccCHHHHHHHhc-CCCcEEEEEC
Confidence            3456665 55888889886 5665543 33333     368999999999997 3  233333333322 3368999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~  111 (149)
                      ++|.|++++|++|.+.+..
T Consensus       387 ktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          387 LKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             GGTCCHHHHHHHHHHHTHH
T ss_pred             CCCCCHHHHHHHHHHHHhh
Confidence            9999999999999997664

>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=98.85  E-value=1.4e-08  Score=78.27  Aligned_cols=92  Identities=12%  Similarity=-0.017  Sum_probs=63.4

Q ss_pred             cCeEEEEEeeCCh-h--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC-HHHHHHHHHHh-C--CcEEEecC
Q 032001           20 LCRFKYCTYKIAS-Y--HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP-TSKGQALADEY-G--IKFFETSA   92 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~--s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~-~~~~~~~~~~~-~--~~~~~~Sa   92 (149)
                      ..+++++|+|.++ .  .+.....|...+......++|+++|+||+|+. +..... ...+..++... .  .+++++||
T Consensus       257 ~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~-~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA  335 (364)
T 2qtf_A          257 YSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKI-NGDLYKKLDLVEKLSKELYSPIFDVIPISA  335 (364)
T ss_dssp             GSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGC-CSCHHHHHHHHHHHHHHHCSCEEEEEECBT
T ss_pred             hCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCC-CchHHHHHHHHHHHHHHhcCCCCcEEEEEC
Confidence            3456888899876 4  56666677766655443578999999999987 322100 01222233444 2  36899999


Q ss_pred             CCCCCHHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~~  112 (149)
                      +++.|++++++.|.+.+...
T Consensus       336 ~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          336 LKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             TTTBSHHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHhccc
Confidence            99999999999999877654

>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=98.82  E-value=5.3e-08  Score=76.53  Aligned_cols=99  Identities=12%  Similarity=0.031  Sum_probs=62.9

Q ss_pred             cccccch-hhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHH-HHHHH--
Q 032001            8 CFIGVYP-PYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQ-ALADE--   82 (149)
Q Consensus         8 ~~~~~~~-~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~-~~~~~--   82 (149)
                      .|..++. .+++.+ +++++++|... .++.. ..+...+..   .+.|+++|+||+|+. ..+.....+.. .+...  
T Consensus       251 ~~~~~~~~~~i~~a-d~vllv~d~~~~~~~~~-~~i~~~l~~---~~~~~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~  324 (439)
T 1mky_A          251 KYSNYRVVDSIEKA-DVVVIVLDATQGITRQD-QRMAGLMER---RGRASVVVFNKWDLV-VHREKRYDEFTKLFREKLY  324 (439)
T ss_dssp             CSCCHHHHHHHHHC-SEEEEEEETTTCCCHHH-HHHHHHHHH---TTCEEEEEEECGGGS-TTGGGCHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHHHhhC-CEEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCC-CchhhHHHHHHHHHHHHhc
Confidence            3433433 345554 55788889876 44443 233333333   468999999999987 33332222222 22222  


Q ss_pred             --hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 --YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 --~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                        .+.+++++||++|.|++++|+.+.+.+.+.
T Consensus       325 ~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          325 FIDYSPLIFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             GGTTSCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence              246899999999999999999999876553

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.80  E-value=2e-09  Score=86.71  Aligned_cols=101  Identities=15%  Similarity=0.052  Sum_probs=66.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---H
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL---A   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~   80 (149)
                      |-+.|..++..++..++. +++|+|.++ ........| ..+..   .++|+++|+||+|+.+............+   .
T Consensus        61 Ghe~f~~~~~~~~~~aD~-vILVVDa~dg~~~qt~e~l-~~~~~---~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~  135 (537)
T 3izy_P           61 GHAAFSAMRARGTQVTDI-VILVVAADDGVMKQTVESI-QHAKD---AHVPIVLAINKCDKAEADPEKVKKELLAYDVVC  135 (537)
T ss_dssp             SSCCTTTSBBSSSBSBSS-CEEECBSSSCCCHHHHHHH-HHHHT---TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCC
T ss_pred             ChHHHHHHHHHHHccCCE-EEEEEECCCCccHHHHHHH-HHHHH---cCCcEEEEEecccccccchHHHHHHHHhhhhhH
Confidence            446789999998887766 678888886 444444433 33333   46899999999999722111111122111   1


Q ss_pred             HHh--CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           81 DEY--GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        81 ~~~--~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..+  ..+++++||++|.|++++|+.|...+.
T Consensus       136 e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P          136 EDYGGDVQAVHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             CCSSSSEEECCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             HhcCCCceEEEEECCCCCCchhHHHHHHHhhh
Confidence            111  247899999999999999999997663

>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=98.79  E-value=4.9e-09  Score=82.44  Aligned_cols=94  Identities=16%  Similarity=0.183  Sum_probs=62.0

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHH-HHHHHHhCC-
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKG-QALADEYGI-   85 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~-~~~~~~~~~-   85 (149)
                      ++..+..++++++. +++|+|... .++.+  .|+..+...  .++|+++|+||+|+. ..  . .... ..+. ..++ 
T Consensus        71 ~~~~~~~~~~~ad~-il~V~D~~~~~~~~d--~~i~~~l~~--~~~p~ilv~NK~D~~-~~--~-~~~~~~~~~-~lg~~  140 (439)
T 1mky_A           71 MKEVTLNMIREADL-VLFVVDGKRGITKED--ESLADFLRK--STVDTILVANKAENL-RE--F-EREVKPELY-SLGFG  140 (439)
T ss_dssp             HHHHHHHHHTTCSE-EEEEEETTTCCCHHH--HHHHHHHHH--HTCCEEEEEESCCSH-HH--H-HHHTHHHHG-GGSSC
T ss_pred             HHHHHHHHHHhCCE-EEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEeCCCCc-cc--c-HHHHHHHHH-hcCCC
Confidence            45566777777765 777888875 33322  222222221  258999999999986 21  1 1122 2232 3455 


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++||++|.|++++|+.+++.+.+.
T Consensus       141 ~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          141 EPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             SCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            789999999999999999999988754

>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=98.79  E-value=1.7e-09  Score=81.28  Aligned_cols=93  Identities=15%  Similarity=0.016  Sum_probs=61.5

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHH-HHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-hC-
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWI-RNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-YG-   84 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~-~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~-   84 (149)
                      |......++++++. +++|+|.++ .+.  ...|+ +.+.... .++|+++|+||+|+. ....    ........ .+ 
T Consensus        76 ~~~~~~~~l~~ad~-il~VvD~~~~~~~--~~~~i~~~l~~~~-~~~p~ilV~NK~Dl~-~~~~----~~~~~~~~~~~~  146 (301)
T 1wf3_A           76 MDQEVYEALADVNA-VVWVVDLRHPPTP--EDELVARALKPLV-GKVPILLVGNKLDAA-KYPE----EAMKAYHELLPE  146 (301)
T ss_dssp             HHHHHHHHTSSCSE-EEEEEETTSCCCH--HHHHHHHHHGGGT-TTSCEEEEEECGGGC-SSHH----HHHHHHHHTSTT
T ss_pred             HHHHHHHHHhcCCE-EEEEEECCCCCCh--HHHHHHHHHHhhc-CCCCEEEEEECcccC-CchH----HHHHHHHHhcCc
Confidence            44555667776654 788889875 333  34555 4444432 468999999999987 2211    02222222 23 


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+++++||++|.|++++|+.|.+.++
T Consensus       147 ~~~~~iSA~~g~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          147 AEPRMLSALDERQVAELKADLLALMP  172 (301)
T ss_dssp             SEEEECCTTCHHHHHHHHHHHHTTCC
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHhcc
Confidence            47899999999999999999987664

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.78  E-value=2.9e-08  Score=79.89  Aligned_cols=55  Identities=15%  Similarity=-0.051  Sum_probs=39.9

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      -++|...+..+++.++. +++|+|.++ .+......|. .+..   .++|+++|+||+|+.
T Consensus        92 ~~df~~~~~~~l~~aD~-allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~Dl~  147 (528)
T 3tr5_A           92 HADFTEDTYRTLTAVDS-ALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKMDRD  147 (528)
T ss_dssp             STTCCHHHHHGGGGCSE-EEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECTTSC
T ss_pred             chhHHHHHHHHHHhCCE-EEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCCCCc
Confidence            35677788888887766 677778886 5566655553 3443   368999999999986

>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=98.73  E-value=1.6e-08  Score=80.47  Aligned_cols=99  Identities=11%  Similarity=0.065  Sum_probs=63.0

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHHh-
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADEY-   83 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~~-   83 (149)
                      ++|...+..++..++ ++++|+|.++....+...++..+..   .++|+++|+||+|+. +...  ....+...++... 
T Consensus        84 ~~~~~~~~~~~~~aD-~~ilVvda~~g~~~qt~e~l~~~~~---~~ip~IvviNK~Dl~-~~~~~~~~~~~l~~~l~~~~  158 (482)
T 1wb1_A           84 ADLIRAVVSAADIID-LALIVVDAKEGPKTQTGEHMLILDH---FNIPIIVVITKSDNA-GTEEIKRTEMIMKSILQSTH  158 (482)
T ss_dssp             HHHHHHHHHHTTSCC-EEEEEEETTTCSCHHHHHHHHHHHH---TTCCBCEEEECTTSS-CHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHhhCC-EEEEEEecCCCccHHHHHHHHHHHH---cCCCEEEEEECCCcc-cchhHHHHHHHHHHHHhhhc
Confidence            345556666666654 4777778875111222223333333   357889999999997 2111  1112233444444 


Q ss_pred             ---CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 ---GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ---~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                         +.+++++||++|.|++++++.|.+.+.
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               468999999999999999999999875

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.72  E-value=1.4e-09  Score=80.85  Aligned_cols=99  Identities=12%  Similarity=0.028  Sum_probs=65.6

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH--hC
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE--YG   84 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~   84 (149)
                      .+..++..|+++.++++++|+|.+. .+......|...+..   .+.|+++|+||+|+. .........+......  .+
T Consensus       150 ~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~---~~~~~i~V~NK~Dl~-~~~~~~~~~~~~~~~~~~~~  225 (299)
T 2aka_B          150 QIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKLDLM-DEGTDARDVLENKLLPLRRG  225 (299)
T ss_dssp             HHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT---TCSSEEEEEECGGGS-CTTCCCHHHHTTCSSCCTTC
T ss_pred             HHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCC---CCCeEEEEEEccccC-CCCchHHHHHhCCcCcCCCC
Confidence            5677888899988887778888875 333333345554432   468999999999997 3222222222110001  12


Q ss_pred             -CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           85 -IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        85 -~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                       .+++.+||++|.|++++|+.+.+...
T Consensus       226 ~~~v~~~SA~~~~gi~~l~~~l~~~~~  252 (299)
T 2aka_B          226 YIGVVNRSQKDIDGKKDITAALAAERK  252 (299)
T ss_dssp             EEECCCCCCBCTTSCBCHHHHHHHHHH
T ss_pred             cEEEECCChhhccccccHHHHHHHHHH
Confidence             36788999999999999999987543

>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=98.69  E-value=3.3e-08  Score=77.02  Aligned_cols=83  Identities=12%  Similarity=0.044  Sum_probs=49.2

Q ss_pred             CeEEEEEeeCCh-----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH---hCCcEEEe
Q 032001           21 CRFKYCTYKIAS-----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE---YGIKFFET   90 (149)
Q Consensus        21 ~~~vi~v~~~~~-----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~~   90 (149)
                      .+++++|+|.++     .+++.+..|    ...  ...|+++++||+|+. +...  ...++...++..   .+.+++++
T Consensus       105 ~D~~ilVvda~~g~~~~qt~e~l~~~----~~l--~~~~iivv~NK~Dl~-~~~~~~~~~~~i~~~l~~~~~~~~~~i~v  177 (408)
T 1s0u_A          105 MDGAILVIAANEPCPQPQTKEHLMAL----EIL--GIDKIIIVQNKIDLV-DEKQAEENYEQIKEFVKGTIAENAPIIPI  177 (408)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHHH----HHT--TCCCEEEEEECTTSS-CTTTTTTHHHHHHHHHTTSTTTTCCEEEC
T ss_pred             CCEEEEEEECCCCCCCchhHHHHHHH----HHc--CCCeEEEEEEccCCC-CHHHHHHHHHHHHHHHhhcCCCCCeEEEe
Confidence            366788889873     334333322    222  124799999999997 3222  122344445443   25689999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~  110 (149)
                      ||++|.|+++|+++|.+.+.
T Consensus       178 SA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          178 SAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             ------CHHHHHHHHHHHSC
T ss_pred             eCCCCCCHHHHHHHHHHhCC
Confidence            99999999999999987664

>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=98.69  E-value=3.1e-09  Score=81.74  Aligned_cols=101  Identities=21%  Similarity=0.281  Sum_probs=57.2

Q ss_pred             ccccccch-------hhhhhcCeEE----------EEEeeCCh--hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCc
Q 032001            7 LCFIGVYP-------PYLAVLCRFK----------YCTYKIAS--YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDE   66 (149)
Q Consensus         7 ~~~~~~~~-------~~~~~~~~~v----------i~v~~~~~--~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~   66 (149)
                      ++|..++.       .||++..+++          +++|++++  .++..++ .|+..+    ..++|+|+|+||+|+. 
T Consensus       113 e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~-  187 (361)
T 2qag_A          113 DCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTL-  187 (361)
T ss_dssp             ---CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSS-
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCC-
Confidence            67888888       8888876542          45555553  4555554 454443    2578999999999987 


Q ss_pred             CCCCCCH--HHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           67 SKRAVPT--SKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        67 ~~~~~~~--~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ..+.+..  ..+..++...+++++++||+++.+ ++.|..+.+.+.+..
T Consensus       188 ~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~i  235 (361)
T 2qag_A          188 TLKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASI  235 (361)
T ss_dssp             CHHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcC
Confidence            3222222  233444555678999999999999 888888888886654

>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=98.68  E-value=2.1e-07  Score=75.84  Aligned_cols=102  Identities=14%  Similarity=0.002  Sum_probs=64.1

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC------------C
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV------------P   72 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~------------~   72 (149)
                      -+.|..++..+++.++. +++|+|.++ -.......|. .+..   .++|+++++||+|+.......            .
T Consensus        80 he~F~~~~~r~~~~aD~-aILVvDa~~Gv~~qT~e~l~-~l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~  154 (594)
T 1g7s_A           80 HEAFTTLRKRGGALADL-AILIVDINEGFKPQTQEALN-ILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQD  154 (594)
T ss_dssp             TSCCTTSBCSSSBSCSE-EEEEEETTTCCCHHHHHHHH-HHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSC
T ss_pred             cHHHHHHHHHHHhhCCE-EEEEEECCCCccHhHHHHHH-HHHH---cCCeEEEEecccccccccccccCCchHHHHHHhH
Confidence            46788888888776655 777788875 2122223332 2333   468999999999986211100            0


Q ss_pred             HH----------HHHHHHHHhC---------------CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           73 TS----------KGQALADEYG---------------IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        73 ~~----------~~~~~~~~~~---------------~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..          +........+               .+++.+||++|.|+++|+++|...++..
T Consensus       155 ~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          155 IQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence            00          0011111112               3799999999999999999999877654

>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=98.67  E-value=1.2e-07  Score=74.22  Aligned_cols=100  Identities=11%  Similarity=0.065  Sum_probs=69.5

Q ss_pred             cccchhhhhh--cCeEEEEEeeCChhhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC
Q 032001           10 IGVYPPYLAV--LCRFKYCTYKIASYHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI   85 (149)
Q Consensus        10 ~~~~~~~~~~--~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   85 (149)
                      ..+...+++.  ..+.+++++|+++.++..+..|..++.....  ...|.++|+||+|+. ..  .....+.......+.
T Consensus       223 ~~L~~~fl~~~era~~lL~vvDls~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~-~~--~~~~~l~~~l~~~g~  299 (416)
T 1udx_A          223 KGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLL-EE--EAVKALADALAREGL  299 (416)
T ss_dssp             CCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTS-CH--HHHHHHHHHHHTTTS
T ss_pred             hhhhHHHHHHHHHHHhhhEEeCCccCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChh-hH--HHHHHHHHHHHhcCC
Confidence            3444444443  2456788889864467777888777765431  257889999999987 21  112233334444567


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++.+||+++.|+++++++|.+.+.+.
T Consensus       300 ~vi~iSA~~g~gi~eL~~~i~~~l~~~  326 (416)
T 1udx_A          300 AVLPVSALTGAGLPALKEALHALVRST  326 (416)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             eEEEEECCCccCHHHHHHHHHHHHHhc
Confidence            899999999999999999999988654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.65  E-value=2.1e-08  Score=78.80  Aligned_cols=93  Identities=15%  Similarity=0.035  Sum_probs=62.3

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-   85 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-   85 (149)
                      +++..+..++.+++. +++|+|..+ .++.+  .|+.++...  .++|+++|+||+|+. .....    ...+. ..++ 
T Consensus        71 ~~~~~~~~~~~~ad~-il~vvD~~~~~~~~d--~~~~~~l~~--~~~pvilv~NK~D~~-~~~~~----~~~~~-~lg~~  139 (436)
T 2hjg_A           71 QIRQQAEIAMDEADV-IIFMVNGREGVTAAD--EEVAKILYR--TKKPVVLAVNKLDNT-EMRAN----IYDFY-SLGFG  139 (436)
T ss_dssp             HHHHHHHHHHHHCSE-EEEEEETTTCSCHHH--HHHHHHHTT--CCSCEEEEEECCCC------C----CCSSG-GGSSC
T ss_pred             HHHHHHHHHHHhCCE-EEEEEeCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCc-cchhh----HHHHH-HcCCC
Confidence            566777788888765 777888875 44433  344443332  468999999999986 22110    11111 2344 


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++.+||++|.|+.++++++.+.+.+
T Consensus       140 ~~~~iSA~~g~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          140 EPYPISGTHGLGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             CCEECBTTTTBTHHHHHHHHHHTGGG
T ss_pred             CeEEEeCcCCCChHHHHHHHHHhcCc
Confidence            78999999999999999999987754

>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=98.65  E-value=1.9e-08  Score=78.25  Aligned_cols=98  Identities=19%  Similarity=0.117  Sum_probs=64.3

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC---CHHHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV---PTSKGQALADE   82 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~   82 (149)
                      ++|...+..+++.++. +++|+|.++..+.....|+..+..   .++| +++++||+|+. .....   ...+...++..
T Consensus        86 ~~f~~~~~~~~~~aD~-~ilVvda~~g~~~qt~~~l~~~~~---~~ip~iivviNK~Dl~-~~~~~~~~~~~~~~~~l~~  160 (405)
T 2c78_A           86 ADYIKNMITGAAQMDG-AILVVSAADGPMPQTREHILLARQ---VGVPYIVVFMNKVDMV-DDPELLDLVEMEVRDLLNQ  160 (405)
T ss_dssp             GGGHHHHHHHHTTCSS-EEEEEETTTCCCHHHHHHHHHHHH---TTCCCEEEEEECGGGC-CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCE-EEEEEECCCCCcHHHHHHHHHHHH---cCCCEEEEEEECcccc-CcHHHHHHHHHHHHHHHHH
Confidence            4666777777776665 677778876334455666666655   3577 89999999997 31111   11233445555


Q ss_pred             hC-----CcEEEecCCCCCC------------------HHHHHHHHHHHH
Q 032001           83 YG-----IKFFETSAKTNLN------------------VEQVFFSIARDI  109 (149)
Q Consensus        83 ~~-----~~~~~~Sak~~~~------------------i~el~~~l~~~i  109 (149)
                      .+     .+++++||++|.|                  +.+|++.|.+.+
T Consensus       161 ~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~l  210 (405)
T 2c78_A          161 YEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYI  210 (405)
T ss_dssp             TTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHS
T ss_pred             hcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhc
Confidence            54     5899999999987                  666666666544

>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=98.64  E-value=4.5e-08  Score=77.57  Aligned_cols=81  Identities=15%  Similarity=0.156  Sum_probs=56.1

Q ss_pred             cCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCH
Q 032001           20 LCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNV   98 (149)
Q Consensus        20 ~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i   98 (149)
                      ..+++++|+|.++ .++.. ..|+..+.     ..|+++|+||+|+. ......  ....+.  .+.+++++||++|.|+
T Consensus       303 ~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~-~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi  371 (462)
T 3geh_A          303 TADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLV-EKQLIT--SLEYPE--NITQIVHTAAAQKQGI  371 (462)
T ss_dssp             SCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSS-CGGGST--TCCCCT--TCCCEEEEBTTTTBSH
T ss_pred             cCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCC-cchhhH--HHHHhc--cCCcEEEEECCCCCCH
Confidence            3466888899986 44433 55655552     36999999999997 322221  110111  3468999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIKQ  111 (149)
Q Consensus        99 ~el~~~l~~~i~~  111 (149)
                      +++++.|.+.+..
T Consensus       372 ~eL~~~i~~~~~~  384 (462)
T 3geh_A          372 DSLETAILEIVQT  384 (462)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987744

>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=98.64  E-value=1.4e-08  Score=76.12  Aligned_cols=95  Identities=16%  Similarity=0.127  Sum_probs=61.5

Q ss_pred             cccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-cEE
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-KFF   88 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~   88 (149)
                      ......++..+ +++++|+|.++  +.....|+.+....  .+.|+++++||+|+. ..+.........+.+..+. .++
T Consensus        79 ~~~~~~~l~~~-D~vl~Vvd~~~--~~~~~~~i~~~l~~--~~~P~ilvlNK~D~~-~~~~~~~~~l~~l~~~~~~~~~i  152 (301)
T 1ega_A           79 NKAASSSIGDV-ELVIFVVEGTR--WTPDDEMVLNKLRE--GKAPVILAVNKVDNV-QEKADLLPHLQFLASQMNFLDIV  152 (301)
T ss_dssp             TCCTTSCCCCE-EEEEEEEETTC--CCHHHHHHHHHHHS--SSSCEEEEEESTTTC-CCHHHHHHHHHHHHTTSCCSEEE
T ss_pred             HHHHHHHHhcC-CEEEEEEeCCC--CCHHHHHHHHHHHh--cCCCEEEEEECcccC-ccHHHHHHHHHHHHHhcCcCceE
Confidence            33444555555 55778788865  44444555443332  468999999999987 2111112233344444565 689


Q ss_pred             EecCCCCCCHHHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++||++|.|++++++.+.+.++
T Consensus       153 ~iSA~~g~~v~~l~~~i~~~l~  174 (301)
T 1ega_A          153 PISAETGLNVDTIAAIVRKHLP  174 (301)
T ss_dssp             ECCTTTTTTHHHHHHHHHTTCC
T ss_pred             EEECCCCCCHHHHHHHHHHhCC
Confidence            9999999999999999987654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=98.59  E-value=7.9e-08  Score=74.12  Aligned_cols=99  Identities=7%  Similarity=-0.033  Sum_probs=64.8

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeE-EEEee-CCCCCcCCCCCCH--HHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNK-VLVGN-KADMDESKRAVPT--SKGQALADE   82 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~i-ilv~n-K~Dl~~~~~~~~~--~~~~~~~~~   82 (149)
                      ++|...+..+++.++. +++|+| +...+.+...|+..+...   ++|. ++++| |+|+. . .....  .+...++..
T Consensus        71 ~~f~~~~~~~~~~aD~-ailVvd-~~g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl~-~-~~~~~~~~~i~~~l~~  143 (370)
T 2elf_A           71 PKTLKSLITALNISDI-AVLCIP-PQGLDAHTGECIIALDLL---GFKHGIIALTRSDSTH-M-HAIDELKAKLKVITSG  143 (370)
T ss_dssp             TTCHHHHHHHHHTCSE-EEEEEC-TTCCCHHHHHHHHHHHHT---TCCEEEEEECCGGGSC-H-HHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHCCE-EEEEEc-CCCCcHHHHHHHHHHHHc---CCCeEEEEEEeccCCC-H-HHHHHHHHHHHHHHHh
Confidence            4565566666665655 677778 654456667777666553   4666 88888 99982 2 11111  223333333


Q ss_pred             h---CCcEEE--ecCCC---CCCHHHHHHHHHHHHHHH
Q 032001           83 Y---GIKFFE--TSAKT---NLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~---~~~~~~--~Sak~---~~~i~el~~~l~~~i~~~  112 (149)
                      .   ..++++  +||++   +.|++++++.|.+.+...
T Consensus       144 ~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~~~  181 (370)
T 2elf_A          144 TVLQDWECISLNTNKSAKNPFEGVDELKARINEVAEKI  181 (370)
T ss_dssp             STTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHHHH
T ss_pred             cCCCceEEEecccccccCcCCCCHHHHHHHHHhhcccc
Confidence            2   268999  99999   999999999999887643

>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=98.57  E-value=8e-08  Score=75.41  Aligned_cols=94  Identities=12%  Similarity=-0.089  Sum_probs=60.5

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC----CHHHHHHHHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV----PTSKGQALAD   81 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~----~~~~~~~~~~   81 (149)
                      -++|...+..++..++. +++|+|.++..+.....|+..+....  -.|+|+|+||+|+. +....    ...+...+++
T Consensus       114 h~~f~~~~~~~~~~aD~-~ilVvDa~~g~~~qt~~~l~~~~~~~--~~~iIvviNK~Dl~-~~~~~~~~~i~~~~~~~~~  189 (434)
T 1zun_B          114 HEQYTRNMATGASTCDL-AIILVDARYGVQTQTRRHSYIASLLG--IKHIVVAINKMDLN-GFDERVFESIKADYLKFAE  189 (434)
T ss_dssp             SGGGHHHHHHHHTTCSE-EEEEEETTTCSCHHHHHHHHHHHHTT--CCEEEEEEECTTTT-TSCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhCCE-EEEEEECCCCCcHHHHHHHHHHHHcC--CCeEEEEEEcCcCC-cccHHHHHHHHHHHHHHHH
Confidence            45677777777766655 78888988632344455555544421  23699999999997 32111    1123344555


Q ss_pred             HhC-----CcEEEecCCCCCCHHHHHH
Q 032001           82 EYG-----IKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        82 ~~~-----~~~~~~Sak~~~~i~el~~  103 (149)
                      ..+     .+++++||++|.|+.+++.
T Consensus       190 ~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          190 GIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             TTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HhCCCccCceEEEEeccCCCCcccccc
Confidence            566     5799999999999988543

>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=98.56  E-value=7.3e-08  Score=75.09  Aligned_cols=83  Identities=11%  Similarity=0.029  Sum_probs=53.2

Q ss_pred             CeEEEEEeeCCh-----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHHH---hCCcEEEe
Q 032001           21 CRFKYCTYKIAS-----YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALADE---YGIKFFET   90 (149)
Q Consensus        21 ~~~vi~v~~~~~-----~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~~   90 (149)
                      .+++++|+|.++     .+++.+..|    ....  ..|+++|+||+|+. ....  ...++...++..   .+.+++++
T Consensus       107 ~D~~ilVvda~~g~~~~qt~e~l~~~----~~~~--~~~iivviNK~Dl~-~~~~~~~~~~~i~~~l~~~~~~~~~~i~v  179 (410)
T 1kk1_A          107 MDGAILVIAANEPCPRPQTREHLMAL----QIIG--QKNIIIAQNKIELV-DKEKALENYRQIKEFIEGTVAENAPIIPI  179 (410)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHHH----HHHT--CCCEEEEEECGGGS-CHHHHHHHHHHHHHHHTTSTTTTCCEEEC
T ss_pred             CCEEEEEEECCCCCCChhHHHHHHHH----HHcC--CCcEEEEEECccCC-CHHHHHHHHHHHHHHHHhcCcCCCeEEEe
Confidence            356788888874     333333322    2221  35799999999997 3211  111222333332   35689999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~  110 (149)
                      ||++|.|+++|++.|.+.++
T Consensus       180 SA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          180 SALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             BTTTTBSHHHHHHHHHHHSC
T ss_pred             eCCCCCCHHHHHHHHHHhCC
Confidence            99999999999999987664

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.56  E-value=6e-07  Score=62.06  Aligned_cols=61  Identities=8%  Similarity=0.097  Sum_probs=49.6

Q ss_pred             ccccccccchhhhhhc---CeEEEEEeeCC-h-hhHHHHHHHHHHHHHh----cCCCCeEEEEeeCCCCC
Q 032001            5 RCLCFIGVYPPYLAVL---CRFKYCTYKIA-S-YHFSDIRNWIRNIEQH----ASDNVNKVLVGNKADMD   65 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~---~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~----~~~~~~iilv~nK~Dl~   65 (149)
                      |.+.|+..+..|+...   .+++++|+|++ + .+|.....|+..+...    ...++|+++|+||+|+.
T Consensus       100 G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  169 (193)
T 2ged_A          100 GHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF  169 (193)
T ss_dssp             TCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST
T ss_pred             CCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhc
Confidence            4567888999999873   56689999998 6 8899998998887653    23579999999999997

>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=98.56  E-value=1.1e-08  Score=81.79  Aligned_cols=98  Identities=17%  Similarity=0.152  Sum_probs=60.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC-CCCCHH--HHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK-RAVPTS--KGQALA   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~-~~~~~~--~~~~~~   80 (149)
                      |-+.|..++..++..++. +++|+|.++ ........| ..+..   .++|+++++||+|+.... ..+...  ....+.
T Consensus        60 Ghe~f~~~~~~~~~~aD~-aILVVda~~g~~~qT~e~l-~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~  134 (501)
T 1zo1_I           60 GHAAFTSMRARGAQATDI-VVLVVAADDGVMPQTIEAI-QHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILP  134 (501)
T ss_dssp             TTTCCTTSBCSSSBSCSS-EEEEEETTTBSCTTTHHHH-HHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCT
T ss_pred             CcHHHHHHHHHHHhhCCE-EEEEeecccCccHHHHHHH-HHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhH
Confidence            346788888887776665 677778875 222222233 33333   468999999999997211 111100  000011


Q ss_pred             HHhC--CcEEEecCCCCCCHHHHHHHHHH
Q 032001           81 DEYG--IKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        81 ~~~~--~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                      ..++  .+++++||++|.|++++|++|..
T Consensus       135 ~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          135 EEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             TCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             HHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            1222  68999999999999999999874

>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=98.55  E-value=1.6e-07  Score=74.63  Aligned_cols=92  Identities=10%  Similarity=-0.114  Sum_probs=54.0

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHH-----HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHH----
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSD-----IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSK----   75 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~-----~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~----   75 (149)
                      -++|...+..+++.++. +++|+|.++ .++..     ...+...+.... ...|+|+|+||+|+. +.+....++    
T Consensus       121 ~~~f~~~~~~~~~~aD~-~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~~~~iIvviNK~Dl~-~~~~~~~~~i~~~  197 (483)
T 3p26_A          121 HRDFVPNAIMGISQADM-AILCVDCSTNAFESGFDLDGQTKEHMLLASSL-GIHNLIIAMNKMDNV-DWSQQRFEEIKSK  197 (483)
T ss_dssp             CGGGHHHHHHHHTTCSE-EEEEEECCC------CCCCHHHHHHHHHHHHT-TCCCEEEEEECGGGG-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhhhCCE-EEEEEECCCCccccccchhhhHHHHHHHHHHc-CCCcEEEEEECcCcc-cchHHHHHHHHHH
Confidence            36778888888888765 677778886 33321     112222222222 224699999999997 322222222    


Q ss_pred             HHHHHHHh-----CCcEEEecCCCCCCHHH
Q 032001           76 GQALADEY-----GIKFFETSAKTNLNVEQ  100 (149)
Q Consensus        76 ~~~~~~~~-----~~~~~~~Sak~~~~i~e  100 (149)
                      +..+....     +.+++++||++|.|+++
T Consensus       198 ~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          198 LLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            22233333     35789999999999874

>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=98.55  E-value=1.3e-08  Score=80.05  Aligned_cols=96  Identities=10%  Similarity=0.050  Sum_probs=61.1

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhc----CCCC-eEEEEeeCCCCCcCC--CC----CCHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHA----SDNV-NKVLVGNKADMDESK--RA----VPTS   74 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~----~~~~-~iilv~nK~Dl~~~~--~~----~~~~   74 (149)
                      -++|...+..+++.++. +++|+|.++.+|+....|....+.+.    ..++ ++|+++||+|+. ..  ..    ....
T Consensus        94 ~~~f~~~~~~~~~~aD~-~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~-~~~~~~~~~~~~~~  171 (435)
T 1jny_A           94 HRDFVKNMITGASQADA-AILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLT-EPPYDEKRYKEIVD  171 (435)
T ss_dssp             STTHHHHHHHTSSCCSE-EEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGS-SSTTCHHHHHHHHH
T ss_pred             cHHHHHHHHhhhhhcCE-EEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCC-CccccHHHHHHHHH
Confidence            35677777777766655 77888888777875544433332211    0233 689999999997 31  11    1123


Q ss_pred             HHHHHHHHhC-----CcEEEecCCCCCCHHHHHH
Q 032001           75 KGQALADEYG-----IKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        75 ~~~~~~~~~~-----~~~~~~Sak~~~~i~el~~  103 (149)
                      +...++...+     .+++++||++|.|+.+++.
T Consensus       172 ~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          172 QVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             HHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             HHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            3445555555     5799999999999986543

>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=98.53  E-value=4.9e-08  Score=75.83  Aligned_cols=98  Identities=17%  Similarity=0.032  Sum_probs=62.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC---CHHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV---PTSKGQALAD   81 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~---~~~~~~~~~~   81 (149)
                      ++|...+..+++.++ ++++|+|.++ ........| ..+..   .++| +++++||+|+. +....   ...+...++.
T Consensus        77 ~~f~~~~~~~~~~aD-~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviNK~Dl~-~~~~~~~~~~~~~~~~l~  150 (397)
T 1d2e_A           77 ADYVKNMITGTAPLD-GCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVNKADAV-QDSEMVELVELEIRELLT  150 (397)
T ss_dssp             HHHHHHHHHTSSCCS-EEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEECGGGC-SCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHhhCC-EEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEECcccC-CCHHHHHHHHHHHHHHHH
Confidence            345566666666554 5788889886 433333444 44443   3577 78999999987 31111   1123444555


Q ss_pred             HhC-----CcEEEecCCCCCC----------HHHHHHHHHHHHH
Q 032001           82 EYG-----IKFFETSAKTNLN----------VEQVFFSIARDIK  110 (149)
Q Consensus        82 ~~~-----~~~~~~Sak~~~~----------i~el~~~l~~~i~  110 (149)
                      ..+     .+++++||++|.|          +.+|++.|.+.++
T Consensus       151 ~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          151 EFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             HTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             HcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence            555     5899999999765          7888888877654

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.49  E-value=3.3e-07  Score=72.09  Aligned_cols=93  Identities=15%  Similarity=0.047  Sum_probs=56.2

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hh---HH---HHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCC--CC----
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YH---FS---DIRNWIRNIEQHASDNVN-KVLVGNKADMDESKR--AV----   71 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s---~~---~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~--~~----   71 (149)
                      -++|...+..+++.++. +++|+|.++ ..   |+   +....+..+..   .++| +|+|+||+|+. ...  ..    
T Consensus       105 h~~f~~~~~~~~~~aD~-~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~---~~v~~iIvviNK~Dl~-~~~~~~~~~~~  179 (439)
T 3j2k_7          105 HKSFVPNMIGGASQADL-AVLVISARKGEFETGFEKGGQTREHAMLAKT---AGVKHLIVLINKMDDP-TVNWSNERYEE  179 (439)
T ss_pred             hHHHHHHHHhhHhhCCE-EEEEEECCCCccccccCCCchHHHHHHHHHH---cCCCeEEEEeecCCCc-ccchHHHHHHH
Confidence            35677777788777655 677778875 21   11   22222222222   3466 99999999985 211  10    


Q ss_pred             CHHHHHHHHHHhC------CcEEEecCCCCCCHHHHHH
Q 032001           72 PTSKGQALADEYG------IKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        72 ~~~~~~~~~~~~~------~~~~~~Sak~~~~i~el~~  103 (149)
                      ...+...++...+      .+++++||++|.|+.++++
T Consensus       180 i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          180 CKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            1122333444433      4699999999999999765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.47  E-value=2.8e-07  Score=65.31  Aligned_cols=87  Identities=14%  Similarity=0.047  Sum_probs=55.8

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh--CCcEEEecC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY--GIKFFETSA   92 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa   92 (149)
                      ++....+.+++|+|... ..  ....+... .     +.|+++|+||+|+. .................  +.+++.+||
T Consensus       125 ~~~~~~~~~i~vvd~~~~~~--~~~~~~~~-~-----~~~~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~i~~~Sa  195 (221)
T 2wsm_A          125 DFDLGENYRVVMVSVTEGDD--VVEKHPEI-F-----RVADLIVINKVALA-EAVGADVEKMKADAKLINPRAKIIEMDL  195 (221)
T ss_dssp             GCCCSCSEEEEEEEGGGCTT--HHHHCHHH-H-----HTCSEEEEECGGGH-HHHTCCHHHHHHHHHHHCTTSEEEECBT
T ss_pred             hhccccCcEEEEEeCCCcch--hhhhhhhh-h-----hcCCEEEEecccCC-cchhhHHHHHHHHHHHhCCCCeEEEeec
Confidence            43334556778888875 21  11112111 1     36889999999986 22223344444555543  368999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 032001           93 KTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        93 k~~~~i~el~~~l~~~i~~  111 (149)
                      ++|.|++++|++|.+.+..
T Consensus       196 ~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          196 KTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             TTTBTHHHHHHHHHHHHC-
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            9999999999999987744

>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=98.45  E-value=3.5e-08  Score=78.21  Aligned_cols=95  Identities=16%  Similarity=0.015  Sum_probs=49.7

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCChh----hHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCC--C----CCHH
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIASY----HFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKR--A----VPTS   74 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~~----s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~--~----~~~~   74 (149)
                      -++|...+..++...+. +++|+|.++.    +|+....|.+.+......++| +|+++||+|+. ...  .    ....
T Consensus       131 h~~f~~~~~~~~~~aD~-~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~-~~~~~~~~~~~i~~  208 (467)
T 1r5b_A          131 HKGYVTNMINGASQADI-GVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEP-SVQWSEERYKECVD  208 (467)
T ss_dssp             -----------TTSCSE-EEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST-TCSSCHHHHHHHHH
T ss_pred             cHHHHHHHHhhcccCCE-EEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCC-CccccHHHHHHHHH
Confidence            35677777777766655 6777788752    333222333332221113576 99999999996 211  0    0112


Q ss_pred             HHHHHHHHh-------CCcEEEecCCCCCCHHHHH
Q 032001           75 KGQALADEY-------GIKFFETSAKTNLNVEQVF  102 (149)
Q Consensus        75 ~~~~~~~~~-------~~~~~~~Sak~~~~i~el~  102 (149)
                      +...++...       +++++++||++|.|+.+++
T Consensus       209 e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          209 KLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            344455554       3569999999999998765

>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=98.44  E-value=6.2e-07  Score=73.94  Aligned_cols=56  Identities=13%  Similarity=0.027  Sum_probs=39.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      |-++|...+..+++.++. +++|+|.++ .. .....|+..+..   .++|+++|+||+|+.
T Consensus        83 G~~~f~~~~~~~l~~ad~-~ilVvD~~~g~~-~qt~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           83 GYGDFVGEIRGALEAADA-ALVAVSAEAGVQ-VGTERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             CSGGGHHHHHHHHHHCSE-EEEEEETTTCSC-HHHHHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             CccchHHHHHHHHhhcCc-EEEEEcCCcccc-hhHHHHHHHHHH---ccCCEEEEecCCchh
Confidence            345677788888887766 566778775 33 334455555554   368999999999974

>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=98.42  E-value=1.1e-07  Score=75.16  Aligned_cols=95  Identities=13%  Similarity=0.025  Sum_probs=59.3

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCC-
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI-   85 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-   85 (149)
                      ++++..+..++.+++. +++|+|... .+.....|+.++...  .++|+++|+||+|+. ...    .....+. ..+. 
T Consensus        90 ~~~~~~~~~~~~~ad~-il~VvD~~~-~~~~~d~~l~~~l~~--~~~pvilV~NK~D~~-~~~----~~~~e~~-~lg~~  159 (456)
T 4dcu_A           90 AQIRQQAEIAMDEADV-IIFMVNGRE-GVTAADEEVAKILYR--TKKPVVLAVNKLDNT-EMR----ANIYDFY-SLGFG  159 (456)
T ss_dssp             HHHHHHHHHHHHHCSE-EEEEEESSS-CSCHHHHHHHHHHTT--CCSCEEEEEECC--------------CCSG-GGSSS
T ss_pred             HHHHHHHHhhHhhCCE-EEEEEeCCC-CCChHHHHHHHHHHH--cCCCEEEEEECccch-hhh----hhHHHHH-HcCCC
Confidence            4567778888888765 677777664 233344455544432  478999999999986 211    1111111 1232 


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ..+.+||++|.|+.++++.+.+.+..
T Consensus       160 ~~~~iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          160 EPYPISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             SEEECCTTTCTTHHHHHHHHHTTGGG
T ss_pred             ceEEeecccccchHHHHHHHHhhccc
Confidence            56899999999999999999876643

>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=98.41  E-value=7.5e-08  Score=72.24  Aligned_cols=101  Identities=20%  Similarity=0.221  Sum_probs=57.0

Q ss_pred             ccccccch-------hhhhhcCeEE----------EEEeeCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC
Q 032001            7 LCFIGVYP-------PYLAVLCRFK----------YCTYKIAS--YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES   67 (149)
Q Consensus         7 ~~~~~~~~-------~~~~~~~~~v----------i~v~~~~~--~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~   67 (149)
                      ++|+.+..       .|++...++.          +++|.+++  .+++....  +.++... .++++++|+||.|+. .
T Consensus        94 e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~--~~l~~l~-~~~~iilV~~K~Dl~-~  169 (301)
T 2qnr_A           94 DCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDV--AFMKAIH-NKVNIVPVIAKADTL-T  169 (301)
T ss_dssp             --CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHH--HHHHHHT-TTSCEEEEECCGGGS-C
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHH--HHHHHHH-hcCCEEEEEEeCCCC-C
Confidence            56677766       7777765421          23334443  23555541  2233322 467999999999986 3


Q ss_pred             CCCC--CHHHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           68 KRAV--PTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        68 ~~~~--~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+.+  ...++..++..++++++++||+++ +++++|..+++.+.+.
T Consensus       170 ~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          170 LKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            2221  224556677888999999999999 9999999999988654

>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=98.41  E-value=1.4e-07  Score=81.58  Aligned_cols=99  Identities=14%  Similarity=0.037  Sum_probs=63.2

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC---CHHHHHHHHHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV---PTSKGQALADE   82 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~   82 (149)
                      ++|...+..++..++. +|+|+|.++..+.+...|+..+...   ++| +|+++||+|+. +....   ...+...++..
T Consensus       370 edF~~~mi~gas~AD~-aILVVDAtdGv~~QTrEhL~ll~~l---gIP~IIVVINKiDLv-~d~e~le~i~eEi~elLk~  444 (1289)
T 3avx_A          370 ADYVKNMITGAAQMDG-AILVVAATDGPMPQTREHILLGRQV---GVPYIIVFLNKCDMV-DDEELLELVEMEVRELLSQ  444 (1289)
T ss_dssp             HHHHHHHHHTSCCCSE-EEEEEETTTCSCTTHHHHHHHHHHH---TCSCEEEEEECCTTC-CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCE-EEEEEcCCccCcHHHHHHHHHHHHc---CCCeEEEEEeecccc-cchhhHHHHHHHHHHHHHh
Confidence            3455566666665554 7788898862234455555555543   477 78999999997 31111   11234455555


Q ss_pred             hC-----CcEEEecCCCC--------CCHHHHHHHHHHHHH
Q 032001           83 YG-----IKFFETSAKTN--------LNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~-----~~~~~~Sak~~--------~~i~el~~~l~~~i~  110 (149)
                      .+     ++++++||++|        .|+.++++.|.+.++
T Consensus       445 ~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          445 YDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             TTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             ccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            54     58999999999        457788887776553

>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=98.37  E-value=4.9e-07  Score=71.49  Aligned_cols=90  Identities=13%  Similarity=-0.024  Sum_probs=55.3

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHH-------HHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCC----CHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFS-------DIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAV----PTS   74 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~-------~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~----~~~   74 (149)
                      ++|...+..++..++. +++|+|.++..+.       +...++..+..   .++| +|+|+||+|+. +....    ...
T Consensus        96 ~~f~~~~~~~~~~aD~-~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~-~~~~~~~~~i~~  170 (458)
T 1f60_A           96 RDFIKNMITGTSQADC-AILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSV-KWDESRFQEIVK  170 (458)
T ss_dssp             TTHHHHHHHSSSCCSE-EEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGG-TTCHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhCCE-EEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEccccc-cCCHHHHHHHHH
Confidence            4566667777766655 7788898862222       33333333333   2454 99999999997 21111    112


Q ss_pred             HHHHHHHHhC-----CcEEEecCCCCCCHHHH
Q 032001           75 KGQALADEYG-----IKFFETSAKTNLNVEQV  101 (149)
Q Consensus        75 ~~~~~~~~~~-----~~~~~~Sak~~~~i~el  101 (149)
                      +...++...+     .+++++||++|.|+.++
T Consensus       171 ~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          171 ETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             HHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             HHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            3344555554     58999999999998754

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.31  E-value=1.2e-06  Score=65.21  Aligned_cols=83  Identities=14%  Similarity=0.200  Sum_probs=56.8

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---HHhCCcEE
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFS--DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA---DEYGIKFF   88 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~--~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~   88 (149)
                      .++..+ +++++|+|..+ .+..  .+..|+        .++|.++|+||+|+. +     ......|.   +..+.+++
T Consensus        19 ~~l~~a-DvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~-~-----~~~~~~~~~~~~~~g~~~i   83 (282)
T 1puj_A           19 EKLKLI-DIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKA-D-----AAVTQQWKEHFENQGIRSL   83 (282)
T ss_dssp             HHGGGC-SEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGS-C-----HHHHHHHHHHHHTTTCCEE
T ss_pred             HHHhhC-CEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccC-C-----HHHHHHHHHHHHhcCCcEE
Confidence            344555 55777778875 3332  334443        368999999999997 2     12223333   33467899


Q ss_pred             EecCCCCCCHHHHHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+||+++.|+++++..+.+.+.+.
T Consensus        84 ~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           84 SINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             EEECCCcccHHHHHHHHHHHHHHH
Confidence            999999999999999988877643

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.31  E-value=6.7e-07  Score=63.52  Aligned_cols=58  Identities=21%  Similarity=0.181  Sum_probs=44.1

Q ss_pred             CeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh--CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           53 VNKVLVGNKADMDESKRAVPTSKGQALADEY--GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .|.++|+||+|+. ............++...  +.+++++||++|.|++++|+.+.+.+..
T Consensus       165 ~~~iiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          165 TADLIVINKIDLA-DAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TCSEEEEECGGGH-HHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cCCEEEEeccccC-chhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            5679999999986 32223445555555554  4689999999999999999999987743

>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=98.30  E-value=5.8e-07  Score=65.45  Aligned_cols=93  Identities=9%  Similarity=0.076  Sum_probs=53.7

Q ss_pred             hhhhcCeEEEEEeeCCh-hhH-HHHHHHHHHHHHhcCCCCeEEEEee-CCCCCcCCCCCCH-------HHHHHHHHHhCC
Q 032001           16 YLAVLCRFKYCTYKIAS-YHF-SDIRNWIRNIEQHASDNVNKVLVGN-KADMDESKRAVPT-------SKGQALADEYGI   85 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~-~~~~~~~~~i~~~~~~~~~iilv~n-K~Dl~~~~~~~~~-------~~~~~~~~~~~~   85 (149)
                      ++++. +++++|+|++. ... .....|+.++.... ...|.++|.| |+|+. .. ....       ..+..+....+.
T Consensus       102 ~~~~~-d~il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~-~~-~~~~~i~~~~~~~~~~~~~~~~~  177 (260)
T 2xtp_A          102 SAPGP-HVLLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLN-GG-SLMDYMHDSDNKALSKLVAACGG  177 (260)
T ss_dssp             HTTCC-SEEEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGT-TC-CHHHHHHHCCCHHHHHHHHHTTT
T ss_pred             cCCCC-cEEEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccC-Cc-cHHHHHHhcchHHHHHHHHHhCC
Confidence            44444 55788889885 221 22223433332111 1245555555 99997 32 2111       123335555543


Q ss_pred             c---E--EEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           86 K---F--FETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        86 ~---~--~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .   +  +.+||++|.|++++|..|.+.+...
T Consensus       178 ~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          178 RICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             CEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            2   2  7899999999999999999988654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.29  E-value=5.5e-07  Score=73.63  Aligned_cols=93  Identities=13%  Similarity=-0.042  Sum_probs=54.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCChhhHH----HHHHHHHHHHHhcCCC-CeEEEEeeCCCCCcCCCCCCHH----HHH
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIASYHFS----DIRNWIRNIEQHASDN-VNKVLVGNKADMDESKRAVPTS----KGQ   77 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~~s~~----~~~~~~~~i~~~~~~~-~~iilv~nK~Dl~~~~~~~~~~----~~~   77 (149)
                      ++|...+..+++.++. +++|+|.++..|.    ....+...+......+ .|+|+|+||+|+. ........    ...
T Consensus       256 e~f~~~~~~~~~~aD~-~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~-~~~~~~~~ei~~~l~  333 (611)
T 3izq_1          256 RDFVPNAIMGISQADM-AILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNV-DWSQQRFEEIKSKLL  333 (611)
T ss_dssp             SCHHHHHTTTSSCCSE-EEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTT-TTCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHhhcCc-eEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEeccccc-chhHHHHHHHHHHHH
Confidence            5667777777777655 7888898852232    1112222221111123 4599999999997 32221111    223


Q ss_pred             HHHHHhC-----CcEEEecCCCCCCHHHH
Q 032001           78 ALADEYG-----IKFFETSAKTNLNVEQV  101 (149)
Q Consensus        78 ~~~~~~~-----~~~~~~Sak~~~~i~el  101 (149)
                      .+....+     .+++++||++|.|+.++
T Consensus       334 ~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          334 PYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHhhcccccCccEEeeecccCCCcccc
Confidence            3333333     58999999999999876

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.27  E-value=1.8e-07  Score=68.97  Aligned_cols=68  Identities=15%  Similarity=0.172  Sum_probs=35.9

Q ss_pred             HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           39 RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        39 ~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ..|+..+..    ++|+|+|+||+|+. .......  ..........+++++.+||+++.++++++.+|.+.++-
T Consensus       135 ~~~l~~l~~----~~pvi~V~nK~D~~-~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~p~  204 (274)
T 3t5d_A          135 IEFMKRLHE----KVNIIPLIAKADTL-TPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLPL  204 (274)
T ss_dssp             HHHHHHHTT----TSCEEEEESSGGGS-CHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTCSE
T ss_pred             HHHHHHHhc----cCCEEEEEeccCCC-CHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCCCc
Confidence            345554433    68999999999986 2111111  12233445668889999999999999999998876643

>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=98.25  E-value=3.3e-06  Score=69.94  Aligned_cols=54  Identities=17%  Similarity=0.172  Sum_probs=40.6

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ..|...+..+++.++. +++|+|.++ .++.....|.. +..   .++|+++|+||+|+.
T Consensus        88 ~df~~~~~~~l~~aD~-~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~  142 (691)
T 1dar_A           88 VDFTIEVERSMRVLDG-AIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKT  142 (691)
T ss_dssp             TTCHHHHHHHHHHCSE-EEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTST
T ss_pred             cchHHHHHHHHHHCCE-EEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCcc
Confidence            4577778888888766 677778886 66777767754 333   368999999999986

>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=98.24  E-value=1.9e-06  Score=62.05  Aligned_cols=100  Identities=12%  Similarity=0.054  Sum_probs=58.9

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCCcCCCCCC------HHHHHHH
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS--DNVNKVLVGNKADMDESKRAVP------TSKGQAL   79 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~--~~~~iilv~nK~Dl~~~~~~~~------~~~~~~~   79 (149)
                      +...+..++.+. +++++|+|+++ ..  ....|+..+....+  ...|+++|+||+|+. ....+.      ...+..+
T Consensus       102 ~~~~~~~~~~~~-~~~l~v~d~~~~~~--~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~-~~~~~~~~i~~~~~~l~~l  177 (239)
T 3lxx_A          102 IIRCILLTSPGP-HALLLVVPLGRYTE--EEHKATEKILKMFGERARSFMILIFTRKDDL-GDTNLHDYLREAPEDIQDL  177 (239)
T ss_dssp             HHHHHHHTTTCC-SEEEEEEETTCCSS--HHHHHHHHHHHHHHHHHGGGEEEEEECGGGC-------------CHHHHHH
T ss_pred             HHHHHHhcCCCC-cEEEEEeeCCCCCH--HHHHHHHHHHHHhhhhccceEEEEEeCCccC-CcccHHHHHHhchHHHHHH
Confidence            333444444444 55788889875 22  12233333332111  235999999999986 333222      1345667


Q ss_pred             HHHhCCcEEEecCCCC-----CCHHHHHHHHHHHHHHH
Q 032001           80 ADEYGIKFFETSAKTN-----LNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 ~~~~~~~~~~~Sak~~-----~~i~el~~~l~~~i~~~  112 (149)
                      .+..+..++.+++..+     .++.++|..+.+.+.+.
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          178 MDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             HHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            7788887887777644     68899999888877543

>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=98.16  E-value=1e-05  Score=65.09  Aligned_cols=54  Identities=15%  Similarity=-0.006  Sum_probs=36.2

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      +.|...+..+++.++. +++|+|.++ .. .....++..+..   .++|+++++||+|+.
T Consensus        93 ~df~~~~~~~l~~aD~-~IlVvDa~~g~~-~~t~~~~~~~~~---~~ipiivviNK~Dl~  147 (529)
T 2h5e_A           93 EDFSEDTYRTLTAVDC-CLMVIDAAKGVE-DRTRKLMEVTRL---RDTPILTFMNKLDRD  147 (529)
T ss_dssp             TTCCHHHHHGGGGCSE-EEEEEETTTCSC-HHHHHHHHHHTT---TTCCEEEEEECTTSC
T ss_pred             hhHHHHHHHHHHHCCE-EEEEEeCCccch-HHHHHHHHHHHH---cCCCEEEEEcCcCCc
Confidence            4677777888877766 677778875 32 223333333332   468999999999986

>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=98.15  E-value=9.6e-07  Score=67.55  Aligned_cols=83  Identities=12%  Similarity=0.134  Sum_probs=51.6

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH---h-------CCcE
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE---Y-------GIKF   87 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~---~-------~~~~   87 (149)
                      ...+++++|+|... ..+..+..   .+     ...|.++|+||+|+. ..... ......+...   .       +.++
T Consensus       191 ~~aD~vl~V~d~~~~~~~~~l~~---~~-----~~~p~ivVlNK~Dl~-~~~~~-~~~~~~l~~~l~~~~~~~~~~~~~v  260 (355)
T 3p32_A          191 NMVDTFVLLTLARTGDQLQGIKK---GV-----LELADIVVVNKADGE-HHKEA-RLAARELSAAIRLIYPREALWRPPV  260 (355)
T ss_dssp             TTCSEEEEEEESSTTCTTTTCCT---TS-----GGGCSEEEEECCCGG-GHHHH-HHHHHHHHHHHHHHSTTCCSCCCCE
T ss_pred             HhCCEEEEEECCCCCccHHHHHH---hH-----hhcCCEEEEECCCCc-ChhHH-HHHHHHHHHHHhhccccccCCCCce
Confidence            34566778878764 32222111   11     236889999999986 21111 1111122221   1       4689


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+||++|.|+++++++|.+.+..
T Consensus       261 i~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          261 LTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             EEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988765

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.14  E-value=2.7e-06  Score=70.55  Aligned_cols=96  Identities=13%  Similarity=0.125  Sum_probs=62.7

Q ss_pred             ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHH----------HHHH-
Q 032001           11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTS----------KGQA-   78 (149)
Q Consensus        11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~----------~~~~-   78 (149)
                      .++..|+.++ +++++|+|.+. .++.....|...+..   .+.|+++|+||+|+. ....+...          .... 
T Consensus       192 ~~~~~~i~~a-D~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~-~~~~~~~ee~e~l~~~~~~i~~~  266 (695)
T 2j69_A          192 ELSLGYVNNC-HAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQV-RESLIDPDDVEELQASENRLRQV  266 (695)
T ss_dssp             HHHTHHHHSS-SEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGG-GGGCSSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccc-cccccChhhHHHHHHHHHHHHHH
Confidence            4455666665 55788889876 667777777655433   357899999999986 32211110          0111 


Q ss_pred             ----HHHH--------hCCcEEEecCC--------------CCCCHHHHHHHHHHHHHH
Q 032001           79 ----LADE--------YGIKFFETSAK--------------TNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        79 ----~~~~--------~~~~~~~~Sak--------------~~~~i~el~~~l~~~i~~  111 (149)
                          +...        ...+++++||+              ++.|+++++..+.+.+..
T Consensus       267 ~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          267 FNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             HHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence                1111        12368999999              999999999999887754

>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=98.14  E-value=3.2e-06  Score=59.16  Aligned_cols=95  Identities=13%  Similarity=0.090  Sum_probs=59.3

Q ss_pred             ccccchhhhh--hcCeEEEEEeeCCh-hhHHH--HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCC--CCHHHHHHHHH
Q 032001            9 FIGVYPPYLA--VLCRFKYCTYKIAS-YHFSD--IRNWIRNIEQHASDNVNKVLVGNKADMDESKRA--VPTSKGQALAD   81 (149)
Q Consensus         9 ~~~~~~~~~~--~~~~~vi~v~~~~~-~s~~~--~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~   81 (149)
                      |+.+...|+.  ...+.+++++|++. .++..  +..|+.   .   .++|+++|+||+|+. +..+  .....+..++.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~---~---~~~~~~~v~nK~D~~-s~~~~~~~~~~~~~~~~  167 (210)
T 1pui_A           95 WQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV---D---SNIAVLVLLTKADKL-ASGARKAQLNMVREAVL  167 (210)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---H---TTCCEEEEEECGGGS-CHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH---H---cCCCeEEEEecccCC-CchhHHHHHHHHHHHHH
Confidence            3444445553  24456788889875 44432  233332   2   358999999999986 2111  11123333444


Q ss_pred             HhC--CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           82 EYG--IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        82 ~~~--~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..+  +.++++||+++.+++++++.|.+.+.
T Consensus       168 ~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~  198 (210)
T 1pui_A          168 AFNGDVQVETFSSLKKQGVDKLRQKLDTWFS  198 (210)
T ss_dssp             GGCSCEEEEECBTTTTBSHHHHHHHHHHHHC
T ss_pred             hcCCCCceEEEeecCCCCHHHHHHHHHHHHh
Confidence            443  46789999999999999999988663

>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=98.13  E-value=1.4e-07  Score=72.12  Aligned_cols=97  Identities=12%  Similarity=0.044  Sum_probs=61.2

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH--HHHHhC
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA--LADEYG   84 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~--~~~~~~   84 (149)
                      ++..+...|+.+.++++++|.+.+. ..-.....|+..+   .+.+.|+++|+||+|+. +...........  +....+
T Consensus       155 ~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~---~~~~~~~i~V~NK~Dl~-~~~~~~~~~~~~~~~~l~~~  230 (353)
T 2x2e_A          155 QIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEV---DPQGQRTIGVITKLDLM-DEGTDARDVLENKLLPLRRG  230 (353)
T ss_dssp             HHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHH---CTTCTTEEEEEECGGGS-CTTCCCHHHHTTCSSCCTTC
T ss_pred             HHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHh---CcCCCceEEEecccccc-CcchhHHHHHhCCcccccCC
Confidence            6677888999988888887877653 1111112233333   33578999999999997 322211111110  000123


Q ss_pred             -CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           85 -IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        85 -~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                       .+++.+||+++.|++++++.+.+.
T Consensus       231 ~~~v~~~SA~~~~~i~~l~~~l~~e  255 (353)
T 2x2e_A          231 YIGVVNRSQKDIDGKKDITAALAAE  255 (353)
T ss_dssp             EEECCCCCHHHHHTTCCHHHHHHHH
T ss_pred             ceEEEeCCcccccccccHHHHHHHH
Confidence             256789999999999999999873

>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=98.12  E-value=1.6e-05  Score=66.06  Aligned_cols=54  Identities=17%  Similarity=0.101  Sum_probs=38.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      .+|...+..+++.++. +++|+|.++ ..+.....|. .+..   .++|+++|+||+|+.
T Consensus        93 ~df~~~~~~~l~~aD~-aIlVvDa~~gv~~qt~~~~~-~~~~---~~ip~ilviNKiD~~  147 (704)
T 2rdo_7           93 VDFTIEVERSMRVLDG-AVMVYCAVGGVQPQSETVWR-QANK---YKVPRIAFVNKMDRM  147 (704)
T ss_pred             cchHHHHHHHHHHCCE-EEEEEeCCCCCcHHHHHHHH-HHHH---cCCCEEEEEeCCCcc
Confidence            4677788888887766 677778876 5555555553 3333   368999999999986

>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=98.11  E-value=1.1e-05  Score=58.37  Aligned_cols=27  Identities=19%  Similarity=0.059  Sum_probs=24.1

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++||+++.|+++++++|.+.+..
T Consensus       231 ~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          231 VRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             CCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccceEEEecCcccHHHHHHHHHHHhcc
Confidence            479999999999999999999987754

>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=98.09  E-value=5.7e-07  Score=70.40  Aligned_cols=89  Identities=16%  Similarity=0.203  Sum_probs=44.8

Q ss_pred             hhhhcCeEEEEEeeCCh--hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHHhCCcEEEe
Q 032001           16 YLAVLCRFKYCTYKIAS--YHFSDIR-NWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADEYGIKFFET   90 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~--~s~~~~~-~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~~~   90 (149)
                      ++.+... .+++|.+++  .+++..+ .|+..+.    .++++|+|+||+|+. ..+.+..  ..+..++..++++++++
T Consensus       133 l~~d~~~-~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll-~~~ev~~~k~~i~~~~~~~~i~~~~~  206 (418)
T 2qag_C          133 QMPDNRV-QCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTL-TPEECQQFKKQIMKEIQEHKIKIYEF  206 (418)
T ss_dssp             CCCCC-C-CEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSS-CHHHHHHHHHHHHHHHHHHTCCCCCC
T ss_pred             hccCCCe-eEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCc-cHHHHHHHHHHHHHHHHHcCCeEEeC
Confidence            3334433 334444444  3566654 6777664    368999999999986 3222222  34556667789999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i~  110 (149)
                      ||+++.+++++|..+...++
T Consensus       207 sa~~~~~v~~~~~~l~~~iP  226 (418)
T 2qag_C          207 PETDDEEENKLVKKIKDRLP  226 (418)
T ss_dssp             C-----------------CC
T ss_pred             CCCCCcCHHHHHHHHHhhCC
Confidence            99999999998888877654

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.08  E-value=5.6e-07  Score=73.30  Aligned_cols=88  Identities=16%  Similarity=0.026  Sum_probs=45.6

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-h---hH---HHHHHHHHHHHHhcCCCCe-EEEEeeCCCCCcCCCCCCH----H
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-Y---HF---SDIRNWIRNIEQHASDNVN-KVLVGNKADMDESKRAVPT----S   74 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~---s~---~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~~~~~~~~~----~   74 (149)
                      ++|...+..+++.++. +|+|+|.+. .   .+   ......+..+..   .++| +|+|+||+|+. .......    .
T Consensus       266 ~~f~~~~~~~~~~aD~-alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~---lgip~iIvviNKiDl~-~~~~~~~~~i~~  340 (592)
T 3mca_A          266 RDFISGMIAGASSADF-AVLVVDSSQNNFERGFLENGQTREHAYLLRA---LGISEIVVSVNKLDLM-SWSEDRFQEIKN  340 (592)
T ss_dssp             SEEEEECCC--------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH---SSCCCEEEEEECGGGG-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCE-EEEEEECCCCccccccccchHHHHHHHHHHH---cCCCeEEEEEeccccc-cccHHHHHHHHH
Confidence            5677777777777665 566667764 2   11   111222222222   2455 99999999997 3111111    1


Q ss_pred             HHHHHH-HHhCC-----cEEEecCCCCCCHH
Q 032001           75 KGQALA-DEYGI-----KFFETSAKTNLNVE   99 (149)
Q Consensus        75 ~~~~~~-~~~~~-----~~~~~Sak~~~~i~   99 (149)
                      +...+. ...++     +++++||++|.|+.
T Consensus       341 el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          341 IVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            122222 22343     68999999999997

>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=98.04  E-value=2.2e-06  Score=64.55  Aligned_cols=89  Identities=9%  Similarity=0.150  Sum_probs=55.4

Q ss_pred             cccchhhhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCC--CHHHHHHHHHHhCC
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--PTSKGQALADEYGI   85 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~   85 (149)
                      ..+..+..++.+. +++|+|.. + .+.+.+++++..+..   .++|.++|.||+||. +....  ............|.
T Consensus        77 ~~l~R~~~anvD~-v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~-~~~~~~~~~~~~~~~y~~~g~  151 (307)
T 1t9h_A           77 NELIRPPICNVDQ-AVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLI-EDQDTEDTIQAYAEDYRNIGY  151 (307)
T ss_dssp             CEETTTTEECCCE-EEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGC-CCHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhhHHHHHhCCE-EEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccC-chhhhHHHHHHHHHHHHhCCC
Confidence            3444455566655 67777886 4 555666666655444   468999999999997 32110  01122233344578


Q ss_pred             cEEEecCCCCCCHHHHHH
Q 032001           86 KFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~  103 (149)
                      +++.+||+++.|+++|+.
T Consensus       152 ~v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          152 DVYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             CEEECCHHHHTTCTTTGG
T ss_pred             eEEEEecCCCCCHHHHHh
Confidence            999999988887765544

>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=98.04  E-value=1.8e-05  Score=60.71  Aligned_cols=82  Identities=15%  Similarity=0.105  Sum_probs=54.5

Q ss_pred             hhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH---HHhCCcEEEecC
Q 032001           17 LAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA---DEYGIKFFETSA   92 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa   92 (149)
                      .++.+. +++|++..+ .+...++.++-....   .++|.++|.||+||. +..  .......|.   ...|++++.+||
T Consensus       128 ~anvD~-v~iv~a~~P~~~~~~i~r~L~~a~~---~~~~~iivlNK~DL~-~~~--~~~~~~~~~~~y~~~G~~v~~~Sa  200 (358)
T 2rcn_A          128 AANIDQ-IVIVSAILPELSLNIIDRYLVGCET---LQVEPLIVLNKIDLL-DDE--GMDFVNEQMDIYRNIGYRVLMVSS  200 (358)
T ss_dssp             EECCCE-EEEEEESTTTCCHHHHHHHHHHHHH---HTCEEEEEEECGGGC-CHH--HHHHHHHHHHHHHTTTCCEEECBT
T ss_pred             HhcCCE-EEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCC-Cch--hHHHHHHHHHHHHhCCCcEEEEec
Confidence            355555 556677776 566677777765544   357889999999997 211  111123333   345789999999


Q ss_pred             CCCCCHHHHHHHH
Q 032001           93 KTNLNVEQVFFSI  105 (149)
Q Consensus        93 k~~~~i~el~~~l  105 (149)
                      +++.|++++...+
T Consensus       201 ~~~~gl~~L~~~~  213 (358)
T 2rcn_A          201 HTQDGLKPLEEAL  213 (358)
T ss_dssp             TTTBTHHHHHHHH
T ss_pred             CCCcCHHHHHHhc
Confidence            9999999876543

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.02  E-value=3.8e-05  Score=63.65  Aligned_cols=54  Identities=19%  Similarity=0.094  Sum_probs=39.4

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      ..|...+..+++.++. +++|+|.++ .++.....|.. +..   .++|+++|+||+|+.
T Consensus        86 ~df~~~~~~~l~~aD~-~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~  140 (693)
T 2xex_A           86 VDFTVEVERSLRVLDG-AVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKL  140 (693)
T ss_dssp             SSCCHHHHHHHHHCSE-EEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTST
T ss_pred             cchHHHHHHHHHHCCE-EEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCcc
Confidence            4566777788888766 677778876 66666666644 444   368999999999986

>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=97.92  E-value=2.6e-06  Score=65.13  Aligned_cols=95  Identities=9%  Similarity=-0.020  Sum_probs=57.5

Q ss_pred             cccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEE
Q 032001           10 IGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFF   88 (149)
Q Consensus        10 ~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   88 (149)
                      ..+...|+.+.+.+ +++++..+ ...  ...|+..+......+.|+++|+||+|+. .........+..+....+.+++
T Consensus       163 ~~~~~~~i~~~d~i-ilvv~~~~~~~~--~~~~~~l~~~~~~~~~~~i~V~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~  238 (360)
T 3t34_A          163 ENMVRSYIEKPNCI-ILAISPANQDLA--TSDAIKISREVDPSGDRTFGVLTKIDLM-DKGTDAVEILEGRSFKLKYPWV  238 (360)
T ss_dssp             HHHHHHHHHSSSEE-EEEEEETTSCGG--GCHHHHHHHHSCTTCTTEEEEEECGGGC-CTTCCSHHHHTTSSSCCSSCCE
T ss_pred             HHHHHHHhhcCCeE-EEEeecccCCcC--CHHHHHHHHHhcccCCCEEEEEeCCccC-CCcccHHHHHcCccccccCCeE
Confidence            55677788877665 44445432 211  1345555554444568999999999987 3333333333333334557789


Q ss_pred             EecCCCCCCHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~  108 (149)
                      .+++.++.++++.+..+...
T Consensus       239 ~v~~~s~~~i~~~~~~~~~~  258 (360)
T 3t34_A          239 GVVNRSQADINKNVDMIAAR  258 (360)
T ss_dssp             EECCCCHHHHHTTCCHHHHH
T ss_pred             EEEECChHHhccCCCHHHHH
Confidence            99999887777665554433

>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=97.88  E-value=1.3e-05  Score=59.66  Aligned_cols=98  Identities=10%  Similarity=0.017  Sum_probs=54.7

Q ss_pred             ccccchhhhhhcCeEEEEEeeC-Chh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKI-ASY-HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~-~~~-s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      +..++..|+.+.+. +++|+|. +.. .......+...+..   .+.|+++|+||+|+. .........+.......+..
T Consensus       157 ~~~~~~~~~~~~d~-iilvvd~~~~~~~~~~~~~i~~~~~~---~~~~~i~v~NK~Dl~-~~~~~~~~~~~~~~~~~~~~  231 (315)
T 1jwy_B          157 IRRMVMAYIKKQNA-IIVAVTPANTDLANSDALQLAKEVDP---EGKRTIGVITKLDLM-DKGTDAMEVLTGRVIPLTLG  231 (315)
T ss_dssp             HHHHHHHHHHSTTE-EEEEEEESSSCSTTCSHHHHHHHHCS---SCSSEEEEEECTTSS-CSSCCCHHHHTTSSSCCTTC
T ss_pred             HHHHHHHHHcCCCe-EEEEEEecCcchhhhHHHHHHHHhCC---CCCcEEEEEcCcccC-CcchHHHHHHhCCCccCCCC
Confidence            55666777777765 5666665 321 11111233333322   468999999999987 32221122221100111244


Q ss_pred             EEEecC---CC---CCCHHHHHHHHHHHHHH
Q 032001           87 FFETSA---KT---NLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        87 ~~~~Sa---k~---~~~i~el~~~l~~~i~~  111 (149)
                      ++.+++   .+   +.|+.+++..+.+.+..
T Consensus       232 ~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          232 FIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             EEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             eEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            555554   44   78899999998887754

>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=97.71  E-value=8.5e-05  Score=56.42  Aligned_cols=83  Identities=13%  Similarity=0.119  Sum_probs=47.4

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHHh-------CCcEE
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADEY-------GIKFF   88 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~~-------~~~~~   88 (149)
                      ...|++++|+|... ..+..+..   ..     .++|.++|+||+|+. .......  ..........       ..+++
T Consensus       168 ~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~-~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi  238 (341)
T 2p67_A          168 RMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGD-NHTNVAIARHMYESALHILRRKYDEWQPRVL  238 (341)
T ss_dssp             TTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTT-CHHHHHHHHHHHHHHHHHSCCSBTTBCCEEE
T ss_pred             HhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCC-ChHHHHHHHHHHHHHHHhccccccCCCCcEE
Confidence            45566788888764 22211111   11     135789999999986 2111100  0111111121       34688


Q ss_pred             EecCCCCCCHHHHHHHHHHHHH
Q 032001           89 ETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        89 ~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+||++|.|++++++.|.+.+.
T Consensus       239 ~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          239 TCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             ECBGGGTBSHHHHHHHHHHHHH
T ss_pred             EeeCCCCCCHHHHHHHHHHHHH
Confidence            9999999999999999998765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.68  E-value=2.4e-05  Score=57.42  Aligned_cols=78  Identities=13%  Similarity=0.085  Sum_probs=49.8

Q ss_pred             hhhhhcCeEEEEEeeCCh-hhHHH--HHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEec
Q 032001           15 PYLAVLCRFKYCTYKIAS-YHFSD--IRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS   91 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~-~s~~~--~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S   91 (149)
                      ..+.++ +++++|.|..+ .+...  +. |+         ++|.++|.||+|+. +..  .......+.+..+.++ .+|
T Consensus        17 ~~l~~~-D~vl~VvDar~P~~~~~~~l~-ll---------~k~~iivlNK~DL~-~~~--~~~~~~~~~~~~g~~v-~iS   81 (262)
T 3cnl_A           17 DLLRLV-NTVVEVRDARAPFATSAYGVD-FS---------RKETIILLNKVDIA-DEK--TTKKWVEFFKKQGKRV-ITT   81 (262)
T ss_dssp             HHHTTC-SEEEEEEETTSTTTTSCTTSC-CT---------TSEEEEEEECGGGS-CHH--HHHHHHHHHHHTTCCE-EEC
T ss_pred             HHHhhC-CEEEEEeeCCCCCcCcChHHH-hc---------CCCcEEEEECccCC-CHH--HHHHHHHHHHHcCCeE-EEE
Confidence            444555 55788888874 32221  22 22         57999999999997 210  0111222334457788 999


Q ss_pred             CCCCCCHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIAR  107 (149)
Q Consensus        92 ak~~~~i~el~~~l~~  107 (149)
                      |+++.|+++++..+..
T Consensus        82 a~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           82 HKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             CTTSCHHHHHHHHCCC
T ss_pred             CCCCcCHHHHHHHHHH
Confidence            9999999998877654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.64  E-value=0.00029  Score=53.70  Aligned_cols=83  Identities=12%  Similarity=0.082  Sum_probs=47.2

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH----------HhCCcE
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD----------EYGIKF   87 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~----------~~~~~~   87 (149)
                      ...+++++|+|... .....+.   ..+     -..|.++|+||+|+. ..... ......+..          ....++
T Consensus       186 ~~~d~vl~V~d~~~~~~~~~i~---~~i-----l~~~~ivVlNK~Dl~-~~~~~-~~~~~~l~~~l~~~~~~a~~~~~~v  255 (349)
T 2www_A          186 DMVDMFVLLLPPAGGDELQGIK---RGI-----IEMADLVAVTKSDGD-LIVPA-RRIQAEYVSALKLLRKRSQVWKPKV  255 (349)
T ss_dssp             TTCSEEEEEECCC--------------------CCSCSEEEECCCSGG-GHHHH-HHHHHHHHHHHTTCC-----CCCEE
T ss_pred             hhCCEEEEEEcCCcchhHHHhH---HHH-----HhcCCEEEEeeecCC-CchhH-HHHHHHHHHHHHhcCccccCCCceE
Confidence            34566788888774 2211111   111     235778999999986 21000 011111211          113478


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +.+||++|.|+++++++|.+.+..
T Consensus       256 i~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          256 IRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999987643

>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=97.59  E-value=1.4e-05  Score=66.84  Aligned_cols=95  Identities=12%  Similarity=0.046  Sum_probs=61.2

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----   82 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----   82 (149)
                      .+..+...|+....+++++|.|.+. ........+...+..   .+.|+|+|.||+|+. ...........  ...    
T Consensus       175 ~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~---~g~pvIlVlNKiDlv-~~~~~~~~il~--~~~~~l~  248 (772)
T 3zvr_A          175 QIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKLDLM-DEGTDARDVLE--NKLLPLR  248 (772)
T ss_dssp             HHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCT---TCSSEEEEEECTTSS-CTTCCSHHHHT--TCSSCCS
T ss_pred             HHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHh---cCCCEEEEEeCcccC-CcchhhHHHHH--HHhhhhh
Confidence            3455677788778888999988874 222222234444432   468999999999987 32222221111  001    


Q ss_pred             hC-CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 YG-IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ~~-~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      .+ .+++.+||++|.|+++|++.+.+.
T Consensus       249 lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          249 RGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             SCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCceEEecccccccchhHHHHHHHH
Confidence            12 257789999999999999998874

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.53  E-value=0.00044  Score=55.83  Aligned_cols=28  Identities=18%  Similarity=0.085  Sum_probs=24.8

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .|++..||+++.||++|++.+++.++..
T Consensus       269 ~PV~~gSA~~~~Gv~~LLd~iv~~~PsP  296 (548)
T 3vqt_A          269 TPVFFGSAINNFGVREMLDMFVEFAPGP  296 (548)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSCCS
T ss_pred             ceeeecccccCcCHHHHHHHHHHhCCCC
Confidence            3788999999999999999999988654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.16  E-value=0.0008  Score=48.95  Aligned_cols=46  Identities=13%  Similarity=0.208  Sum_probs=33.0

Q ss_pred             cCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCC--CeEEEEeeCCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDN--VNKVLVGNKADMD   65 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~--~~iilv~nK~Dl~   65 (149)
                      ..+++++|++++...+... ..|+..+....+.+  .|+++|+||+|+.
T Consensus       116 ~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A          116 TIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             EECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             CCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence            3467899988886335444 47888877754433  4999999999986

>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=97.10  E-value=0.00012  Score=56.84  Aligned_cols=46  Identities=28%  Similarity=0.281  Sum_probs=31.9

Q ss_pred             CCeEEEEeeCCCCCcCCCCCCHHHHHHHHH---HhCCcEEEecCCCCCCHHHHHH
Q 032001           52 NVNKVLVGNKADMDESKRAVPTSKGQALAD---EYGIKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~~Sak~~~~i~el~~  103 (149)
                      .+|+++|+||+|+. .     ......+.+   ..+.+++.+||+.+.++.+++.
T Consensus       214 ~kP~i~v~NK~D~~-~-----~~~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          214 NKPMVIAANKADAA-S-----DEQIKRLVREEEKRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             HSCEEEEEECGGGS-C-----HHHHHHHHHHHHHTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCCEEEEEeCcccc-c-----hHHHHHHHHHHhhcCCcEEEEeccchhhHHHHHh
Confidence            48999999999975 2     122222222   2367899999999988876543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.09  E-value=0.001  Score=50.41  Aligned_cols=26  Identities=8%  Similarity=0.056  Sum_probs=23.0

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+++.+||+++.|++++++.|.+...
T Consensus       235 ~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          235 PPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             CCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999999988664

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.02  E-value=0.0012  Score=48.24  Aligned_cols=46  Identities=7%  Similarity=0.146  Sum_probs=33.0

Q ss_pred             cCeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCC--CeEEEEeeCCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDI-RNWIRNIEQHASDN--VNKVLVGNKADMD   65 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~--~~iilv~nK~Dl~   65 (149)
                      ..+++++|++++..++... ..|+..+....+.+  .|+++|+||+|+.
T Consensus       119 ~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~  167 (270)
T 1h65_A          119 TIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFS  167 (270)
T ss_dssp             EECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCC
T ss_pred             CCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccC
Confidence            4566888988875334433 47888876654333  6999999999986

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.82  E-value=0.0017  Score=53.23  Aligned_cols=28  Identities=18%  Similarity=0.380  Sum_probs=24.2

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .|++..||+++.||+.|++.+.+.++..
T Consensus       213 ~Pv~~gSa~~~~Gv~~LLd~i~~~~p~p  240 (638)
T 3j25_A          213 FPLYHGSAKSNIGIDNLIEVITNKFYSS  240 (638)
T ss_dssp             CCCCCCCSTTCCSHHHHHHHHHHSCCCS
T ss_pred             ccccccccccCCCchhHhhhhhccccCc
Confidence            4788999999999999999999877644

>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=96.80  E-value=0.0016  Score=55.04  Aligned_cols=55  Identities=15%  Similarity=0.064  Sum_probs=42.0

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      -.+|...+..+++.+++ +++|+|.++ .++.....|.... .   .++|+++|+||+|+.
T Consensus       108 ~~df~~~~~~~l~~aD~-ailVvDa~~g~~~qt~~~~~~~~-~---~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          108 HVDFSSEVTAALRVTDG-ALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CCSSCHHHHHHHHTCSE-EEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             chhhHHHHHHHHHhCCE-EEEEEeCCCCCCHHHHHHHHHHH-H---cCCCeEEEEECCCcc
Confidence            35688888899988877 677778887 6777777676543 2   368999999999986

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.54  E-value=0.016  Score=48.14  Aligned_cols=28  Identities=14%  Similarity=0.026  Sum_probs=24.3

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .|.+..||.++.|+..|++.+++.++..
T Consensus       265 ~pv~~gsa~~~~gv~~lLd~i~~~lPsP  292 (709)
T 4fn5_A          265 VPAVCGSSFKNKGVPLVLDAVIDYLPAP  292 (709)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHSCCT
T ss_pred             eeeeeeecccCCchHHHHHHHHhhCCCC
Confidence            3678899999999999999999988654

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.08  E-value=0.0026  Score=51.32  Aligned_cols=53  Identities=17%  Similarity=0.086  Sum_probs=38.2

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      |..++..++.+++ ++++|+|.+. ........|+..+..   .+.|+++|+||+|+.
T Consensus       178 f~~~~~~~l~~aD-~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          178 FPAVLRWFAERVD-LIILLFDAHKLEISDEFSEAIGALRG---HEDKIRVVLNKADMV  231 (550)
T ss_dssp             HHHHHHHHHHHCS-EEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEEEEECGGGS
T ss_pred             HHHHHHHHHHhCC-EEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEEEEECCCcc
Confidence            4456666776665 4788889876 455666777776654   357999999999987

>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=95.29  E-value=0.18  Score=38.51  Aligned_cols=42  Identities=10%  Similarity=0.031  Sum_probs=29.8

Q ss_pred             CCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCC
Q 032001           52 NVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT   94 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~   94 (149)
                      ..|+++++|+.|.. -...........++...+.+++.+||+.
T Consensus       199 ~KPvi~v~N~~e~~-~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          199 LKPTMYIANVNEDG-FENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             TSCEEEEEECCTTC-SSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             CCcEEEEEeccccc-ccccHHHHHHHHHHHHcCCCEEEechHH
Confidence            58999999999864 2112223455667777788999999864

>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=91.65  E-value=0.068  Score=40.97  Aligned_cols=52  Identities=17%  Similarity=0.063  Sum_probs=35.6

Q ss_pred             CCeEEEEeeCCCCCc-CC-CCCCHHHHHHHHHHhCCcEEEecCCCCCCHHHHHH
Q 032001           52 NVNKVLVGNKADMDE-SK-RAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        52 ~~~iilv~nK~Dl~~-~~-~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~el~~  103 (149)
                      ..|+++++||.|..- +. +.........++...+.+++++||+++.++.++..
T Consensus       201 ~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~  254 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSG  254 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCH
T ss_pred             cCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhch
Confidence            379999999997320 11 12334556667777889999999998766655443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=85.34  E-value=0.57  Score=37.38  Aligned_cols=76  Identities=8%  Similarity=-0.039  Sum_probs=43.2

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeE-EEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcE-----------
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNK-VLVGNKADMDESKRAVPTSKGQALADEYGIKF-----------   87 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~i-ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-----------   87 (149)
                      .+.+++|.|... ..   .......+..    .+|+ ++|.||+|.. ....    .+.......+.|+           
T Consensus       214 pd~vllVvDa~~g~~---~~~~a~~~~~----~~~i~gvVlNK~D~~-~~~g----~~l~~~~~~g~PI~fig~ge~~~d  281 (504)
T 2j37_W          214 PDNIVYVMDASIGQA---CEAQAKAFKD----KVDVASVIVTKLDGH-AKGG----GALSAVAATKSPIIFIGTGEHIDD  281 (504)
T ss_dssp             CSEEEEEEETTCCTT---HHHHHHHHHH----HHCCCCEEEECTTSC-CCCT----HHHHHHHHHCCCEEEEECSSSTTC
T ss_pred             CceEEEEEecccccc---HHHHHHHHHh----hcCceEEEEeCCccc-cchH----HHHHHHHHhCCCeEEeccccchhh
Confidence            355677777764 22   1112222322    1464 7889999976 2211    1222333444443           


Q ss_pred             -------EEecCCCCCC-HHHHHHHHHHH
Q 032001           88 -------FETSAKTNLN-VEQVFFSIARD  108 (149)
Q Consensus        88 -------~~~Sak~~~~-i~el~~~l~~~  108 (149)
                             +.+|+.+|.| +.+|++++.+.
T Consensus       282 l~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          282 FEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             EECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             hhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence                   3478889988 98888888765

---

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	149
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-16
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-15
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-15
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	1e-15
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-15
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	7e-15
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	1e-14
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-14
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	4e-14
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	6e-14
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	7e-14
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	5e-13
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	3e-12
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-12
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	4e-12
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	6e-12
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	6e-12
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-11
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	1e-11
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-11
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-11
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-11
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-11
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-11
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	3e-11
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	3e-11
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	3e-11
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	7e-11
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-10
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-10
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-10
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-10
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-10
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-10
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	4e-10
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	4e-10
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	8e-10
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-09
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-09
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-09
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-09
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	2e-09
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-09
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	3e-09
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	5e-09
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	1e-08
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-08
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	6e-07
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-06
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-05
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	3e-05
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	3e-04

>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 = 69.9 bits (170), Expect = 2e-16
 Identities = 33/80 (41%), Positives = 56/80 (70%), Gaps = 1/80 (1%)

Query: 34  HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
            F+ + +W+ +  QH+S N+  +L+GNK+D+ ES+R V   +G+A A E+G+ F ETSAK
Sbjct: 90  TFNHLTSWLEDARQHSSSNMVIMLIGNKSDL-ESRRDVKREEGEAFAREHGLIFMETSAK 148

Query: 94  TNLNVEQVFFSIARDIKQRL 113
           T  NVE+ F + A++I +++
Sbjct: 149 TACNVEEAFINTAKEIYRKI 168

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.7 bits (164), Expect = 1e-15
 Identities = 33/112 (29%), Positives = 51/112 (45%), Gaps = 3/112 (2%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHAS-DNVNKVLVG 59
           +       +  +   Y+     F        +  F DI  +   I++    D+V  VLVG
Sbjct: 56  LDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVG 115

Query: 60  NKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111
           NK D+        + + Q LA  YGI + ETSAKT   VE  F+++ R+I+Q
Sbjct: 116 NKCDLAARTV--ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 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 = 67.7 bits (164), Expect = 1e-15
 Identities = 28/91 (30%), Positives = 50/91 (54%), Gaps = 2/91 (2%)

Query: 23  FKYCTYKIASYHFSDIRNWIRNI-EQHASDNVNKVLVGNKADMDESKRAVPTSKGQALAD 81
           F           F+   ++   I      +NV  +LVGNK+D+++ ++ V   + +  AD
Sbjct: 79  FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQ-VSVEEAKNRAD 137

Query: 82  EYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           ++ + + ETSAKT  NV++VFF + R+I+ R
Sbjct: 138 QWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.6 bits (164), Expect = 1e-15
 Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 1/80 (1%)

Query: 32  SYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETS 91
                      + I     + V  +LVGNK D++  +  V +S+G+ALA+E+G  F ETS
Sbjct: 88  QSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESERE-VSSSEGRALAEEWGCPFMETS 146

Query: 92  AKTNLNVEQVFFSIARDIKQ 111
           AK+   V+++F  I R +  
Sbjct: 147 AKSKTMVDELFAEIVRQMNY 166

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.9 bits (162), Expect = 2e-15
 Identities = 30/101 (29%), Positives = 44/101 (43%), Gaps = 1/101 (0%)

Query: 9   FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK 68
           F  + P Y+                 F     WI ++      +V  +LVGNK D+   K
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL-ADK 120

Query: 69  RAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDI 109
           R V   +G+  A E  + F ETSAK   NV+Q+F  +A  +
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.8 bits (159), Expect = 7e-15
 Identities = 25/112 (22%), Positives = 41/112 (36%), Gaps = 1/112 (0%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
                    +              Y      S              +   +++  +LVGN
Sbjct: 57  TTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGN 116

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           K   +   R V +S+ +ALA  +   F ETSAK N NV+++F  +    K+R
Sbjct: 117 K-CDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 167

>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 = 65.3 bits (158), Expect = 1e-14
 Identities = 32/77 (41%), Positives = 49/77 (63%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +I+ W+  I ++A  +V  +L+GNK      +R V    G+ LA EYG+ F ETSAKT
Sbjct: 95  FDNIQAWLTEIHEYAQHDVALMLLGNK-VDSAHERVVKREDGEKLAKEYGLPFMETSAKT 153

Query: 95  NLNVEQVFFSIARDIKQ 111
            LNV+  F +IA+++K+
Sbjct: 154 GLNVDLAFTAIAKELKR 170

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.0 bits (157), Expect = 2e-14
 Identities = 24/103 (23%), Positives = 40/103 (38%), Gaps = 12/103 (11%)

Query: 21  CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV--------- 71
                C   ++   F ++R       +H   N   +LVG K D+ + K  +         
Sbjct: 78  DVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLT 137

Query: 72  --PTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ 111
                +G A+A E G +K+ E SA T   ++ VF    R +  
Sbjct: 138 PITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 180

>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 = 63.6 bits (154), Expect = 4e-14
 Identities = 46/79 (58%), Positives = 63/79 (79%), Gaps = 1/79 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F +IRNWIRNIE+HAS +V K+++GNK D+++ KR V   +G+ LA +YGIKF ETSAK 
Sbjct: 94  FDNIRNWIRNIEEHASADVEKMILGNKCDVND-KRQVSKERGEKLALDYGIKFMETSAKA 152

Query: 95  NLNVEQVFFSIARDIKQRL 113
           N+NVE  FF++ARDIK ++
Sbjct: 153 NINVENAFFTLARDIKAKM 171

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.5 bits (153), Expect = 6e-14
 Identities = 22/121 (18%), Positives = 42/121 (34%), Gaps = 12/121 (9%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
                   +  + P    +   F  C   +    F +++       +  + NV  +L+G 
Sbjct: 62  YDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGT 121

Query: 61  KADMDESKRA-----------VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD 108
           + D+ +  +            +   +GQ LA E G   + E SA T   ++ VF      
Sbjct: 122 QIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIA 181

Query: 109 I 109
           I
Sbjct: 182 I 182

>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 = 63.4 bits (153), Expect = 7e-14
 Identities = 28/81 (34%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 33  YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
             + ++  W++ +  HA  N+  +LVGNK+D+    RAVPT + +A A++  + F ETSA
Sbjct: 90  LTYENVERWLKELRDHADSNIVIMLVGNKSDLRH-LRAVPTDEARAFAEKNNLSFIETSA 148

Query: 93  KTNLNVEQVFFSIARDIKQRL 113
             + NVE+ F +I  +I + +
Sbjct: 149 LDSTNVEEAFKNILTEIYRIV 169

>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 = 60.7 bits (146), Expect = 5e-13
 Identities = 26/75 (34%), Positives = 43/75 (57%), Gaps = 1/75 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           ++ + +W+ +     + N   +L+GNKAD+ E++R V   + +  A+E G+ F E SAKT
Sbjct: 92  YNHLSSWLTDARNLTNPNTVIILIGNKADL-EAQRDVTYEEAKQFAEENGLLFLEASAKT 150

Query: 95  NLNVEQVFFSIARDI 109
             NVE  F   A+ I
Sbjct: 151 GENVEDAFLEAAKKI 165

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.6 bits (140), Expect = 3e-12
 Identities = 27/112 (24%), Positives = 47/112 (41%), Gaps = 2/112 (1%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
           +       ++  +   +       Y      S+  +             +D+V  +LVGN
Sbjct: 55  IWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLR-RARQTDDVPIILVGN 113

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           K+D+    R V   +G+A A  +  KF ETSA  + NV+ +F  + R I+ R
Sbjct: 114 KSDLVR-SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 164

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (141), Expect = 3e-12
 Identities = 26/123 (21%), Positives = 40/123 (32%), Gaps = 12/123 (9%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
                   +  + P           C    +     +I        +H   NV  +LVGN
Sbjct: 55  WDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGN 114

Query: 61  KADMDESKRA-----------VPTSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARD 108
           K D+   +             V   +G+ +A+  G   + E SAKT   V +VF    R 
Sbjct: 115 KKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRA 174

Query: 109 IKQ 111
             Q
Sbjct: 175 ALQ 177

>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 = 58.7 bits (141), Expect = 4e-12
 Identities = 30/101 (29%), Positives = 51/101 (50%), Gaps = 4/101 (3%)

Query: 13  YPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP 72
           +   +  L  F   + +      + +     N      +N + VL+GNKAD+ + +R V 
Sbjct: 85  FRDAMGFLLMFDLTSQQSFLNVRNWMSQLQAN---AYCENPDIVLIGNKADLPD-QREVN 140

Query: 73  TSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRL 113
             + + LAD+YGI +FETSA T  NVE+   ++   I +R+
Sbjct: 141 ERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 181

>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 = 58.3 bits (140), Expect = 6e-12
 Identities = 18/87 (20%), Positives = 32/87 (36%)

Query: 26  CTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGI 85
             Y +         +   N  +      + V +     +D+  R V  ++G   A ++ +
Sbjct: 85  LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFARKHSM 144

Query: 86  KFFETSAKTNLNVEQVFFSIARDIKQR 112
            F E SAKT   V+  F  +   I Q 
Sbjct: 145 LFIEASAKTCDGVQCAFEELVEKIIQT 171

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.8 bits (138), Expect = 6e-12
 Identities = 29/102 (28%), Positives = 45/102 (44%), Gaps = 11/102 (10%)

Query: 21  CRFKYCTYKIASYHFSDIRNWIRN----------IEQHASDNVNKVLVGNKADMDESKRA 70
            R +Y            I +              +     D+   VLVGNKAD+ ES+R 
Sbjct: 70  MREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL-ESQRQ 128

Query: 71  VPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           VP S+  A    + + +FE SAK  LNV++ F  + R +++ 
Sbjct: 129 VPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKY 170

>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 = 57.4 bits (137), Expect = 1e-11
 Identities = 36/106 (33%), Positives = 51/106 (48%), Gaps = 2/106 (1%)

Query: 9   FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM--DE 66
           F  + P Y                  F   R+W++ + + AS ++   LVGNK DM  + 
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 67  SKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
            +R V   +G+ LA+E G+ FFETSAKT  NV  VF  I   I  +
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (136), Expect = 1e-11
 Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 1/111 (0%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNI-EQHASDNVNKVLVG 59
           +       F  +   Y+     F       A   F+D+++    I     +++V  +LVG
Sbjct: 56  LDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVG 115

Query: 60  NKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
           NK D+++ +                  F E+SAK+ +NV ++F+ + R I 
Sbjct: 116 NKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>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 = 56.8 bits (136), Expect = 1e-11
 Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 1/80 (1%)

Query: 34  HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
            ++ + NW+ +    AS N+  +L GNK    ++ R V   +    A E  + F ETSA 
Sbjct: 92  TYNALTNWLTDARMLASQNIVIILCGNK-KDLDADREVTFLEASRFAQENELMFLETSAL 150

Query: 94  TNLNVEQVFFSIARDIKQRL 113
           T  NVE+ F   AR I  ++
Sbjct: 151 TGENVEEAFVQCARKILNKI 170

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (136), Expect = 2e-11
 Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 2/92 (2%)

Query: 23  FKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADM-DESKRAVPTSKGQALA- 80
                 + +    S +   + ++       +   LVG +  +   S R V  ++ +AL  
Sbjct: 77  VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCA 136

Query: 81  DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           D     ++ET A   LNV++VF  +A+ +   
Sbjct: 137 DMKRCSYYETCATYGLNVDRVFQEVAQKVVTL 168

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.5 bits (135), Expect = 2e-11
 Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 3/100 (3%)

Query: 13  YPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP 72
           Y      L  F     +      +  + +I   +    ++   V++GNK D+ E  R V 
Sbjct: 76  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE--RQVS 133

Query: 73  TSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQ 111
           T + QA   + G   +FETSAK   NV   F    R +  
Sbjct: 134 TEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.7 bits (135), Expect = 2e-11
 Identities = 25/112 (22%), Positives = 45/112 (40%), Gaps = 1/112 (0%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
           M   +                     +    +         I+      ++++  +LVGN
Sbjct: 60  MWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGN 119

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
           K+D+   +  V  S+G+A A  +  KF ETSA    NV+++F  I R ++ R
Sbjct: 120 KSDLVRCRE-VSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR 170

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.6 bits (135), Expect = 2e-11
 Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 1/92 (1%)

Query: 21  CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA 80
                 +           +   + +     D    +L+GNKAD+D  +R V   +GQ LA
Sbjct: 79  GFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH-QRQVTQEEGQQLA 137

Query: 81  DEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
            +  + + E SAK  +NV+Q F  + R I++ 
Sbjct: 138 RQLKVTYMEASAKIRMNVDQAFHELVRVIRKF 169

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (134), Expect = 3e-11
 Identities = 28/113 (24%), Positives = 44/113 (38%), Gaps = 2/113 (1%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
           +        I                           +       E     NV  +LVGN
Sbjct: 55  LDTAGQEDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGN 114

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKTN-LNVEQVFFSIARDIKQR 112
           KAD+D   R V T +G+ LA E    F+E SA T   N+ ++F+ + R++++R
Sbjct: 115 KADLDH-SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 166

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.2 bits (134), Expect = 3e-11
 Identities = 29/113 (25%), Positives = 45/113 (39%), Gaps = 4/113 (3%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
                       Y             T K +  H       I  ++   S  +  +LV N
Sbjct: 60  AGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPM--ILVAN 117

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKT-NLNVEQVFFSIARDIKQR 112
           K D+    R V   +G+ +A +Y I + ETSAK   LNV++ F  + R I+Q+
Sbjct: 118 KVDL-MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.9 bits (134), Expect = 3e-11
 Identities = 32/77 (41%), Positives = 54/77 (70%), Gaps = 2/77 (2%)

Query: 37  DIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNL 96
           +I+ W + + +HA+D    +LVGNK+DM+   R V   +G+ALA E GI F E+SAK + 
Sbjct: 92  NIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKELGIPFIESSAKNDD 149

Query: 97  NVEQVFFSIARDIKQRL 113
           NV ++FF++A+ I++++
Sbjct: 150 NVNEIFFTLAKLIQEKI 166

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.0 bits (131), Expect = 7e-11
 Identities = 28/109 (25%), Positives = 44/109 (40%), Gaps = 7/109 (6%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
               R       Y    AV+  +            S         +   ++++ ++LVGN
Sbjct: 61  QERFRKSMVQHYYRNVHAVVFVYDMTNMA---SFHSLPAWIEECKQHLLANDIPRILVGN 117

Query: 61  KADMDESKRAVPTSKGQALADEYGIKFFETSAKT---NLNVEQVFFSIA 106
           K D+      VPT   Q  AD + +  FETSAK    N +VE +F ++A
Sbjct: 118 KCDLRS-AIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.2 bits (129), Expect = 1e-10
 Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 1/97 (1%)

Query: 14  PPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT 73
           P Y                  FS ++NW+R + QH   ++   + GNK D+ + +  +  
Sbjct: 71  PMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVME- 129

Query: 74  SKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
              +  AD     F ETSAK  +N+ ++F  I+R I 
Sbjct: 130 RDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 54.3 bits (129), Expect = 2e-10
 Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 1/95 (1%)

Query: 19  VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA 78
            +  +            S    ++ +   ++ +    V++GNK D +ESK+ V     Q 
Sbjct: 79  CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQE 138

Query: 79  LADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQR 112
           LA   G I  F TSAK  +NV+  F  IAR   Q+
Sbjct: 139 LAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 53.9 bits (128), Expect = 2e-10
 Identities = 17/93 (18%), Positives = 30/93 (32%), Gaps = 13/93 (13%)

Query: 33  YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAVPTSKGQALAD 81
                +    +   Q    N   +LVG K+D+              +  V   +G  +A 
Sbjct: 87  ETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK 146

Query: 82  EYGI-KFFETSAKTNLN-VEQVFFSIARDIKQR 112
           + G   + E SA  + N V  +F         +
Sbjct: 147 QIGAATYIECSALQSENSVRDIFHVATLACVNK 179

>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 = 53.9 bits (128), Expect = 2e-10
 Identities = 10/111 (9%), Positives = 31/111 (27%), Gaps = 2/111 (1%)

Query: 2   CYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNK 61
              +             V                +        +++     +  +++GNK
Sbjct: 54  IGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNK 113

Query: 62  ADMDES--KRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
            D+  +  ++ +      +   +  I  +  S K   N++     + +  K
Sbjct: 114 RDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>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 = 53.5 bits (127), Expect = 3e-10
 Identities = 7/74 (9%), Positives = 19/74 (25%), Gaps = 2/74 (2%)

Query: 39  RNWIRNIEQHASDNVNKVLVGNKADM--DESKRAVPTSKGQALADEYGIKFFETSAKTNL 96
               + +          ++  NK D+    +   +          ++        A T  
Sbjct: 103 EELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGE 162

Query: 97  NVEQVFFSIARDIK 110
            + Q    +   +K
Sbjct: 163 GLCQGLEWMMSRLK 176

>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 = 53.8 bits (128), Expect = 3e-10
 Identities = 13/110 (11%), Positives = 26/110 (23%), Gaps = 3/110 (2%)

Query: 6   CLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADM 64
                  +  Y A      +          S     +  + Q     +   ++  NK D 
Sbjct: 71  QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ 130

Query: 65  DE--SKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
               S   V          +       +SA     + +    +   IK+ 
Sbjct: 131 PGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.0 bits (126), Expect = 4e-10
 Identities = 20/77 (25%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKT 94
           F  ++NW++ + +   + +   +VGNK    E +R V   + ++ A+  G K + TSAK 
Sbjct: 91  FQKVKNWVKELRKMLGNEICLCIVGNK-IDLEKERHVSIQEAESYAESVGAKHYHTSAKQ 149

Query: 95  NLNVEQVFFSIARDIKQ 111
           N  +E++F  + + + +
Sbjct: 150 NKGIEELFLDLCKRMIE 166

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.5 bits (127), Expect = 4e-10
 Identities = 17/98 (17%), Positives = 32/98 (32%), Gaps = 12/98 (12%)

Query: 35  FSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAV-----------PTSKGQALADEY 83
           F +++        H       +LVG + D+ +    +                + LA + 
Sbjct: 90  FENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDL 149

Query: 84  -GIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRS 120
             +K+ E SA T   ++ VF        +      SR 
Sbjct: 150 KAVKYVECSALTQKGLKNVFDEAILAALEPPEPKKSRR 187

>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 = 52.3 bits (124), Expect = 8e-10
 Identities = 8/81 (9%), Positives = 21/81 (25%), Gaps = 3/81 (3%)

Query: 33  YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKAD--MDESKRAVPTSKGQALADEYGIKFFE 89
               + R  +  I       +   ++  NK D         +    G     +       
Sbjct: 93  DRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQP 152

Query: 90  TSAKTNLNVEQVFFSIARDIK 110
           + A +   + +    +  + K
Sbjct: 153 SCATSGDGLYEGLTWLTSNYK 173

>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 = 52.3 bits (124), Expect = 1e-09
 Identities = 9/80 (11%), Positives = 24/80 (30%), Gaps = 3/80 (3%)

Query: 33  YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADM--DESKRAVPTSKGQALADEYGIKFFE 89
             F +    +  + +      V  ++  NK D+        +          +   +   
Sbjct: 97  KRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQS 156

Query: 90  TSAKTNLNVEQVFFSIARDI 109
            SA T   V+     + +++
Sbjct: 157 CSALTGEGVQDGMNWVCKNV 176

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.9 bits (123), Expect = 1e-09
 Identities = 31/103 (30%), Positives = 54/103 (52%), Gaps = 1/103 (0%)

Query: 9   FIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK 68
           +  + P Y                  F+  +NW++ +++ AS N+   L GNK     +K
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNK-ADLANK 126

Query: 69  RAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111
           RAV   + Q+ AD+  + F ETSAKT++NV ++F +IA+ + +
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>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 = 51.6 bits (122), Expect = 2e-09
 Identities = 14/94 (14%), Positives = 30/94 (31%), Gaps = 2/94 (2%)

Query: 21  CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE--SKRAVPTSKGQA 78
                                +  +E+        V+  NK DM++  +   +  S G  
Sbjct: 75  AVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLP 134

Query: 79  LADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR 112
              +   + F+TSA     +++    +   +K R
Sbjct: 135 ALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (122), Expect = 2e-09
 Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 1/77 (1%)

Query: 33  YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSA 92
             F  +  W+R IEQ+AS+ V  VLVGNK D    +R V   + +  ++   + + ETSA
Sbjct: 91  ESFRCLPEWLREIEQYASNKVITVLVGNKID-LAERREVSQQRAEEFSEAQDMYYLETSA 149

Query: 93  KTNLNVEQVFFSIARDI 109
           K + NVE++F  +A  +
Sbjct: 150 KESDNVEKLFLDLACRL 166

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (121), Expect = 2e-09
 Identities = 20/111 (18%), Positives = 40/111 (36%), Gaps = 2/111 (1%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYC-TYKIASYHFSDIRNWIRNIEQHASDNVNKVLVG 59
           +       +      Y   +  +    +               + ++      +  +LVG
Sbjct: 57  VDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVG 116

Query: 60  NKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIK 110
           NK D+   +  +   +G+ALA+ +   F E+SAK N     VF  I  + +
Sbjct: 117 NKKDLHMERV-ISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE 166

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 50.6 bits (120), Expect = 3e-09
 Identities = 32/79 (40%), Positives = 50/79 (63%), Gaps = 1/79 (1%)

Query: 34  HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
            F+ +++W   I+ ++ DN   +LVGNK DM E +R V + +G+ LAD  G +FFE SAK
Sbjct: 92  SFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM-EDERVVSSERGRQLADHLGFEFFEASAK 150

Query: 94  TNLNVEQVFFSIARDIKQR 112
            N+NV+Q F  +   I ++
Sbjct: 151 DNINVKQTFERLVDVICEK 169

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.8 bits (120), Expect = 3e-09
 Identities = 20/104 (19%), Positives = 38/104 (36%), Gaps = 3/104 (2%)

Query: 8   CFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES 67
              G       +  +     + + S                  +N+  VL GNK D+   
Sbjct: 63  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDI--- 119

Query: 68  KRAVPTSKGQALADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ 111
           K     +K      +  +++++ SAK+N N E+ F  +AR +  
Sbjct: 120 KDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG 163

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 50.5 bits (119), Expect = 5e-09
 Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 1/104 (0%)

Query: 19  VLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQA 78
            +  F            S    ++        +N   V++GNK D++  +          
Sbjct: 78  CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQV-ATKRAQAW 136

Query: 79  LADEYGIKFFETSAKTNLNVEQVFFSIARDIKQRLADTDSRSEP 122
              +  I +FETSAK  +NVEQ F +IAR+  ++  + +  +E 
Sbjct: 137 CYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEF 180

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.9 bits (115), Expect = 1e-08
 Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 1/84 (1%)

Query: 28  YKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKF 87
           +        +  +  R        ++   LV NK D+ +    +   + + LA    ++F
Sbjct: 82  FSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSC-IKNEEAEGLAKRLKLRF 140

Query: 88  FETSAKTNLNVEQVFFSIARDIKQ 111
           + TS K +LNV +VF  +A    Q
Sbjct: 141 YRTSVKEDLNVSEVFKYLAEKHLQ 164

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 47.3 bits (111), Expect = 4e-08
 Identities = 7/80 (8%), Positives = 22/80 (27%), Gaps = 2/80 (2%)

Query: 32  SYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE--SKRAVPTSKGQALADEYGIKFFE 89
                     +R + +    +   ++  NK D+    +   +    G             
Sbjct: 81  ERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQA 140

Query: 90  TSAKTNLNVEQVFFSIARDI 109
           T A +   + +    ++  +
Sbjct: 141 TCATSGDGLYEGLDWLSNQL 160

>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 = 44.5 bits (104), Expect = 6e-07
 Identities = 29/80 (36%), Positives = 47/80 (58%), Gaps = 1/80 (1%)

Query: 34  HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAK 93
            F+ ++ W++ I+++A+  V K+LVGNK    + KR V     +  AD   + F ETSA 
Sbjct: 93  SFNGVKMWLQEIDRYATSTVLKLLVGNK-CDLKDKRVVEYDVAKEFADANKMPFLETSAL 151

Query: 94  TNLNVEQVFFSIARDIKQRL 113
            + NVE  F ++AR IK+ +
Sbjct: 152 DSTNVEDAFLTMARQIKESM 171

>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 = 43.5 bits (101), Expect = 1e-06
 Identities = 12/82 (14%), Positives = 24/82 (29%), Gaps = 2/82 (2%)

Query: 33  YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE--SKRAVPTSKGQALADEYGIKFFET 90
                 R     + +        ++  NK D+    S  A+  +        +  +    
Sbjct: 84  RMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGC 143

Query: 91  SAKTNLNVEQVFFSIARDIKQR 112
           SA T  ++      +  DI  R
Sbjct: 144 SAVTGEDLLPGIDWLLDDISSR 165

>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 = 40.3 bits (93), Expect = 2e-05
 Identities = 14/138 (10%), Positives = 27/138 (19%), Gaps = 27/138 (19%)

Query: 1   MCYLRCLCFIGVYPPYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGN 60
                      +                   +        +   I      N + +L  N
Sbjct: 61  KWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLN 120

Query: 61  KADMDESKRAVPTSKGQALADEYG--------------------------IKFFETSAKT 94
           K      ++ + +       +  G                          I    T A  
Sbjct: 121 K-KDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATD 179

Query: 95  NLNVEQVFFSIARDIKQR 112
             N+  VF ++   I Q 
Sbjct: 180 TENIRFVFAAVKDTILQL 197

>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 = 39.7 bits (91), Expect = 3e-05
 Identities = 11/87 (12%), Positives = 35/87 (40%), Gaps = 3/87 (3%)

Query: 21  CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALA 80
              +      A ++ +++++    I  +  D  N V   ++A++  +   + T+  Q + 
Sbjct: 82  RFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV---SEAELRSALGLLNTTGSQRIE 138

Query: 81  DEYGIKFFETSAKTNLNVEQVFFSIAR 107
            +  ++ F  S        + F  +++
Sbjct: 139 GQRPVEVFMCSVVMRNGYLEAFQWLSQ 165

>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 = 37.0 bits (84), Expect = 3e-04
 Identities = 16/90 (17%), Positives = 25/90 (27%), Gaps = 14/90 (15%)

Query: 34  HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------SKRAVPTSKGQALADE 82
                      +      NV  +++GNK D  E                 T KG     E
Sbjct: 96  LLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKE 155

Query: 83  YG---IKFFETSAKTNLNVEQVFFSIARDI 109
                ++ F  S        + F  +A+ I
Sbjct: 156 LNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	149
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.85
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.84
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.83
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.82
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.82
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.82
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.81
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.81
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.81
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.81
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.8
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.79
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.79
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.79
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.78
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.77
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.77
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.77
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.73
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.73
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.71
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.7
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.66
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.65
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.61
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.58
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.57
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.54
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.43
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.37
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.26
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.26
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.21
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.16
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.13
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.12
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.1
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.07
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.07
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.93
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.89
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.83
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.71
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.7
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.68
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.64
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.55
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.5
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.44
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.42
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.42
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.38
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.32
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.17
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.84
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.72
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.65
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.43
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.41
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.28
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.15
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.0
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.99
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	96.26
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	96.14
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.95
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	95.55
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	92.5
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	91.26
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	86.35

>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=99.86  E-value=2.2e-21  Score=132.85  Aligned_cols=108  Identities=26%  Similarity=0.286  Sum_probs=89.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +-++|..++..||+++++ +++|||+++ .+|+.+..|+.++..... .++|+++||||+|+. ..+.+...++..+++.
T Consensus        57 g~e~~~~~~~~~~~~~d~-~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~~~v~~~~~~~~~~~  134 (168)
T d2gjsa1          57 EQDGGRWLPGHCMAMGDA-YVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-RSREVSVDEGRACAVV  134 (168)
T ss_dssp             -------CHHHHHTSCSE-EEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             cccccceecccchhhhhh-hceeccccccccccccccccchhhcccccccceEEEeecccchh-hhcchhHHHHHHHHHh
Confidence            457899999999998866 788999998 999999999999977543 678999999999997 6677888889999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      ++++++++||++|.||+++|..|++.+..+++
T Consensus       135 ~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         135 FDCKFIETSAALHHNVQALFEGVVRQIRLRRD  166 (168)
T ss_dssp             HTSEEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999998876643

>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=99.85  E-value=1.6e-20  Score=128.65  Aligned_cols=106  Identities=25%  Similarity=0.375  Sum_probs=94.0

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      -+.++|..+++.|+++++. +++|||+++ .||..+..|+.++.+.. ..++|+|+|+||+|+. ..+.+..+++..+++
T Consensus        60 ~g~~~~~~~~~~~~~~~~~-~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-~~~~v~~e~~~~~~~  137 (169)
T d1x1ra1          60 AGQEEFSAMREQYMRTGDG-FLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-HLRKVTRDQGKEMAT  137 (169)
T ss_dssp             CSCGGGCSSHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-TTCCSCHHHHHHHHH
T ss_pred             ccccccccchhhhhhhccE-EEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchh-hhceeehhhHHHHHH
Confidence            3578899999999999876 788999998 99999999999987754 4679999999999998 667788889999999


Q ss_pred             HhCCcEEEecCCCCC-CHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNL-NVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~-~i~el~~~l~~~i~~  111 (149)
                      .++++++++||+++. ||+++|..|++.+.+
T Consensus       138 ~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~  168 (169)
T d1x1ra1         138 KYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  168 (169)
T ss_dssp             HHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             HcCCEEEEEcCCCCCcCHHHHHHHHHHHHHh
Confidence            999999999999986 999999999998865

>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=99.84  E-value=2.8e-20  Score=127.67  Aligned_cols=109  Identities=33%  Similarity=0.570  Sum_probs=97.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.+.|..+++.++..++. +++|||+++ .+|+.+..|+..+.+....++|+++|+||+|+. ..+.+...++..+++.+
T Consensus        61 g~~~~~~~~~~~~~~~d~-~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~-~~~~~~~~~~~~~a~~~  138 (173)
T d2a5ja1          61 GQESFRSITRSYYRGAAG-ALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-SRRDVKREEGEAFAREH  138 (173)
T ss_dssp             TGGGTSCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CccchhhHHHHHhhccCE-EEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchh-hhhhhHHHHHHHHHHHc
Confidence            567899999999998866 788899988 999999999999988777889999999999987 56677788889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +.+++++||++|.||+++|..+++.+.+++++
T Consensus       139 ~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~~~  170 (173)
T d2a5ja1         139 GLIFMETSAKTACNVEEAFINTAKEIYRKIQQ  170 (173)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999887654

>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=99.84  E-value=1.8e-20  Score=128.70  Aligned_cols=109  Identities=28%  Similarity=0.409  Sum_probs=95.5

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      .+.++|..++..|++++++ +++|||+++ .||+.+..|+..+.+. ...++|+++||||.|+. ..+.+...++..+++
T Consensus        62 ~g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-~~~~~~~~~~~~~~~  139 (173)
T d2fn4a1          62 AGQEEFGAMREQYMRAGHG-FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-SQRQVPRSEASAFGA  139 (173)
T ss_dssp             CCTTTTSCCHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-GGCCSCHHHHHHHHH
T ss_pred             ccccccccccchhhcccee-eeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechh-hccccchhhhhHHHH
Confidence            3678899999999998866 788899998 8999999999998764 34688999999999997 666777888999999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      .++++++++||++|.||+++|+.|++.+.+.++
T Consensus       140 ~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         140 SHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             hcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999877543

>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=99.83  E-value=1.7e-20  Score=127.72  Aligned_cols=103  Identities=21%  Similarity=0.332  Sum_probs=92.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..+++.++++++. +++|||+++ .||+.+..|++++.+.. +++|+++||||+|+. ..+.+...++..+++.+
T Consensus        60 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~-~~~~v~~~~~~~~~~~~  136 (164)
T d1z2aa1          60 GQEEFDAITKAYYRGAQA-CVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLL-DDSCIKNEEAEGLAKRL  136 (164)
T ss_dssp             TGGGTTCCCHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGG-GGCSSCHHHHHHHHHHH
T ss_pred             CccchhhhhhhhhccCce-EEEEEeccchhhhhhcccccccccccC-CCceEEEeeccCCcc-cceeeeehhhHHHHHHc
Confidence            568899999999988866 788999988 99999999999998765 578999999999997 66778888889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +++++++||++|.||+++|+.|++.+.
T Consensus       137 ~~~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         137 KLRFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             TCEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             CCEEEEeccCCCcCHHHHHHHHHHHHh
Confidence            999999999999999999999998875

>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=99.83  E-value=2e-20  Score=127.65  Aligned_cols=106  Identities=24%  Similarity=0.471  Sum_probs=88.0

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      .+.++|..+++.||+++++ +++|||+++ +||+.+..|+..+........|+++||||.|+. ..+.+..+++..+++.
T Consensus        60 ~g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~-~~~~v~~~e~~~~a~~  137 (167)
T d1z08a1          60 AGQERFHALGPIYYRDSNG-AILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAESYAES  137 (167)
T ss_dssp             CCC-------CCSSTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CCcceecccchhhccCCce-eEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccc-cccccchHHHHHHHHH
Confidence            3567889999999998866 799999998 999999999998877655778999999999997 6677888999999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      ++++++++||++|.||+++|.+|++.+.+
T Consensus       138 ~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         138 VGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             TTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            99999999999999999999999998764

>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=4e-20  Score=126.51  Aligned_cols=105  Identities=30%  Similarity=0.502  Sum_probs=90.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.+++..++..+++++++ +++|||+++ .+|+.+..|+.++.+.. .+++|+++||||.|+. ..+.+..+++..+++.
T Consensus        61 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~-~~~~v~~~~~~~~~~~  138 (168)
T d1u8za_          61 GQEDYAAIRDNYFRSGEG-FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-DKRQVSVEEAKNRADQ  138 (168)
T ss_dssp             C---CHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             cccchhhhhhhcccccce-eEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccc-ccccccHHHHHHHHHH
Confidence            456788889999999876 788899987 99999999999987753 4689999999999997 6677888899999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++++||++|.||+++|.+|++.+..
T Consensus       139 ~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         139 WNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            99999999999999999999999988753

>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=99.82  E-value=4.4e-20  Score=125.86  Aligned_cols=104  Identities=24%  Similarity=0.297  Sum_probs=91.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.++|..++..+++++++ +++|||+++ ++|+.+..|+..+.+.. ..++|+++||||.|+. ..+.+..+++..+++.
T Consensus        61 g~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~r~v~~~~~~~~a~~  138 (167)
T d1xtqa1          61 GQDEYSIFPQTYSIDING-YILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-MERVISYEEGKALAES  138 (167)
T ss_dssp             CCCTTCCCCGGGTSSCCE-EEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             cccccccccchhhhhhhh-hhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccc-cccchhHHHHHHHHHH
Confidence            567888999999888655 799999998 99999999999987754 4679999999999997 5667888888999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++.+++++||++|.||+++|..|++.+.
T Consensus       139 ~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         139 WNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            9999999999999999999999998763

>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=99.82  E-value=5e-20  Score=125.16  Aligned_cols=104  Identities=31%  Similarity=0.507  Sum_probs=92.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +-++|..+++.++..++. +++|||+++ .+|..+..|+.++.....+++|+++||||.|+. +.+.+...++..+++.+
T Consensus        58 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~~~~~~~~~~~~~~  135 (164)
T d1yzqa1          58 GQERFRSLIPSYIRDSAA-AVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-DKRQVSIEEGERKAKEL  135 (164)
T ss_dssp             CSGGGGGGHHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CcchhccchHHHhhccce-EEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchh-hhhhhhHHHHHHHHHHc
Confidence            458899999999988866 788889987 999999999999888776789999999999997 66677778889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.+++++||++|.||+++|.+|++.++
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            999999999999999999999998764

>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=99.82  E-value=7.4e-20  Score=124.81  Aligned_cols=103  Identities=30%  Similarity=0.505  Sum_probs=93.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.+++..++..|+++.++ +++|||+++ .+|..+..|+..+......+.|+++|+||.|+. ..+.+...++..++...
T Consensus        62 g~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~~~~~~~~~~~  139 (167)
T d1z0ja1          62 GLERFRALAPMYYRGSAA-AIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-DVREVMERDAKDYADSI  139 (167)
T ss_dssp             CSGGGGGGTHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhHHHHHHHhhccc-eEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhc-cccchhHHHHHHHHHHc
Confidence            568899999999998877 788889987 999999999999888777889999999999997 66778888999999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.||+++|..|++.+
T Consensus       140 ~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         140 HAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             CCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            99999999999999999999999876

>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=99.81  E-value=1.2e-19  Score=124.21  Aligned_cols=106  Identities=31%  Similarity=0.478  Sum_probs=93.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.|+++++. +++|||+++ .+|.....|+..+.+.....+|+++||||.|+. ....+...++..+++..
T Consensus        63 G~e~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~-~~~~v~~~~~~~~~~~~  140 (171)
T d2ew1a1          63 GQERFRSITQSYYRSANA-LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-ERREVSQQRAEEFSEAQ  140 (171)
T ss_dssp             CSGGGHHHHGGGSTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCSSCHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhccce-EEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccc-cccchhhhHHHHHHHhC
Confidence            457899999999998876 688889887 999999999999888766789999999999987 56677788889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +.+++++||++|.||+++|..|++.+.+.
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            99999999999999999999999877653

>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=99.81  E-value=3.6e-19  Score=122.25  Aligned_cols=109  Identities=29%  Similarity=0.504  Sum_probs=95.2

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      .+.++|..++..+++.++. +++|||.++ .||.....|+.++.+....++|+++||||+|+. +.+.........+...
T Consensus        61 ~g~e~~~~~~~~~~~~~~~-~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~-~~~~~~~~~~~~~~~~  138 (175)
T d2f9la1          61 AGQERYRRITSAYYRGAVG-ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-HLRAVPTDEARAFAEK  138 (175)
T ss_dssp             SSGGGTTCCCHHHHTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHhhccCe-EEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccc-ccccchHHHHHHhhcc
Confidence            4678999999999988876 788889987 999999999999988887889999999999998 5555666677778888


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      ++.+++++||++|.|++++|+.+++.+.+...
T Consensus       139 ~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~  170 (175)
T d2f9la1         139 NNLSFIETSALDSTNVEEAFKNILTEIYRIVS  170 (175)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            88999999999999999999999999876544

>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=99.81  E-value=7.1e-20  Score=125.67  Aligned_cols=99  Identities=28%  Similarity=0.401  Sum_probs=85.7

Q ss_pred             cchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEE
Q 032001           12 VYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFE   89 (149)
Q Consensus        12 ~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   89 (149)
                      ++..|++++++ +++|||+++ .+|+.+..|+.++.... ..++|+++|+||+|+. ..+.+..+++..++...++++++
T Consensus        70 ~~~~~~~~~~~-~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-~~~~v~~~~~~~~a~~~~~~~~e  147 (172)
T d2g3ya1          70 LHDHCMQVGDA-YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-RCREVSVSEGRACAVVFDCKFIE  147 (172)
T ss_dssp             HHHCCCCCCSE-EEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-GGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             cccccccccce-eeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccc-ccccccHHHHHHHHHHcCCeEEE
Confidence            56667776655 889999998 99999999999987643 3689999999999997 66778888888899999999999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHHH
Q 032001           90 TSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        90 ~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +||++|.||+++|..|++.+..+
T Consensus       148 ~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         148 TSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EeCCCCcCHHHHHHHHHHHHHHc
Confidence            99999999999999999988654

>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=99.81  E-value=4.1e-20  Score=128.09  Aligned_cols=109  Identities=31%  Similarity=0.519  Sum_probs=94.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |-++|+++++.|++++++ +++|||+++ .+|+.+..|+.++..+. ...+|+++|+||.|+. ..+.+...++..+++.
T Consensus        73 G~e~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-~~~~v~~~e~~~~~~~  150 (186)
T d2f7sa1          73 GQERFRSLTTAFFRDAMG-FLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-DQREVNERQARELADK  150 (186)
T ss_dssp             SHHHHHHHHHHHHTTCCE-EEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHhcCCE-EEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccch-hhhcchHHHHHHHHHH
Confidence            346789999999888765 789999998 99999999998876543 3668999999999997 6677888889999999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      ++++++++||++|.||+++|++|++.+.+++++
T Consensus       151 ~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         151 YGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  183 (186)
T ss_dssp             TTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999877654

>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=99.81  E-value=9.8e-20  Score=124.54  Aligned_cols=104  Identities=34%  Similarity=0.557  Sum_probs=93.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      +.++|..+++.||++++. ++++||+++ .+|..+..|+..+.+...+++|+++|+||+|+. ..+.+..+.+..+++.+
T Consensus        64 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~v~~e~~~~~~~~~  141 (170)
T d1r2qa_          64 GQERYHSLAPMYYRGAQA-AIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-NKRAVDFQEAQSYADDN  141 (170)
T ss_dssp             CSGGGGGGHHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhhhHHHHhhCcce-EEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccc-ccccccHHHHHHHHHhc
Confidence            568899999999988876 678889988 999999999999987777889999999999997 66778888899999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +++++++||++|.||+++|+.|++.+.
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            999999999999999999999988653

>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=99.81  E-value=1.2e-19  Score=126.33  Aligned_cols=105  Identities=16%  Similarity=0.201  Sum_probs=86.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------CCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------SKRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----------~~~~~~   72 (149)
                      +.++|..+++.||+++++ +++|||+++ .||+.+..|+.........++|+++|+||+|+.+           ....+.
T Consensus        60 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~  138 (191)
T d2ngra_          60 GQEDYDRLRPLSYPQTDV-FLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT  138 (191)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCC
T ss_pred             cchhhhhhhhhcccccce-eecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhccccccc
Confidence            568999999999998766 799999998 9999998766665555557899999999999851           123467


Q ss_pred             HHHHHHHHHHh-CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEY-GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        73 ~~~~~~~~~~~-~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+++..++... +.+++++||++|.||+++|+.+++.+.
T Consensus       139 ~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             HHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            78888888886 479999999999999999999987663

>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=99.81  E-value=3.4e-20  Score=126.81  Aligned_cols=103  Identities=26%  Similarity=0.309  Sum_probs=89.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~--~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      +.++|..++..|++++++ +++|||+++ ++|..+..|+..+.+..  ..++|+++||||+|+. ..+.+..+++..+++
T Consensus        59 g~~~~~~~~~~~~~~a~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~-~~~~v~~~e~~~~~~  136 (171)
T d2erxa1          59 GSHQFPAMQRLSISKGHA-FILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-PSREVQSSEAEALAR  136 (171)
T ss_dssp             SCSSCHHHHHHHHHHCSE-EEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-GGCCSCHHHHHHHHH
T ss_pred             ccccccccccccccceeE-EEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccc-ccccccHHHHHHHHH
Confidence            557788899999988876 789999998 99999999999887643  2678999999999997 667788888999999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      .++++++++||++|.||+++|+.|++.+
T Consensus       137 ~~~~~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1         137 TWKCAFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             HcCCeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            9999999999999999999999999755

>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=99.81  E-value=2.9e-19  Score=122.29  Aligned_cols=107  Identities=28%  Similarity=0.425  Sum_probs=90.2

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALAD   81 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~   81 (149)
                      .+.+.|..+++.+++.++. +++|||+++ .||+.+..|+.++.... ....|+|+|+||.|+. ..+.+...++..+++
T Consensus        61 ~g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-~~~~v~~~~~~~~~~  138 (171)
T d2erya1          61 AGQEEFGAMREQYMRTGEG-FLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLD-HQRQVTQEEGQQLAR  138 (171)
T ss_dssp             C----CCHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCT-TSCSSCHHHHHHHHH
T ss_pred             cccccccccccccccccce-EEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchh-hhccchHHHHHHHHH
Confidence            3567788899999888766 788899998 89999999999876643 3678999999999997 667788889999999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ..+++++++||++|.||+++|..|++.+.+.
T Consensus       139 ~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         139 QLKVTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HcCCEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999988654

>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=99.81  E-value=1.8e-19  Score=123.20  Aligned_cols=105  Identities=32%  Similarity=0.519  Sum_probs=93.0

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.|+++++. +++|||+++ +++.....|+..+......+.|+++|+||.|+. ..+.+..+++..+++..
T Consensus        63 G~e~~~~~~~~~~~~ad~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-~~~~v~~~~~~~~~~~~  140 (169)
T d3raba_          63 GQERYRTITTAYYRGAMG-FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-DERVVSSERGRQLADHL  140 (169)
T ss_dssp             CSGGGHHHHHTTTTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCG-GGCCSCHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhcCCE-EEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccc-cccccchhhhHHHHHHc
Confidence            457899999999988765 788889997 899999999988877666789999999999997 66677888888899999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++++++||++|.||+++|++|++.+.+
T Consensus       141 ~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         141 GFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             CCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            9999999999999999999999998865

>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=99.81  E-value=2.7e-19  Score=121.96  Aligned_cols=103  Identities=29%  Similarity=0.506  Sum_probs=89.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.+.|..+++.|++++++ +++|||+++ .||+.+..|+..+.+.. .+++|+++||||+|+. ..+.+..+++..+++.
T Consensus        60 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-~~~~~~~~~~~~~~~~  137 (167)
T d1c1ya_          60 GTEQFTAMRDLYMKNGQG-FALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-DERVVGKEQGQNLARQ  137 (167)
T ss_dssp             SSCSSTTHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHH
T ss_pred             Ccccccccccccccccce-eEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcc-cccccchhHHHHHHHH
Confidence            567889999999998876 788999998 99999999999987643 4679999999999998 6667777888888877


Q ss_pred             h-CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           83 Y-GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        83 ~-~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      . +.+++++||++|.||+++|.+|++.+
T Consensus       138 ~~~~~~~e~Sak~g~gv~e~F~~l~~~i  165 (167)
T d1c1ya_         138 WCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             TTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             hCCCEEEEEcCCCCcCHHHHHHHHHHHh
Confidence            4 68999999999999999999999876

>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=99.80  E-value=3.6e-19  Score=121.25  Aligned_cols=103  Identities=29%  Similarity=0.494  Sum_probs=92.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..++..+++.++. +++|||+++ .||.....|+..+.+......|++++|||.|+. ..+.+..+++..+++..
T Consensus        62 g~~~~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-~~~~~~~~~~~~~~~~~  139 (166)
T d1z0fa1          62 GQERFRAVTRSYYRGAAG-ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-AQRDVTYEEAKQFAEEN  139 (166)
T ss_dssp             TGGGTCHHHHHHHHTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhHHHHHHHHhcCCcE-EEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccch-hhcccHHHHHHHHHHHc
Confidence            567899999999998876 688999998 999999999999988777789999999999997 56667778889999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      +.+++++||++|.||+++|..|++.+
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            99999999999999999999999876

>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=99.80  E-value=1.4e-19  Score=123.40  Aligned_cols=104  Identities=33%  Similarity=0.490  Sum_probs=90.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.+.+..++..|+++++. +++|||+++ .+|..+..|+.++..... +++|+++||||+|+. ..+.+...++..+++.
T Consensus        60 g~~~~~~~~~~~~~~a~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-~~~~~~~~~~~~~~~~  137 (167)
T d1kaoa_          60 GTEQFASMRDLYIKNGQG-FILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-SEREVSSSEGRALAEE  137 (167)
T ss_dssp             CTTCCHHHHHHHHHHCSE-EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHH
T ss_pred             CccccccchHHHhhcccc-eeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchh-hcccchHHHHHHHHHH
Confidence            457788888999888866 788899998 999999999999876443 678999999999997 6667778888899999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+++++++||++|.||+++|..|++.+.
T Consensus       138 ~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         138 WGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            9999999999999999999999998764

>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=4.6e-19  Score=121.87  Aligned_cols=105  Identities=25%  Similarity=0.274  Sum_probs=87.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------CCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------SKRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----------~~~~~~   72 (149)
                      |.++|..+++.||++++. +++|||+++ .||+....|+..+.....+++|+++|+||+|+..           ....+.
T Consensus        59 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~  137 (177)
T d1kmqa_          59 GLEDYDRLRPLSYPDTDV-ILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVK  137 (177)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCC
T ss_pred             ccchhcccchhhcccchh-hhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhccccc
Confidence            578999999999998866 788999998 9999988766665554457899999999999862           123466


Q ss_pred             HHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        73 ~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..++..+++.++ .+++++||++|.||+++|+.+++.+.
T Consensus       138 ~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         138 PEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            778888898887 58999999999999999999998765

>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=99.79  E-value=7e-19  Score=120.55  Aligned_cols=109  Identities=31%  Similarity=0.447  Sum_probs=96.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|.++++.++++++. +++|||.++ .+|..+..|+..+......++|+++|+||+|+. ....+....+..++...
T Consensus        63 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~-~~~~~~~~~~~~~~~~~  140 (174)
T d2bmea1          63 GQERFRSVTRSYYRGAAG-ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-ADREVTFLEASRFAQEN  140 (174)
T ss_dssp             CSGGGHHHHHTTSTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-GGCCSCHHHHHHHHHHT
T ss_pred             CchhhhhhHHHHhhhCCE-EEEEEecccchhHHHHhhhhcccccccCCceEEEEEEeccccc-chhchhhhHHHHHHHhC
Confidence            457899999999988766 788889987 999999999999988777789999999999987 66677778888899999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhcC
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLAD  115 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~~  115 (149)
                      +++++++||++|.||+++|.++++.+.+++++
T Consensus       141 ~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~~~  172 (174)
T d2bmea1         141 ELMFLETSALTGENVEEAFVQCARKILNKIES  172 (174)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCcCHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999877653

>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=7e-19  Score=119.77  Aligned_cols=104  Identities=35%  Similarity=0.564  Sum_probs=90.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      +.+.|..+++.+++.++. +++|||+++ .+|+.+..|+..+.+... .++|+++|+||.|+.  .+.+..+++..+++.
T Consensus        60 ~~~~~~~~~~~~~~~~~~-~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~  136 (166)
T d1ctqa_          60 GQEEYSAMRDQYMRTGEG-FLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA--ARTVESRQAQDLARS  136 (166)
T ss_dssp             CCGGGHHHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCS--CCCSCHHHHHHHHHH
T ss_pred             Cccccccchhhhhhcccc-cceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccc--cccccHHHHHHHHHH
Confidence            457788888888888866 788889998 999999999999887543 678999999999986  456677888899999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .+++++++||++|.||+++|+.|++.+.+
T Consensus       137 ~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         137 YGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            99999999999999999999999988753

>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=99.79  E-value=9.1e-19  Score=119.90  Aligned_cols=108  Identities=31%  Similarity=0.411  Sum_probs=82.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      +.+++..++..|++.+++ +++|||+++ .||+.+..|+.++....    ..++|+++|+||+|+.+..+.+...++..+
T Consensus        61 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~  139 (175)
T d1ky3a_          61 GQERFQSLGVAFYRGADC-CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQEL  139 (175)
T ss_dssp             ----------CCSTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHH
T ss_pred             CchhhhhHHHHHhhccce-EEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHH
Confidence            567888899998888766 788889987 89999999999987643    257899999999999733345677788888


Q ss_pred             HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      ++.++ .+++++||++|.||+++|++|++.+.++.
T Consensus       140 ~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         140 AKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             HHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            88876 68999999999999999999999887764

>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=99.79  E-value=1.5e-18  Score=120.25  Aligned_cols=105  Identities=19%  Similarity=0.222  Sum_probs=86.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------CCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------SKRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----------~~~~~~   72 (149)
                      +.++|..++..||++++. +++|||+++ .||+.+..|+..+.+....++|+++|+||+|+.+           ..+.+.
T Consensus        66 g~e~~~~~~~~~~~~a~~-~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~  144 (185)
T d2atxa1          66 GQEDYDRLRPLSYPMTDV-FLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPIC  144 (185)
T ss_dssp             CSSSSTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCC
T ss_pred             ccchhhhhhhhcccccce-eeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhccccccc
Confidence            568899999999998766 788999998 9999887665555544446899999999999862           134567


Q ss_pred             HHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        73 ~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      .+++..+++.++ ..++++||++|.||+++|+.+++.+.
T Consensus       145 ~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         145 VEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            788888998887 68999999999999999999998774

>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=99.78  E-value=1.6e-18  Score=118.76  Aligned_cols=108  Identities=46%  Similarity=0.757  Sum_probs=83.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.++++++. +++|||+++ .+|+.+..|+..+......+.|+++|+||.|+. ..+.....++..++...
T Consensus        64 G~e~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~-~~~~~~~~~~~~~~~~~  141 (173)
T d2fu5c1          64 GQERFRTITTAYYRGAMG-IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-DKRQVSKERGEKLALDY  141 (173)
T ss_dssp             --------CCTTTTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-SCCCSCHHHHHHHHHHH
T ss_pred             CchhhHHHHHHhccCCCE-EEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccch-hhcccHHHHHHHHHHhc
Confidence            467899999999988766 788889987 999999999999987776789999999999997 55667777788888899


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +++++++||++|.||+++|++|++.+.++++
T Consensus       142 ~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~~  172 (173)
T d2fu5c1         142 GIKFMETSAKANINVENAFFTLARDIKAKMD  172 (173)
T ss_dssp             TCEEEECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999987653

>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=99.78  E-value=4e-18  Score=118.90  Aligned_cols=107  Identities=31%  Similarity=0.497  Sum_probs=95.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+|+.|+++++. +++|||+++ .+|.....|+..+.+....++|+++|+||.|+. ..+.+..++...++...
T Consensus        64 G~e~~~~~~~~~~~~a~~-~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-~~~~~~~~~~~~~~~~~  141 (194)
T d2bcgy1          64 GQERFRTITSSYYRGSHG-IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK-DKRVVEYDVAKEFADAN  141 (194)
T ss_dssp             TTTTTTCCCGGGGTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-TTCCSCHHHHHHHHHHT
T ss_pred             CchhhHHHHHHHhccCCE-EEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccc-cccchhHHHHhhhhhcc
Confidence            568999999999998766 788889997 999999999999887777889999999999998 66777888888889999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +.+++++||++|.||+++|+.|++.+.+..
T Consensus       142 ~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         142 KMPFLETSALDSTNVEDAFLTMARQIKESM  171 (194)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CcceEEEecCcCccHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999887654

>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=99.77  E-value=2e-18  Score=117.79  Aligned_cols=103  Identities=28%  Similarity=0.394  Sum_probs=86.3

Q ss_pred             ccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC
Q 032001            7 LCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG   84 (149)
Q Consensus         7 ~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~   84 (149)
                      ++| .++..|++++++ +++|||+++ .+|..+..|+..+... ...++|+++||||+|+. ..+.+..+++..+++.++
T Consensus        61 ~~~-~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-~~r~V~~~e~~~~a~~~~  137 (168)
T d2atva1          61 EDT-IQREGHMRWGEG-FVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-HSRQVSTEEGEKLATELA  137 (168)
T ss_dssp             CCC-HHHHHHHHHCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-GGCCSCHHHHHHHHHHHT
T ss_pred             ccc-ccchhhhccccc-ceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhh-hhccCcHHHHHHHHHHhC
Confidence            344 356677777766 789999998 9999999988776553 33689999999999997 667788899999999999


Q ss_pred             CcEEEecCCCCC-CHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNL-NVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~-~i~el~~~l~~~i~~~  112 (149)
                      ++++++||++|. ||+++|..|++.+.++
T Consensus       138 ~~~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         138 CAFYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             SEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            999999999998 6999999999988664

>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=1.3e-18  Score=118.00  Aligned_cols=96  Identities=31%  Similarity=0.516  Sum_probs=81.8

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      +...++.|+++++. +++|||+++ .+|+.+..|+.++.++.. .++|+++||||.|+. ..+.+..+++..+++.++++
T Consensus        65 ~~~~~~~~~~~~d~-~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~-~~~~v~~~~~~~~~~~~~~~  142 (165)
T d1z06a1          65 RKSMVQHYYRNVHA-VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-SAIQVPTDLAQKFADTHSMP  142 (165)
T ss_dssp             HTTTHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-GGCCSCHHHHHHHHHHTTCC
T ss_pred             ccccceeeecCCCc-eEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccch-hccchhHHHHHHHHHHCCCE
Confidence            34567778877655 789999998 999999999999987643 689999999999997 66678888999999999999


Q ss_pred             EEEecCCCC---CCHHHHHHHHH
Q 032001           87 FFETSAKTN---LNVEQVFFSIA  106 (149)
Q Consensus        87 ~~~~Sak~~---~~i~el~~~l~  106 (149)
                      ++++||++|   .||+++|.+||
T Consensus       143 ~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         143 LFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             EEECCSSSGGGGSCHHHHHHHHC
T ss_pred             EEEEecccCCcCcCHHHHHHHhC
Confidence            999999974   59999999874

>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=99.77  E-value=3e-19  Score=122.25  Aligned_cols=102  Identities=24%  Similarity=0.438  Sum_probs=85.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |.++|..+++.|++++++ +++|||+++ .||+.+..|+.++.+.. +++|+++||||.|+. ..+..  .+...++...
T Consensus        61 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~-~~~~~--~~~~~~~~~~  135 (170)
T d1i2ma_          61 GQEKFGGLRDGYYIQAQC-AIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIK-DRKVK--AKSIVFHRKK  135 (170)
T ss_dssp             THHHHSSCGGGGTTTCCE-EEEEEETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCS-CSCCT--TTSHHHHSSC
T ss_pred             cccccceecchhcccccc-hhhccccccccccchhHHHHHHHhhcc-CCCceeeecchhhhh-hhhhh--hHHHHHHHHc
Confidence            457888999999998876 788999998 99999999999987755 579999999999997 43332  2344567778


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      +++++++||++|.||+++|.+|++.+..
T Consensus       136 ~~~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_         136 NLQYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             SSEEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            8999999999999999999999998864

>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=99.75  E-value=1.4e-17  Score=113.68  Aligned_cols=104  Identities=36%  Similarity=0.566  Sum_probs=85.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|..+++.++++++. +++|||+++ .+|..+..|+..+........|+++|+||.|+. ....+..+++..+++..
T Consensus        65 G~e~~~~~~~~~~~~~d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~-~~~~v~~~~~~~~~~~~  142 (170)
T d2g6ba1          65 GQERFRSVTHAYYRDAHA-LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA-HERVVKREDGEKLAKEY  142 (170)
T ss_dssp             CC--------CCGGGCSE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT-SCCCSCHHHHHHHHHHH
T ss_pred             CchhhHHHHHHhhcCCce-eEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechh-hcccccHHHHHHHHHHc
Confidence            457899999999998766 788889987 999999999998887776788999999999997 66678888888999999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +++++++||++|.||+++|.+|++.+.
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            999999999999999999999998774

>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=99.73  E-value=1.4e-17  Score=114.97  Aligned_cols=105  Identities=23%  Similarity=0.291  Sum_probs=83.2

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----------CCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES-----------KRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----------~~~~~   72 (149)
                      +.+.|..++..||++++. +++|||+++ .||+.+..|+....+....++|+++|+||+|+...           .....
T Consensus        62 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~  140 (183)
T d1mh1a_          62 GQEDYDRLRPLSYPQTDV-SLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPIT  140 (183)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCC
T ss_pred             ccccchhhhhhcccccce-eeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchh
Confidence            568899999999988766 788999998 99999976555544434468999999999998511           12344


Q ss_pred             HHHHHHHHHHhC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYG-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        73 ~~~~~~~~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ..+...+++..+ .+++++||++|.||+++|+.|++.+.
T Consensus       141 ~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         141 YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            556677788776 68999999999999999999998874

>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=99.73  E-value=1.7e-17  Score=113.05  Aligned_cols=104  Identities=36%  Similarity=0.577  Sum_probs=90.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc--CCCCCCHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE--SKRAVPTSKGQALAD   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~--~~~~~~~~~~~~~~~   81 (149)
                      +.++|..+++.++.+.+. +++|||+++ .+|+.+..|+.++........|+++|+||.|+..  ..+.+...++..+++
T Consensus        61 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~  139 (170)
T d1ek0a_          61 GQERFASLAPMYYRNAQA-ALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAE  139 (170)
T ss_dssp             CSGGGGGGHHHHHTTCSE-EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHH
T ss_pred             CchhHHHHHHHHHhccce-EEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHH
Confidence            557888899988888866 788999998 9999999999988777767889999999999852  235677888899999


Q ss_pred             HhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           82 EYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        82 ~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                      ..+++++++||++|.||+++|..|++.+
T Consensus       140 ~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         140 EKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            9999999999999999999999998765

>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=99.73  E-value=1.6e-17  Score=114.56  Aligned_cols=106  Identities=19%  Similarity=0.225  Sum_probs=86.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----------CCCCCC
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----------SKRAVP   72 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----------~~~~~~   72 (149)
                      +.++|..+++.+|++++. +++|||+++ +||+.+..|+..+......++|+++||||+|+..           ..+.+.
T Consensus        59 g~~~~~~~~~~~~~~~~~-~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~  137 (179)
T d1m7ba_          59 GSPYYDNVRPLSYPDSDA-VLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVS  137 (179)
T ss_dssp             CSGGGTTTGGGGCTTCSE-EEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCC
T ss_pred             ccccccccccchhhhhhh-hheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcch
Confidence            567888999999887755 899999998 9999998776665554446899999999999852           134577


Q ss_pred             HHHHHHHHHHhC-CcEEEecCCCCCC-HHHHHHHHHHHHHH
Q 032001           73 TSKGQALADEYG-IKFFETSAKTNLN-VEQVFFSIARDIKQ  111 (149)
Q Consensus        73 ~~~~~~~~~~~~-~~~~~~Sak~~~~-i~el~~~l~~~i~~  111 (149)
                      .++...+++..+ .+++++||++|.+ |+++|+.+++.+..
T Consensus       138 ~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         138 YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             HHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            788888998877 4899999999985 99999999987754

>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=8.8e-17  Score=109.94  Aligned_cols=103  Identities=27%  Similarity=0.403  Sum_probs=85.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      +.+++...++.++...+. ++++||.++ .+|+.+..|+.++....    ..++|+++||||.|+.  .+.+..+++..+
T Consensus        64 g~~~~~~~~~~~~~~~~~-~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~--~~~v~~~~~~~~  140 (174)
T d1wmsa_          64 GQERFRSLRTPFYRGSDC-CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS--ERQVSTEEAQAW  140 (174)
T ss_dssp             CCGGGHHHHGGGGTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS--SCSSCHHHHHHH
T ss_pred             Ccceehhhhhhhhhccce-EEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchh--hccCcHHHHHHH
Confidence            345666777777777755 788889987 89999999999887643    2568999999999996  466788888889


Q ss_pred             HHHhC-CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           80 ADEYG-IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        80 ~~~~~-~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      ++..+ ++++++||++|.||+++|+.|++.+.
T Consensus       141 ~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il  172 (174)
T d1wmsa_         141 CRDNGDYPYFETSAKDATNVAAAFEEAVRRVL  172 (174)
T ss_dssp             HHHTTCCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHh
Confidence            88764 79999999999999999999998875

>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=99.71  E-value=1.4e-16  Score=108.07  Aligned_cols=105  Identities=35%  Similarity=0.635  Sum_probs=91.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY   83 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~   83 (149)
                      |-++|+.+++.|+++++. +++|||.++ .+|+.+..|+..+........|++++++|.|+.  .+....+++..++..+
T Consensus        60 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~--~~~~~~~~~~~~~~~~  136 (166)
T d1g16a_          60 GQERFRTITTAYYRGAMG-IILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME--TRVVTADQGEALAKEL  136 (166)
T ss_dssp             TGGGTSCCCHHHHTTEEE-EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT--TCCSCHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhcCCE-EEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhh--hhhhhHHHHHHHHHhc
Confidence            457899999999988766 788889987 899999999988887776788999999999986  4556778888899999


Q ss_pred             CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 ~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      +++++++||++|.||+++|++|++.+.++
T Consensus       137 ~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         137 GIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999999988664

>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=99.70  E-value=1e-16  Score=110.59  Aligned_cols=107  Identities=28%  Similarity=0.392  Sum_probs=85.9

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA----SDNVNKVLVGNKADMDESKRAVPTSKGQAL   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~----~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~   79 (149)
                      +.+.+..+++.++..++. ++++||.++ .+|..+..|+.++....    ..++|+++|+||+|+.  .+.+.......+
T Consensus        60 g~~~~~~~~~~~~~~~~~-~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~--~~~~~~~~~~~~  136 (184)
T d1vg8a_          60 GQERFQSLGVAFYRGADC-CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE--NRQVATKRAQAW  136 (184)
T ss_dssp             SSGGGSCSCCGGGTTCSE-EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS--CCCSCHHHHHHH
T ss_pred             CcccccccccccccCccE-EEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccc--ccchhHHHHHHH
Confidence            346678888888887765 788888887 89999999999887653    2468999999999987  345566666666


Q ss_pred             HHH-hCCcEEEecCCCCCCHHHHHHHHHHHHHHHhc
Q 032001           80 ADE-YGIKFFETSAKTNLNVEQVFFSIARDIKQRLA  114 (149)
Q Consensus        80 ~~~-~~~~~~~~Sak~~~~i~el~~~l~~~i~~~~~  114 (149)
                      +.. .+++++++||++|.||+++|++|++.+.+.+.
T Consensus       137 ~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         137 CYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET  172 (184)
T ss_dssp             HHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHhccc
Confidence            554 57899999999999999999999998876543

>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=99.69  E-value=1.8e-16  Score=108.69  Aligned_cols=105  Identities=27%  Similarity=0.408  Sum_probs=91.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHAS-DNVNKVLVGNKADMDESKRAVPTSKGQALADE   82 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~   82 (149)
                      |.++|+.+++.++...++ +++|||+++ .+|.....|+.++..... ...|+++++||.|..  .+.+...++..+++.
T Consensus        65 G~~~~~~~~~~~~~~~~~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~--~~~v~~~~~~~~~~~  141 (177)
T d1x3sa1          65 GQERFRTLTPSYYRGAQG-VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE--NREVDRNEGLKFARK  141 (177)
T ss_dssp             SSGGGCCSHHHHHTTCCE-EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS--SCCSCHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHhcCCE-EEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc--cccccHHHHHHHHHH
Confidence            568999999999888876 788889887 999999999999876443 568999999999976  466778888899999


Q ss_pred             hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           83 YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        83 ~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      ++++++++||++|.||+++|+++++.+.+.
T Consensus       142 ~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         142 HSMLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             CCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            999999999999999999999999988754

>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=99.66  E-value=1.8e-16  Score=108.99  Aligned_cols=104  Identities=13%  Similarity=0.044  Sum_probs=76.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQAL---   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---   79 (149)
                      +.++|+.++..|+.+.+. +++|||+++ .++.....|+.++... ...++|+++|+||+|+.   ......+....   
T Consensus        70 g~~~~~~~~~~~~~~~~~-ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~---~~~~~~~i~~~~~~  145 (182)
T d1moza_          70 GQTSIRPYWRCYYADTAA-VIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQP---GALSASEVSKELNL  145 (182)
T ss_dssp             ----CCTTGGGTTTTEEE-EEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTST---TCCCHHHHHHHTTT
T ss_pred             cccccchhHHhhhcccee-EEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccc---cccCHHHHHHHHHH
Confidence            567889999999988766 677888887 8899988888776553 33679999999999997   22223332221   


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                        +...++++++|||++|+||+++|++|++.+.++
T Consensus       146 ~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         146 VELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             TTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             HHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence              122345789999999999999999999988664

>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=99.65  E-value=1.5e-15  Score=104.21  Aligned_cols=101  Identities=18%  Similarity=0.286  Sum_probs=80.2

Q ss_pred             cchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCCc-CCCCCCHHHHHHHHHH-hCC
Q 032001           12 VYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA---SDNVNKVLVGNKADMDE-SKRAVPTSKGQALADE-YGI   85 (149)
Q Consensus        12 ~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~---~~~~~iilv~nK~Dl~~-~~~~~~~~~~~~~~~~-~~~   85 (149)
                      ....||+++ +++++|||+++ .||+.+..|+..+....   ..++|+++|+||.|+.. ..+.+...++..++.. .+.
T Consensus        63 ~~~~~~~~a-d~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~  141 (175)
T d2bmja1          63 PDAKFSGWA-DAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRC  141 (175)
T ss_dssp             CCHHHHHHC-SEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTE
T ss_pred             ccccccccc-ceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCC
Confidence            345566665 55899999998 99999999999986643   36789999999988752 3455667777777654 567


Q ss_pred             cEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           86 KFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        86 ~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                      +++++||++|.||+++|..+++.+....
T Consensus       142 ~~~e~SAk~~~~v~~~F~~l~~~i~~~~  169 (175)
T d2bmja1         142 SYYETCATYGLNVDRVFQEVAQKVVTLR  169 (175)
T ss_dssp             EEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             eEEEeCCCCCcCHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999887654

>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=99.61  E-value=8.7e-16  Score=104.76  Aligned_cols=100  Identities=13%  Similarity=0.064  Sum_probs=75.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQAL---   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---   79 (149)
                      +.++|+.++..|++..+. +++|||+++ .+|.....|+.++.... ..++|+++|+||.|+. ..  .........   
T Consensus        69 g~~~~~~~~~~~~~~~~~-ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~-~~--~~~~~~~~~~~~  144 (176)
T d1fzqa_          69 GQRKIRPYWRSYFENTDI-LIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL-TA--APASEIAEGLNL  144 (176)
T ss_dssp             SCGGGHHHHHHHHTTCSE-EEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             ccccchhHHHHHhhccce-eEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccc-cc--ccHHHHHHHHHH
Confidence            567888999999988876 688889887 89999988888775533 3678999999999997 22  222222221   


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                        +...+.+++++||++|+||+++|++|++.
T Consensus       145 ~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         145 HTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence              11224578999999999999999999874

>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=99.58  E-value=5.2e-15  Score=100.86  Aligned_cols=101  Identities=10%  Similarity=0.027  Sum_probs=75.6

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQAL---   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---   79 (149)
                      +.+.++.++..+++++++ +++|||+++ .++..+..|+..+.+ ....+.|+++|+||+|+. .  .....+....   
T Consensus        65 g~~~~~~~~~~~~~~~~~-ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~-~--~~~~~~i~~~~~~  140 (173)
T d1e0sa_          65 GQDKIRPLWRHYYTGTQG-LIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP-D--AMKPHEIQEKLGL  140 (173)
T ss_dssp             CCGGGHHHHGGGTTTCCE-EEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTST-T--CCCHHHHHHHTTG
T ss_pred             CcchhhhHHHhhhcccce-EEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccc-c--cccHHHHHHHHHH
Confidence            457788889999998877 788889987 899999888887665 334679999999999997 2  2222222221   


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                        +...++.++++||++|+||+|+|++|.+.+
T Consensus       141 ~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         141 TRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence              112245688999999999999999998753

>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=99.57  E-value=1e-14  Score=98.40  Aligned_cols=103  Identities=12%  Similarity=0.041  Sum_probs=75.3

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHH-
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALAD-   81 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~-   81 (149)
                      |.++|+.++..+++..+. ++++||.++ .++.....|+..... ....++|+++|+||.|+. +..  .......... 
T Consensus        55 G~~~~~~~~~~~~~~~~~-~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~~--~~~~~~~~~~~  130 (165)
T d1ksha_          55 GQKSLRSYWRNYFESTDG-LIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP-GAL--SCNAIQEALEL  130 (165)
T ss_dssp             CSHHHHTTGGGGCTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TCC--CHHHHHHHTTG
T ss_pred             cchhhhhHHHhhhhhhhc-ceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccc-ccc--CHHHHHHHHHh
Confidence            456788899998888766 788888877 788888777666544 333679999999999997 322  2232222211 


Q ss_pred             ----HhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           82 ----EYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        82 ----~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                          ..+++++++||++|.||+++|++|++.+..
T Consensus       131 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         131 DSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHc
Confidence                123578999999999999999999987753

>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=99.54  E-value=1.1e-14  Score=98.32  Aligned_cols=100  Identities=13%  Similarity=0.166  Sum_probs=75.4

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHH-H--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQA-L--   79 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~-~--   79 (149)
                      |.+.|...|..|+.+.+. +++|||+++ .+|.....|+..+.+. ...++|+++|+||.|+. ..  ........ +  
T Consensus        56 G~~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~-~~--~~~~~i~~~~~~  131 (164)
T d1zd9a1          56 GQPRFRSMWERYCRGVSA-IVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP-GA--LDEKELIEKMNL  131 (164)
T ss_dssp             CSHHHHTTHHHHHTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTST-TC--CCHHHHHHHTTG
T ss_pred             ccccccccccccccccch-hhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccc-hh--hhHHHHHHHHHH
Confidence            456788899999988766 788888887 8999999888887663 33679999999999987 22  22222221 1  


Q ss_pred             --HHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           80 --ADEYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        80 --~~~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                        +...+.+++++||++|.||+++|++|++.
T Consensus       132 ~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         132 SAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence              12234578999999999999999999874

>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=99.43  E-value=4e-13  Score=89.29  Aligned_cols=100  Identities=8%  Similarity=-0.010  Sum_probs=73.5

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHH----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQA----   78 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~----   78 (149)
                      +.+.++.++..|++..+. ++++||+++ .++.....|+.++.... ...+|+++++||.|+. +  .....+...    
T Consensus        53 g~~~~~~~~~~~~~~~~~-~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~-~--~~~~~~i~~~~~~  128 (160)
T d1r8sa_          53 GQDKIRPLWRHYFQNTQG-LIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP-N--AMNAAEITDKLGL  128 (160)
T ss_dssp             CCGGGHHHHHHHTTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-T--CCCHHHHHHHTTG
T ss_pred             Ccccchhhhhhhhcccee-EEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeeccccc-c--cccHHHHHHHHHH
Confidence            345566677777777766 778888887 88999988888876633 3678999999999987 2  222222221    


Q ss_pred             -HHHHhCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           79 -LADEYGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        79 -~~~~~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                       ++...+.+++++||++|.||+++|++|++.
T Consensus       129 ~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~  159 (160)
T d1r8sa_         129 HSLRHRNWYIQATCATSGDGLYEGLDWLSNQ  159 (160)
T ss_dssp             GGCSSCCEEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HHHhhCCCEEEEeECCCCCCHHHHHHHHHhc
Confidence             222335678999999999999999999875

>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=99.37  E-value=3e-12  Score=86.64  Aligned_cols=101  Identities=10%  Similarity=0.019  Sum_probs=69.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQH-ASDNVNKVLVGNKADMDESKRAVPTSKGQALA--   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~-~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~--   80 (149)
                      +.+.++..+..++...+. +++++|.++ .++.....+....... .....|+++|+||.|+. ..  ....+.....  
T Consensus        68 ~~~~~~~~~~~~~~~~~~-~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-~~--~~~~~i~~~~~~  143 (177)
T d1zj6a1          68 GQESLRSSWNTYYTNTEF-VIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVK-EC--MTVAEISQFLKL  143 (177)
T ss_dssp             C----CGGGHHHHTTCCE-EEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTST-TC--CCHHHHHHHHTG
T ss_pred             cccccccchhhhhcccee-eeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEccccc-cc--CcHHHHHHHHHH
Confidence            345667777787777666 677778877 8888877666655443 23678999999999987 22  2222222222  


Q ss_pred             ---HHhCCcEEEecCCCCCCHHHHHHHHHHHH
Q 032001           81 ---DEYGIKFFETSAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        81 ---~~~~~~~~~~Sak~~~~i~el~~~l~~~i  109 (149)
                         ...+.+++++||++|+||+++|++|++.+
T Consensus       144 ~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         144 TSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence               22335799999999999999999999875

>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=99.26  E-value=6.7e-12  Score=83.68  Aligned_cols=105  Identities=10%  Similarity=0.076  Sum_probs=72.7

Q ss_pred             cccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHH---
Q 032001            4 LRCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQA---   78 (149)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~---   78 (149)
                      .+.+.++.++..++...+. +++++++.+ .++.....+...... ......|+++|+||.|+. ... ........   
T Consensus        57 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~-~~~-~~~~i~~~~~~  133 (169)
T d1upta_          57 GGLTSIRPYWRCYYSNTDA-VIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDME-QAM-TSSEMANSLGL  133 (169)
T ss_dssp             CCCGGGGGGGGGGCTTCSE-EEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST-TCC-CHHHHHHHHTG
T ss_pred             cccccccccchhhhhhhhh-hhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeecccc-ccc-cHHHHHHHHHH
Confidence            4556778888888877776 566667765 677777665554443 334678999999999997 222 11122222   


Q ss_pred             -HHHHhCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           79 -LADEYGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        79 -~~~~~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                       ++...+.+++++||++|.||+++|++|++.+.+
T Consensus       134 ~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~  167 (169)
T d1upta_         134 PALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  167 (169)
T ss_dssp             GGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence             223345689999999999999999999998754

>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=99.26  E-value=2.8e-11  Score=82.33  Aligned_cols=89  Identities=10%  Similarity=0.050  Sum_probs=58.3

Q ss_pred             cCeEEEEEeeCChhhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCC
Q 032001           20 LCRFKYCTYKIASYHFSDIRNWIRNIEQHA--SDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLN   97 (149)
Q Consensus        20 ~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~--~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~   97 (149)
                      ..+++++++|.....+.....|...+....  ..++|+++|+||+|+. ...  ............+.+++.+||++|.|
T Consensus        79 ~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~-~~~--~~~~~~~~~~~~~~~~~~iSA~tg~g  155 (180)
T d1udxa2          79 RTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLL-EEE--AVKALADALAREGLAVLPVSALTGAG  155 (180)
T ss_dssp             SSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTS-CHH--HHHHHHHHHHTTTSCEEECCTTTCTT
T ss_pred             hhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhh-hHH--HHHHHHHHHHhcCCeEEEEEcCCCCC
Confidence            345567777776433344444443332211  1357999999999997 221  12233344455678999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 032001           98 VEQVFFSIARDIKQ  111 (149)
Q Consensus        98 i~el~~~l~~~i~~  111 (149)
                      +++|++.|.+.+..
T Consensus       156 id~L~~~i~~~l~~  169 (180)
T d1udxa2         156 LPALKEALHALVRS  169 (180)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>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=99.21  E-value=6.6e-11  Score=78.16  Aligned_cols=99  Identities=16%  Similarity=0.156  Sum_probs=70.7

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCCcCCCCCCHHHHHHHH--
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHA-SDNVNKVLVGNKADMDESKRAVPTSKGQALA--   80 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~--   80 (149)
                      +...+..+++.++..... +++++|..+ .++.....|+..+.+.. ..+.|+++++||.|+.   ......+.....  
T Consensus        53 ~~~~~~~~~~~~~~~~~~-~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~---~~~~~~~i~~~~~~  128 (166)
T d2qtvb1          53 GHIQARRLWKDYFPEVNG-IVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAP---NAVSEAELRSALGL  128 (166)
T ss_dssp             CSGGGGGGGGGGCTTCSE-EEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSS---SCCCHHHHHHHHTC
T ss_pred             cchhhhhhHhhhhhheee-eeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEecccccc---ccCCHHHHHHHhhh
Confidence            445677788888877766 677778887 77888887777766633 3678999999999987   222223222111  


Q ss_pred             ----------HHhCCcEEEecCCCCCCHHHHHHHHHH
Q 032001           81 ----------DEYGIKFFETSAKTNLNVEQVFFSIAR  107 (149)
Q Consensus        81 ----------~~~~~~~~~~Sak~~~~i~el~~~l~~  107 (149)
                                ...+.+++++||++|+||+|+|++|++
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         129 LNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             SSCCC---CCSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             hhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence                      111236899999999999999999974

>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=99.16  E-value=4.4e-11  Score=81.64  Aligned_cols=106  Identities=13%  Similarity=0.011  Sum_probs=71.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-hhH-----------HHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc------
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-YHF-----------SDIRNWIRNIEQHASDNVNKVLVGNKADMDE------   66 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~-----------~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~------   66 (149)
                      |.++|+++|..||++.++ ++++||+++ .+|           +....|...+......+.|+++++||.|+..      
T Consensus        51 Gq~~~~~~~~~~~~~~~~-~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~  129 (195)
T d1svsa1          51 GQRSERKKWIHCFEGVTA-IIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKS  129 (195)
T ss_dssp             CSGGGGGGGGGGCTTCSE-EEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTS
T ss_pred             cccccccchhhcccCCce-eeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccch
Confidence            568999999999999988 677888876 555           3334455555444457889999999999621      


Q ss_pred             --------CCCCCCHHHHHH-HHHH----------hCCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           67 --------SKRAVPTSKGQA-LADE----------YGIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        67 --------~~~~~~~~~~~~-~~~~----------~~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                              .........+.. ....          ..+.++++||++|.||+++|+.+.+.+.+
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         130 PLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             CGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence                    001111122111 1111          12346789999999999999999987765

>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=99.14  E-value=3.9e-11  Score=80.94  Aligned_cols=87  Identities=14%  Similarity=0.082  Sum_probs=56.2

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHHH
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVEQ  100 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~e  100 (149)
                      .++++++.+.+.........|...++..   ++|+|+|+||+|+. .  .........+.+....+++++||++|.|+++
T Consensus        81 ad~i~~~~~~~~~~~~~~~~~~~~l~~~---~~pviiv~NK~Dl~-~--~~~~~~~~~~~~~~~~~~i~iSAk~g~gid~  154 (171)
T d1mkya1          81 ADLVLFVVDGKRGITKEDESLADFLRKS---TVDTILVANKAENL-R--EFEREVKPELYSLGFGEPIPVSAEHNINLDT  154 (171)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHHH---TCCEEEEEESCCSH-H--HHHHHTHHHHGGGSSCSCEECBTTTTBSHHH
T ss_pred             CcEEEEeecccccccccccccccccccc---cccccccchhhhhh-h--hhhhHHHHHHHhcCCCCeEEEecCCCCCHHH
Confidence            3456666666542223334555555553   57999999999986 2  1111111122222234679999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 032001          101 VFFSIARDIKQRL  113 (149)
Q Consensus       101 l~~~l~~~i~~~~  113 (149)
                      |+++|.+.+++..
T Consensus       155 L~~~i~~~l~e~~  167 (171)
T d1mkya1         155 MLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCCC
Confidence            9999999987764

>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=99.13  E-value=9e-12  Score=85.50  Aligned_cols=107  Identities=14%  Similarity=-0.039  Sum_probs=73.8

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-h-----------hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcC-----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-Y-----------HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDES-----   67 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~-----------s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~-----   67 (149)
                      |.++|+.+|..||++... ++++|+..+ .           .++....|...+......+.|+++++||.|+.+.     
T Consensus        54 g~~~~~~~~~~~~~~~~~-~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~  132 (200)
T d2bcjq2          54 GQRSERRKWIHCFENVTS-IMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYS  132 (200)
T ss_dssp             CSTTGGGGGGGGCSSCSE-EEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTS
T ss_pred             ccccccccccccccccce-eeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccch
Confidence            457899999999999887 566667654 2           4566777887776665578999999999997410     


Q ss_pred             ----------CCCCCHHHHHHHHH-H---------hCCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           68 ----------KRAVPTSKGQALAD-E---------YGIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        68 ----------~~~~~~~~~~~~~~-~---------~~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                ...........+.. .         ..+.++++||++|.||+++|+.|.+.|.+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         133 HLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             CHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence                      00111111222111 1         123467899999999999999999888754

>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=99.12  E-value=2.5e-10  Score=76.89  Aligned_cols=99  Identities=15%  Similarity=0.149  Sum_probs=65.8

Q ss_pred             cccccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH-
Q 032001            6 CLCFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDESKRAVPTSKGQALADE-   82 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-   82 (149)
                      .+.+...+..+++.... +++++|..+ ..+.....++..... ....++|+++++||.|++   .............. 
T Consensus        67 ~~~~~~~~~~~~~~~~~-~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~---~~~~~~~i~~~~~~~  142 (186)
T d1f6ba_          67 HIQARRVWKNYLPAING-IVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP---EAISEERLREMFGLY  142 (186)
T ss_dssp             ----CCGGGGGGGGCSE-EEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTST---TCCCHHHHHHHHTCT
T ss_pred             hhhhhhHHhhhhcccce-eeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcc---ccCCHHHHHHHHhhc
Confidence            45667778888887777 566667776 677776655544443 333679999999999987   22233333322211 


Q ss_pred             ----------------hCCcEEEecCCCCCCHHHHHHHHHHH
Q 032001           83 ----------------YGIKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        83 ----------------~~~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                                      .+++++++||++|+|++|+|++|++.
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         143 GQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             TTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence                            12358899999999999999999864

>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=99.10  E-value=9.3e-12  Score=84.69  Aligned_cols=84  Identities=14%  Similarity=0.006  Sum_probs=56.9

Q ss_pred             CeEEEEEeeCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCH
Q 032001           21 CRFKYCTYKIASYHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNV   98 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i   98 (149)
                      ++++++|+|++.. +... ..|.+.++. ...+.|+++|+||+|+. ...   ......+.+..+ ..++++||++|.|+
T Consensus        85 ad~il~v~D~~~~-~~~~~~~i~~~l~~-~~~~~piilv~NK~Dl~-~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi  158 (178)
T d1wf3a1          85 VNAVVWVVDLRHP-PTPEDELVARALKP-LVGKVPILLVGNKLDAA-KYP---EEAMKAYHELLPEAEPRMLSALDERQV  158 (178)
T ss_dssp             CSEEEEEEETTSC-CCHHHHHHHHHHGG-GTTTSCEEEEEECGGGC-SSH---HHHHHHHHHTSTTSEEEECCTTCHHHH
T ss_pred             ccceeeeechhhh-hcccccchhhheec-cccchhhhhhhcccccc-cCH---HHHHHHHHhhcccCceEEEecCCCCCH
Confidence            4557888898852 2223 344444443 33578999999999987 221   223334444444 47899999999999


Q ss_pred             HHHHHHHHHHHH
Q 032001           99 EQVFFSIARDIK  110 (149)
Q Consensus        99 ~el~~~l~~~i~  110 (149)
                      ++|++.|++.++
T Consensus       159 ~~L~~~i~~~lp  170 (178)
T d1wf3a1         159 AELKADLLALMP  170 (178)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHhCC
Confidence            999999988664

>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=99.07  E-value=2.1e-10  Score=78.09  Aligned_cols=98  Identities=11%  Similarity=0.093  Sum_probs=60.2

Q ss_pred             ccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHH-h-
Q 032001            9 FIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADE-Y-   83 (149)
Q Consensus         9 ~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~-~-   83 (149)
                      |...+...+... +++++++|... ........| ..+..   .++|+++|+||+|+. ......  ......+.+. . 
T Consensus        72 ~~~~~~~~l~~~-d~~ilv~d~~~g~~~~~~~~~-~~~~~---~~~p~iiv~NKiD~~-~~~~~~~~~~~~~~~~~~~~~  145 (179)
T d1wb1a4          72 LIRAVVSAADII-DLALIVVDAKEGPKTQTGEHM-LILDH---FNIPIIVVITKSDNA-GTEEIKRTEMIMKSILQSTHN  145 (179)
T ss_dssp             HHHHHHHHTTSC-CEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCBCEEEECTTSS-CHHHHHHHHHHHHHHHHHSSS
T ss_pred             cccchhhhhhhc-cccccccccccccchhhhhhh-hhhhh---cCCcceecccccccc-CHHHHHHHHHHHHHHHHHhhc
Confidence            444444455444 55777778875 333333333 33333   368999999999987 211110  0111222222 1 


Q ss_pred             --CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           84 --GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        84 --~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                        +.+++++||++|.|+++|++.|++.+.+.
T Consensus       146 ~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         146 LKNSSIIPISAKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             GGGCCEEECCTTTCTTHHHHHHHHHHHHHHS
T ss_pred             CCCCeEEEEEccCCcCHHHHHHHHHhcCCcc
Confidence              35799999999999999999999988764

>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=99.07  E-value=2.2e-11  Score=81.21  Aligned_cols=81  Identities=15%  Similarity=0.122  Sum_probs=58.0

Q ss_pred             hcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCC
Q 032001           19 VLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLN   97 (149)
Q Consensus        19 ~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~   97 (149)
                      ...+++++++|... .++.....|...+.. ...++|+++|+||+|+. ..... .      .+..+.+++++||++|.|
T Consensus        79 ~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~-~~~~~~iilv~NK~Dl~-~~~~~-~------~~~~~~~~~~iSAk~~~g  149 (161)
T d2gj8a1          79 EQADRVLFMVDGTTTDAVDPAEIWPEFIAR-LPAKLPITVVRNKADIT-GETLG-M------SEVNGHALIRLSARTGEG  149 (161)
T ss_dssp             HTCSEEEEEEETTTCCCCSHHHHCHHHHHH-SCTTCCEEEEEECHHHH-CCCCE-E------EEETTEEEEECCTTTCTT
T ss_pred             Hhccccceeeccccccchhhhhhhhhhhhh-cccccceeeccchhhhh-hhHHH-H------HHhCCCcEEEEECCCCCC
Confidence            34555788888886 666666766655544 33578999999999986 22211 0      112346899999999999


Q ss_pred             HHHHHHHHHHH
Q 032001           98 VEQVFFSIARD  108 (149)
Q Consensus        98 i~el~~~l~~~  108 (149)
                      |++|+++|++.
T Consensus       150 i~~L~~~l~~~  160 (161)
T d2gj8a1         150 VDVLRNHLKQS  160 (161)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999999875

>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=98.93  E-value=8.2e-09  Score=69.89  Aligned_cols=89  Identities=15%  Similarity=0.023  Sum_probs=58.0

Q ss_pred             hhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----h-CCcEEEe
Q 032001           16 YLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----Y-GIKFFET   90 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----~-~~~~~~~   90 (149)
                      ++..+ +++++|+|.+.........|...+..   .+.|+|+|+||+|+. ........+.......    . ..+++++
T Consensus        88 ~~~~~-dvii~v~d~~~~~~~~~~~~~~~~~~---~~~~~i~v~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~v  162 (186)
T d1mkya2          88 SIEKA-DVVVIVLDATQGITRQDQRMAGLMER---RGRASVVVFNKWDLV-VHREKRYDEFTKLFREKLYFIDYSPLIFT  162 (186)
T ss_dssp             HHHHC-SEEEEEEETTTCCCHHHHHHHHHHHH---TTCEEEEEEECGGGS-TTGGGCHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             HHhcC-CEEEEeecccccchhhHHHHHHHHHH---cCCceeeeccchhhh-cchhhhhhhHHHHHHHHhcccCCCeEEEE
Confidence            34444 56788888875222334455555544   458999999999986 3333233333333222    1 2479999


Q ss_pred             cCCCCCCHHHHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIARDI  109 (149)
Q Consensus        91 Sak~~~~i~el~~~l~~~i  109 (149)
                      ||++|.|+++|++.|.+.+
T Consensus       163 Sa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         163 SADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             BTTTTBSHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHH
Confidence            9999999999999997654

>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=98.89  E-value=6.3e-09  Score=71.17  Aligned_cols=83  Identities=11%  Similarity=0.054  Sum_probs=53.9

Q ss_pred             eEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh----CCcEEEecCCCCCC
Q 032001           22 RFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEY----GIKFFETSAKTNLN   97 (149)
Q Consensus        22 ~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~Sak~~~~   97 (149)
                      ++++++.|.+..--.....+++.+..   .++|+++|+||+|+. .... .........+..    ..+++.+||++|.|
T Consensus       107 ~~vi~viD~~~~~~~~~~~~~~~l~~---~~~piivv~NK~D~~-~~~~-~~~~~~~~~~~l~~~~~~~~~~~SA~~~~g  181 (195)
T d1svia_         107 KAVVQIVDLRHAPSNDDVQMYEFLKY---YGIPVIVIATKADKI-PKGK-WDKHAKVVRQTLNIDPEDELILFSSETKKG  181 (195)
T ss_dssp             EEEEEEEETTSCCCHHHHHHHHHHHH---TTCCEEEEEECGGGS-CGGG-HHHHHHHHHHHHTCCTTSEEEECCTTTCTT
T ss_pred             hhhhhhhhcccccccccccccccccc---ccCcceechhhcccc-CHHH-HHHHHHHHHHHhcccCCCCEEEEeCCCCCC
Confidence            45667777764211333455555555   358999999999986 2221 112222232332    34789999999999


Q ss_pred             HHHHHHHHHHHH
Q 032001           98 VEQVFFSIARDI  109 (149)
Q Consensus        98 i~el~~~l~~~i  109 (149)
                      +++++++|.+.+
T Consensus       182 i~el~~~i~~~l  193 (195)
T d1svia_         182 KDEAWGAIKKMI  193 (195)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998876

>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=98.83  E-value=5.5e-09  Score=71.35  Aligned_cols=107  Identities=15%  Similarity=0.056  Sum_probs=63.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-h----------hHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCCcC-----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-Y----------HFSDIRNWIRNIEQ-HASDNVNKVLVGNKADMDES-----   67 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~----------s~~~~~~~~~~i~~-~~~~~~~iilv~nK~Dl~~~-----   67 (149)
                      +-++++.+|..|+++... ++++|+.++ .          .+.....|+..+.. ....++|+++++||.|+.+.     
T Consensus        53 gq~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~  131 (200)
T d1zcba2          53 GQRSERKRWFECFDSVTS-ILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVV  131 (200)
T ss_dssp             C-------CTTSCTTCCE-EEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTC
T ss_pred             ceeeecccccccccccce-eEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhcccc
Confidence            456889999999999877 566767764 2          23444455555443 33468999999999997410     


Q ss_pred             ----------CCCCCHHHHHHHHH-Hh----------CCcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           68 ----------KRAVPTSKGQALAD-EY----------GIKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        68 ----------~~~~~~~~~~~~~~-~~----------~~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                                ........+..+.. .+          .+.++++||+++.||+++|+.+.+.+.+.
T Consensus       132 ~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         132 SIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             CGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence                      00011122222211 11          13356799999999999999998877653

>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=98.71  E-value=3.4e-08  Score=66.51  Aligned_cols=57  Identities=23%  Similarity=0.197  Sum_probs=40.7

Q ss_pred             CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-------CcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-------IKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-------~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .++|+++|+||+|+. ...   ......+.....       ..++++||++|.|+++|++.|.+.+++
T Consensus       120 ~~~p~iiv~NK~D~~-~~~---~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         120 LDIPTIVAVNKLDKI-KNV---QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             TTCCEEEEEECGGGC-SCH---HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEeeeehh-hhH---HHHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            468999999999976 221   112222222222       247899999999999999999998875

>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=98.70  E-value=5.6e-08  Score=63.98  Aligned_cols=78  Identities=19%  Similarity=0.135  Sum_probs=50.7

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCcEEEecCCCCCCHH
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNLNVE   99 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sak~~~~i~   99 (149)
                      .+++++|+|.++ ...... .+...+     ...++++++||+|+. +.  ........ ....+.+++++||++|.|++
T Consensus        81 ad~ii~v~d~~~~~~~~~~-~~~~~~-----~~~~~i~~~~k~d~~-~~--~~~~~~~~-~~~~~~~~~~vSA~~g~gi~  150 (160)
T d1xzpa2          81 ADIVLFVLDASSPLDEEDR-KILERI-----KNKRYLVVINKVDVV-EK--INEEEIKN-KLGTDRHMVKISALKGEGLE  150 (160)
T ss_dssp             CSEEEEEEETTSCCCHHHH-HHHHHH-----TTSSEEEEEEECSSC-CC--CCHHHHHH-HHTCSTTEEEEEGGGTCCHH
T ss_pred             CCEEEEEEeCCCCcchhhh-hhhhhc-----ccccceeeeeecccc-ch--hhhHHHHH-HhCCCCcEEEEECCCCCCHH
Confidence            456888889886 433322 222222     356899999999987 32  22222211 11134689999999999999


Q ss_pred             HHHHHHHHH
Q 032001          100 QVFFSIARD  108 (149)
Q Consensus       100 el~~~l~~~  108 (149)
                      +|+++|.+.
T Consensus       151 ~L~~~I~ke  159 (160)
T d1xzpa2         151 KLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999998763

>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=98.68  E-value=4.4e-08  Score=68.84  Aligned_cols=101  Identities=16%  Similarity=0.071  Sum_probs=58.5

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH------------H
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT------------S   74 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~------------~   74 (149)
                      .|...+...+..+ +++++|+|... -..... ..+..+..   .++|+|+|.||+|+.........            .
T Consensus        82 ~f~~~~~~~~~~~-D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~  156 (227)
T d1g7sa4          82 AFTTLRKRGGALA-DLAILIVDINEGFKPQTQ-EALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (227)
T ss_dssp             CCTTSBCSSSBSC-SEEEEEEETTTCCCHHHH-HHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             cccccchhccccc-ceEEEEEecccCcccchh-HHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHH
Confidence            4444444455454 55777778775 333333 33333443   46899999999998722111100            0


Q ss_pred             -------HHHHHH---HHh---------------CCcEEEecCCCCCCHHHHHHHHHHHHHHHh
Q 032001           75 -------KGQALA---DEY---------------GIKFFETSAKTNLNVEQVFFSIARDIKQRL  113 (149)
Q Consensus        75 -------~~~~~~---~~~---------------~~~~~~~Sak~~~~i~el~~~l~~~i~~~~  113 (149)
                             ......   ...               ..+++.+||++|.|+++|++.|.....+.+
T Consensus       157 v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~  220 (227)
T d1g7sa4         157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (227)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence                   000000   000               136899999999999999999988665443

>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=98.64  E-value=2.6e-08  Score=67.39  Aligned_cols=56  Identities=21%  Similarity=0.388  Sum_probs=42.6

Q ss_pred             CCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHh--CCcEEEecCCCCCCHHHHHHHHHHHHHH
Q 032001           51 DNVNKVLVGNKADMDESKRAVPTSKGQALADEY--GIKFFETSAKTNLNVEQVFFSIARDIKQ  111 (149)
Q Consensus        51 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~Sak~~~~i~el~~~l~~~i~~  111 (149)
                      .++|+++|+||+|+. +.    ......+.+..  +.+++.+||++|.|+++|++.|.+.+.+
T Consensus       116 ~~kp~ivv~NK~Dl~-~~----~~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~~  173 (185)
T d1lnza2         116 TERPQIIVANKMDMP-EA----AENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLEN  173 (185)
T ss_dssp             TTSCBCBEEECTTST-TH----HHHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             cCCcchhhccccchH-hH----HHHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            468999999999997 21    12233344443  5789999999999999999999988743

>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=98.55  E-value=2.8e-08  Score=66.63  Aligned_cols=85  Identities=18%  Similarity=0.171  Sum_probs=53.3

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhC-CcEEEecCCCCCCHH
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYG-IKFFETSAKTNLNVE   99 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~Sak~~~~i~   99 (149)
                      .++++++.|..+ .......+...+..   ...|+++|.||.|+. ............+....+ .+++++||++|.|++
T Consensus        86 ~~~~l~~~d~~~-~~~~~~~~~~~l~~---~~~~~i~v~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~  160 (179)
T d1egaa1          86 VELVIFVVEGTR-WTPDDEMVLNKLRE---GKAPVILAVNKVDNV-QEKADLLPHLQFLASQMNFLDIVPISAETGLNVD  160 (179)
T ss_dssp             EEEEEEEEETTC-CCHHHHHHHHHHHS---SSSCEEEEEESTTTC-CCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHH
T ss_pred             cceeEEEEecCc-cchhHHHHHHHhhh---ccCceeeeeeeeecc-chhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHH
Confidence            344556666554 22333344444443   456889999999977 322111222333444444 589999999999999


Q ss_pred             HHHHHHHHHHH
Q 032001          100 QVFFSIARDIK  110 (149)
Q Consensus       100 el~~~l~~~i~  110 (149)
                      +|++.|++.++
T Consensus       161 ~L~~~i~~~lp  171 (179)
T d1egaa1         161 TIAAIVRKHLP  171 (179)
T ss_dssp             HHHHHHHTTCC
T ss_pred             HHHHHHHHhCC
Confidence            99999987663

>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=98.50  E-value=7.1e-07  Score=61.15  Aligned_cols=59  Identities=10%  Similarity=0.146  Sum_probs=36.6

Q ss_pred             ccccc-ccchhhhhhcCeEEEEEeeCCh-hh-HHHHHHHHHHHH-Hh--cCCCCeEEEEeeCCCCC
Q 032001            6 CLCFI-GVYPPYLAVLCRFKYCTYKIAS-YH-FSDIRNWIRNIE-QH--ASDNVNKVLVGNKADMD   65 (149)
Q Consensus         6 ~~~~~-~~~~~~~~~~~~~vi~v~~~~~-~s-~~~~~~~~~~i~-~~--~~~~~~iilv~nK~Dl~   65 (149)
                      .++++ .++..|+... +.+++|+|.++ .+ +.....|+..+. ..  ...++|+++|+||+|++
T Consensus        57 ~~~~~~~~~~~~~~~~-~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~  121 (207)
T d2fh5b1          57 HESLRFQLLDRFKSSA-RAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIA  121 (207)
T ss_dssp             CHHHHHHHHHHHGGGE-EEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTST
T ss_pred             cccccchhhhhhhhhc-cccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccC
Confidence            34554 3455555555 45777788876 43 444445554443 21  23568999999999997

>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=98.44  E-value=2.5e-07  Score=64.91  Aligned_cols=85  Identities=20%  Similarity=0.178  Sum_probs=58.5

Q ss_pred             hhhhhcCeEEEEEeeCC-h-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH--hCCcEEEe
Q 032001           15 PYLAVLCRFKYCTYKIA-S-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE--YGIKFFET   90 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~-~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~~   90 (149)
                      +-.+|.+. +++|+++. | .+...+++|+-.+..   .+++.++|.||+||. +..  .......+...  .+.+++.+
T Consensus         6 P~vANiD~-vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~-~~~--~~~~~~~~~~~~~~~~~v~~v   78 (225)
T d1u0la2           6 PHVANVDQ-VILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLY-DED--DLRKVRELEEIYSGLYPIVKT   78 (225)
T ss_dssp             TTEESCCE-EEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGC-CHH--HHHHHHHHHHHHTTTSCEEEC
T ss_pred             CCcccCCE-EEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccC-CHH--HHHHHHHhhcccccceeEEEe
Confidence            44567766 45555664 5 667788888887766   468999999999997 211  11222233333  23689999


Q ss_pred             cCCCCCCHHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSIA  106 (149)
Q Consensus        91 Sak~~~~i~el~~~l~  106 (149)
                      ||+++.++++|...+.
T Consensus        79 Sa~~~~g~~~L~~~l~   94 (225)
T d1u0la2          79 SAKTGMGIEELKEYLK   94 (225)
T ss_dssp             CTTTCTTHHHHHHHHS
T ss_pred             ccccchhHhhHHHHhc
Confidence            9999999998877664

>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=98.42  E-value=2.4e-07  Score=63.35  Aligned_cols=86  Identities=12%  Similarity=0.069  Sum_probs=48.9

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCC--HHHHHHHHHHh---CCcEEEecCCC
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVP--TSKGQALADEY---GIKFFETSAKT   94 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~--~~~~~~~~~~~---~~~~~~~Sak~   94 (149)
                      .+++++|.|... ..-.....-+..+....  ..++|++.||+|+. +.....  ......+....   .++++++||++
T Consensus       102 ~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~-d~~~~~~~~~~~~~~~~~~~~~~~~iIpiSA~~  178 (195)
T d1kk1a3         102 MDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELV-DKEKALENYRQIKEFIEGTVAENAPIIPISALH  178 (195)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGS-CHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTT
T ss_pred             ccccccccchhhhhhhhhhHHHHHHHHHhc--Cccceeeeecccch-hhHHHHHHHHHHHHHhccccCCCCeEEEEECCC
Confidence            344566667664 21222222222233322  24678889999987 321111  11122222222   25789999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 032001           95 NLNVEQVFFSIARDI  109 (149)
Q Consensus        95 ~~~i~el~~~l~~~i  109 (149)
                      |.|+++|++.+.+.+
T Consensus       179 G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         179 GANIDVLVKAIEDFI  193 (195)
T ss_dssp             TBSHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHC
Confidence            999999999988765

>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=98.42  E-value=1.9e-08  Score=70.49  Aligned_cols=107  Identities=11%  Similarity=-0.031  Sum_probs=66.1

Q ss_pred             ccccccccchhhhhhcCeEEEEEeeCCh-h-----------hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCC----
Q 032001            5 RCLCFIGVYPPYLAVLCRFKYCTYKIAS-Y-----------HFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESK----   68 (149)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~-----------s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~----   68 (149)
                      |.++++..|..||.+... ++++++.++ .           ..+....|...+......++|+++++||+|+.+..    
T Consensus        56 Gq~~~r~~w~~~~~~~~~-ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~  134 (221)
T d1azta2          56 GQRDERRKWIQCFNDVTA-IIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAG  134 (221)
T ss_dssp             CSTTTTTGGGGGCTTCSE-EEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHC
T ss_pred             ccceeccchhhhcccccc-eEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccC
Confidence            457899999999999887 567777653 2           12233334333333333679999999999984110    


Q ss_pred             -CC----------------------CC--HHHHH-----HHHHHhC--------CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           69 -RA----------------------VP--TSKGQ-----ALADEYG--------IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        69 -~~----------------------~~--~~~~~-----~~~~~~~--------~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                       ..                      ..  ...+.     .+.+.+.        +-+.++||+++.+|..+|+.+.+.|.
T Consensus       135 ~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~  214 (221)
T d1azta2         135 KSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQ  214 (221)
T ss_dssp             SSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHH
T ss_pred             cccHHHhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHH
Confidence             00                      00  11111     2222111        12457899999999999999988776


Q ss_pred             HH
Q 032001          111 QR  112 (149)
Q Consensus       111 ~~  112 (149)
                      ..
T Consensus       215 ~~  216 (221)
T d1azta2         215 RM  216 (221)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=98.38  E-value=4.4e-07  Score=62.50  Aligned_cols=86  Identities=15%  Similarity=0.181  Sum_probs=49.9

Q ss_pred             CeEEEEEeeCCh-hhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHHh---CCcEEEecCC
Q 032001           21 CRFKYCTYKIAS-YHFSDI-RNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADEY---GIKFFETSAK   93 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~-~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~~---~~~~~~~Sak   93 (149)
                      ++++++|.|... -.-.+. ..|.. +.. . .-.|+|++.||+|+. +......  .....+....   .++++++||+
T Consensus       110 ad~ailvVda~~gi~~~~t~e~~~~-~~~-~-~i~~iIV~vNK~Dl~-~~~~~~~~~~~~~~~l~~~~~~~~p~ipiSA~  185 (205)
T d2qn6a3         110 MDGAILVVAANEPFPQPQTREHFVA-LGI-I-GVKNLIIVQNKVDVV-SKEEALSQYRQIKQFTKGTWAENVPIIPVSAL  185 (205)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHH-HHH-T-TCCCEEEEEECGGGS-CHHHHHHHHHHHHHHHTTSTTTTCCEEECBTT
T ss_pred             cccccccccccccccchhHHHHHHH-HHH-c-CCceeeeccccCCCc-cchHHHHHHHHHHHHhccccCCCCeEEEEeCC
Confidence            455666667764 111222 23322 222 2 124889999999997 3211111  1111222221   3579999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 032001           94 TNLNVEQVFFSIARDIK  110 (149)
Q Consensus        94 ~~~~i~el~~~l~~~i~  110 (149)
                      +|.||++|++.|...++
T Consensus       186 ~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         186 HKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             TTBSHHHHHHHHHHHSC
T ss_pred             CCCChHHHHHHHHhhCC
Confidence            99999999999887664

>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=98.32  E-value=1.3e-06  Score=58.16  Aligned_cols=81  Identities=11%  Similarity=0.021  Sum_probs=48.2

Q ss_pred             EEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH---h--CCcEEEecCCCCCCH
Q 032001           24 KYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE---Y--GIKFFETSAKTNLNV   98 (149)
Q Consensus        24 vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~---~--~~~~~~~Sak~~~~i   98 (149)
                      ++.+.+...........+...+..   ...++++++||.|+. ..... ......+.+.   .  ..+++.+||++|.||
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~v~~k~D~~-~~~~~-~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gi  176 (188)
T d1puia_         102 LVVLMDIRHPLKDLDQQMIEWAVD---SNIAVLVLLTKADKL-ASGAR-KAQLNMVREAVLAFNGDVQVETFSSLKKQGV  176 (188)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHHHH---TTCCEEEEEECGGGS-CHHHH-HHHHHHHHHHHGGGCSCEEEEECBTTTTBSH
T ss_pred             EEEeecccccchhHHHHHHHHhhh---ccccccchhhhhhcc-CHHHH-HHHHHHHHHHHHhhCCCCcEEEEeCCCCCCH
Confidence            333334443323334455555544   457899999999987 21111 1111222222   2  247899999999999


Q ss_pred             HHHHHHHHHHH
Q 032001           99 EQVFFSIARDI  109 (149)
Q Consensus        99 ~el~~~l~~~i  109 (149)
                      ++|++.|.+.+
T Consensus       177 d~L~~~i~~~~  187 (188)
T d1puia_         177 DKLRQKLDTWF  187 (188)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999987643

>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=98.17  E-value=3.9e-07  Score=64.14  Aligned_cols=84  Identities=11%  Similarity=0.159  Sum_probs=58.0

Q ss_pred             hhhhcCeEEEEEeeC-Ch-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHH---HHHhCCcEEEe
Q 032001           16 YLAVLCRFKYCTYKI-AS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQAL---ADEYGIKFFET   90 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~-~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~~   90 (149)
                      -.+|.+.+ ++|++. ++ .++..+++++-.+..   .+++.++|.||+||. +. .........+   ....|++++.+
T Consensus         7 ~vANiD~~-~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~-~~-~~~~~~~~~~~~~y~~~g~~v~~~   80 (231)
T d1t9ha2           7 PICNVDQA-VLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLI-ED-QDTEDTIQAYAEDYRNIGYDVYLT   80 (231)
T ss_dssp             TEECCCEE-EEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGC-CC-HHHHHHHHHHHHHHHHHTCCEEEC
T ss_pred             CccccCEE-EEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeccccc-cc-HHHHHHHHHHHHHHhhccccceee
Confidence            34677664 555555 55 678888998887766   568999999999997 22 1112222222   34468899999


Q ss_pred             cCCCCCCHHHHHHHH
Q 032001           91 SAKTNLNVEQVFFSI  105 (149)
Q Consensus        91 Sak~~~~i~el~~~l  105 (149)
                      ||+++.|+++|...|
T Consensus        81 Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          81 SSKDQDSLADIIPHF   95 (231)
T ss_dssp             CHHHHTTCTTTGGGG
T ss_pred             ecCChhHHHHHHHhh
Confidence            999999988876655

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=97.84  E-value=4.9e-06  Score=56.99  Aligned_cols=86  Identities=16%  Similarity=0.065  Sum_probs=51.2

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH---HHHHHHHHHhC-----CcEEEecC
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT---SKGQALADEYG-----IKFFETSA   92 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~---~~~~~~~~~~~-----~~~~~~Sa   92 (149)
                      .|++++|.|..+--+.+....+..+....  -.|+|++.||+|+. ......+   .+...+....+     ++++.+||
T Consensus        90 aD~allVVda~~G~~~QT~~~~~~a~~~~--~~~iIv~iNK~D~~-~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa  166 (196)
T d1d2ea3          90 LDGCILVVAANDGPMPQTREHLLLARQIG--VEHVVVYVNKADAV-QDSEMVELVELEIRELLTEFGYKGEETPIIVGSA  166 (196)
T ss_dssp             CSEEEEEEETTTCSCHHHHHHHHHHHHTT--CCCEEEEEECGGGC-SCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             cCeEEEEEEcCCCCchhHHHHHHHHHHhc--CCcEEEEEeccccc-ccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEc
Confidence            45677777888622344443334333322  35789999999987 3221111   12333444333     56899999


Q ss_pred             CCC----------CCHHHHHHHHHHHH
Q 032001           93 KTN----------LNVEQVFFSIARDI  109 (149)
Q Consensus        93 k~~----------~~i~el~~~l~~~i  109 (149)
                      ++|          .++.+|++.|.+.+
T Consensus       167 ~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         167 LCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             HHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             cccccccCcccccCCHHHHHHHHHhhC
Confidence            988          47888888776654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.72  E-value=7.2e-05  Score=51.52  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=21.5

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARD  108 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~  108 (149)
                      ++++++||++|+|+++|+..|.+.
T Consensus       217 ~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         217 VRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             CCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999888764

>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=97.65  E-value=2.8e-05  Score=55.59  Aligned_cols=84  Identities=15%  Similarity=0.204  Sum_probs=53.9

Q ss_pred             hhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH---hCCcEEEec
Q 032001           16 YLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE---YGIKFFETS   91 (149)
Q Consensus        16 ~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~~~S   91 (149)
                      .+..+ |+|+.|.|.-. .+..  ..+++++.    .+.|.|+|.||+|+. +     ......|.+.   .+...+.+|
T Consensus        12 ~i~~~-DvIl~V~DaR~P~ss~--~~~l~~~~----~~Kp~IlVlNK~DLv-~-----~~~~~~w~~~f~~~~~~~i~is   78 (273)
T d1puja_          12 KLKLI-DIVYELVDARIPMSSR--NPMIEDIL----KNKPRIMLLNKADKA-D-----AAVTQQWKEHFENQGIRSLSIN   78 (273)
T ss_dssp             HGGGC-SEEEEEEETTSTTTTS--CHHHHHHC----SSSCEEEEEECGGGS-C-----HHHHHHHHHHHHTTTCCEEECC
T ss_pred             HHHhC-CEEEEEEECCCCCCCC--CHHHHHHH----cCCCeEEEEECccCC-c-----hHHHHHHHHHHHhcCCccceee
Confidence            34444 56788888763 2221  22233332    257999999999997 2     2333344433   356789999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHH
Q 032001           92 AKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        92 ak~~~~i~el~~~l~~~i~~~  112 (149)
                      |+++.++.++...+.+.+.+.
T Consensus        79 a~~~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          79 SVNGQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             TTTCTTGGGHHHHHHHHHHHH
T ss_pred             cccCCCccccchhhhhhhhhh
Confidence            999999988888777766554

>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=97.43  E-value=0.00015  Score=52.98  Aligned_cols=90  Identities=11%  Similarity=0.097  Sum_probs=50.4

Q ss_pred             hhhhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHH----------hC
Q 032001           15 PYLAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADE----------YG   84 (149)
Q Consensus        15 ~~~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~----------~~   84 (149)
                      .......|++++|.....  .+.++.....+.+     +.=++|.||.|+. +...........+...          ..
T Consensus       159 ~~~~~~~D~~v~v~~p~~--GD~iQ~~k~gilE-----~aDi~vvNKaD~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~  230 (323)
T d2qm8a1         159 TAVADLTDFFLVLMLPGA--GDELQGIKKGIFE-----LADMIAVNKADDG-DGERRASAAASEYRAALHILTPPSATWT  230 (323)
T ss_dssp             HHHHTTSSEEEEEECSCC--------CCTTHHH-----HCSEEEEECCSTT-CCHHHHHHHHHHHHHHHTTBCCSBTTBC
T ss_pred             hhhhcccceEEEEeeccc--hhhhhhhhhhHhh-----hhheeeEeccccc-cchHHHHHHHHHHHHHhhcccccccCCC
Confidence            344556777777766653  3344433333333     2337888999986 2211111111112111          23


Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~~~  112 (149)
                      .+++.+||++|.|++++++.|.+.....
T Consensus       231 p~V~~~Sa~~g~Gi~el~~~I~~~~~~~  258 (323)
T d2qm8a1         231 PPVVTISGLHGKGLDSLWSRIEDHRSKL  258 (323)
T ss_dssp             CCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CceEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            4799999999999999999998766443

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=97.41  E-value=0.00048  Score=47.58  Aligned_cols=74  Identities=16%  Similarity=0.082  Sum_probs=41.6

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCCCCCHH----HHHHHHHHhC-----CcEEE
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNV-NKVLVGNKADMDESKRAVPTS----KGQALADEYG-----IKFFE   89 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~~~~~~----~~~~~~~~~~-----~~~~~   89 (149)
                      .|++++|.|... ..-.....|. .+..   .++ .+|++.||+|+. +.......    ++..+....+     +++++
T Consensus       113 aD~ailVvda~~G~~~Qt~e~~~-~~~~---~gv~~iiv~vNK~D~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IP  187 (222)
T d1zunb3         113 CDLAIILVDARYGVQTQTRRHSY-IASL---LGIKHIVVAINKMDLN-GFDERVFESIKADYLKFAEGIAFKPTTMAFVP  187 (222)
T ss_dssp             CSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEEECTTTT-TSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEE
T ss_pred             CceEEEEeccccCcccchHHHHH-HHHH---cCCCEEEEEEEccccc-cccceehhhhHHHHhhhhHhhccCCCceEEEE
Confidence            455667767775 3223333332 2222   234 478899999998 32221111    2223344333     35789


Q ss_pred             ecCCCCCCHH
Q 032001           90 TSAKTNLNVE   99 (149)
Q Consensus        90 ~Sak~~~~i~   99 (149)
                      +||++|.|+.
T Consensus       188 iSA~~G~ni~  197 (222)
T d1zunb3         188 MSALKGDNVV  197 (222)
T ss_dssp             CCTTTCTTTS
T ss_pred             EEcccCccCC
Confidence            9999999984

>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=97.28  E-value=0.0005  Score=46.07  Aligned_cols=60  Identities=10%  Similarity=0.181  Sum_probs=36.8

Q ss_pred             cccccccchhhhhhc----CeEEEEEeeCCh-hhHHHHHHHHHHH----HHhcCCCCeEEEEeeCCCCC
Q 032001            6 CLCFIGVYPPYLAVL----CRFKYCTYKIAS-YHFSDIRNWIRNI----EQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus         6 ~~~~~~~~~~~~~~~----~~~vi~v~~~~~-~s~~~~~~~~~~i----~~~~~~~~~iilv~nK~Dl~   65 (149)
                      .++++..+..++...    +.+++++++.+. .++.....|+..+    ......++|+++|+||+|+.
T Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~  124 (209)
T d1nrjb_          56 HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF  124 (209)
T ss_dssp             CGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST
T ss_pred             ccchhhHHHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccc
Confidence            345555555555443    344444443444 6667766665443    33344789999999999987

>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=97.15  E-value=0.00065  Score=47.57  Aligned_cols=50  Identities=24%  Similarity=0.167  Sum_probs=29.4

Q ss_pred             eEEEEeeCCCCCcCC-CCCCHH----HHHHHHHHh-------CCcEEEecCCCCCCHHHHHH
Q 032001           54 NKVLVGNKADMDESK-RAVPTS----KGQALADEY-------GIKFFETSAKTNLNVEQVFF  103 (149)
Q Consensus        54 ~iilv~nK~Dl~~~~-~~~~~~----~~~~~~~~~-------~~~~~~~Sak~~~~i~el~~  103 (149)
                      +++++.||+|++..+ .+....    +...+....       .++++++||++|.||.++++
T Consensus       164 ~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         164 HLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             SEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             eEEEEEEcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            578889999986211 111111    112222221       24689999999999976543

>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=97.00  E-value=0.00025  Score=48.36  Aligned_cols=41  Identities=20%  Similarity=-0.026  Sum_probs=25.4

Q ss_pred             CeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCC
Q 032001           21 CRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVN-KVLVGNKADMD   65 (149)
Q Consensus        21 ~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~-iilv~nK~Dl~   65 (149)
                      +|++++|.|.+. ........|. .+..   .++| +|++.||+|+.
T Consensus        91 aD~avlVvda~~Gv~~qt~~~~~-~~~~---~gi~~iiv~iNK~D~~  133 (204)
T d2c78a3          91 MDGAILVVSAADGPMPQTREHIL-LARQ---VGVPYIVVFMNKVDMV  133 (204)
T ss_dssp             CSSEEEEEETTTCCCHHHHHHHH-HHHH---TTCCCEEEEEECGGGC
T ss_pred             CCEEEEEEECCCCCcHHHHHHHH-HHHH---cCCCeEEEEEEecccC
Confidence            345677778876 4344444443 3443   2455 77789999987

>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=96.99  E-value=0.00028  Score=51.63  Aligned_cols=86  Identities=13%  Similarity=0.111  Sum_probs=46.6

Q ss_pred             hhhcCeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCH--HHHHHHHHH-------hCCcE
Q 032001           17 LAVLCRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPT--SKGQALADE-------YGIKF   87 (149)
Q Consensus        17 ~~~~~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~--~~~~~~~~~-------~~~~~   87 (149)
                      +....|.+++|....  ..+.++.....+.+.     +-++|.||.|+. .......  .........       ...++
T Consensus       164 i~~~aD~~l~v~~P~--~Gd~iq~~k~gi~e~-----aDi~VvNKaD~~-~~~~~~~~~~~~~~al~~~~~~~~~w~p~V  235 (327)
T d2p67a1         164 VARMVDCFISLQIAG--GGDDLQGIKKGLMEV-----ADLIVINKDDGD-NHTNVAIARHMYESALHILRRKYDEWQPRV  235 (327)
T ss_dssp             HHTTCSEEEEEECC--------CCCCHHHHHH-----CSEEEECCCCTT-CHHHHHHHHHHHHHHHHHSCCSBTTBCCEE
T ss_pred             hhhccceEEEEecCC--Cchhhhhhchhhhcc-----ccEEEEEeeccc-chHHHHHHHHHHHHHhhhcccCCCCCccee
Confidence            445566666665444  344444333344332     337778999986 2111100  111111111       12469


Q ss_pred             EEecCCCCCCHHHHHHHHHHHHH
Q 032001           88 FETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        88 ~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +.+||.+|.|+++|++.|.+...
T Consensus       236 ~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         236 LTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             EECBGGGTBSHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999987554

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.26  E-value=0.013  Score=40.60  Aligned_cols=75  Identities=12%  Similarity=0.010  Sum_probs=42.1

Q ss_pred             CeEEEEEeeCChhhH--------HHHHHHHHHHHHhcCCCC-eEEEEeeCCCCCcCCCCCCH----HHHHHHHHHhC---
Q 032001           21 CRFKYCTYKIASYHF--------SDIRNWIRNIEQHASDNV-NKVLVGNKADMDESKRAVPT----SKGQALADEYG---   84 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~--------~~~~~~~~~i~~~~~~~~-~iilv~nK~Dl~~~~~~~~~----~~~~~~~~~~~---   84 (149)
                      .|++++|.|....-|        ....+|.. +..   -++ ++|++.||+|+. +......    .+...+....+   
T Consensus       108 ~D~ailvvda~~G~~e~g~~~~~QT~eh~~~-~~~---~gv~~iiv~iNKmD~~-~~d~~~~~~~~~el~~~l~~~~~~~  182 (239)
T d1f60a3         108 ADCAILIIAGGVGEFEAGISKDGQTREHALL-AFT---LGVRQLIVAVNKMDSV-KWDESRFQEIVKETSNFIKKVGYNP  182 (239)
T ss_dssp             CSEEEEEEECSHHHHHHHTCTTSHHHHHHHH-HHH---TTCCEEEEEEECGGGG-TTCHHHHHHHHHHHHHHHHHHTCCG
T ss_pred             hCEEEEEEECCCCccccccCchHhHHHHHHH-HHH---cCCCeEEEEEECCCCC-CCCHHHHHHHHHHHHHHHHhcCCCC
Confidence            355666667775223        23334432 222   235 478899999987 3222111    12333444443   


Q ss_pred             --CcEEEecCCCCCCHHH
Q 032001           85 --IKFFETSAKTNLNVEQ  100 (149)
Q Consensus        85 --~~~~~~Sak~~~~i~e  100 (149)
                        ++++.+||..|.|+-+
T Consensus       183 ~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         183 KTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGCCEEECCTTTCBTTTB
T ss_pred             CcEEEEEEEccCCCccee
Confidence              4679999999988644

>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=96.14  E-value=0.019  Score=40.40  Aligned_cols=26  Identities=12%  Similarity=0.071  Sum_probs=22.7

Q ss_pred             CcEEEecCCCCCCHHHHHHHHHHHHH
Q 032001           85 IKFFETSAKTNLNVEQVFFSIARDIK  110 (149)
Q Consensus        85 ~~~~~~Sak~~~~i~el~~~l~~~i~  110 (149)
                      +|++..||.++.||.+|++.|.+.++
T Consensus       241 ~PV~~GSA~~n~GV~~LLd~i~~~~P  266 (267)
T d2dy1a2         241 YPVALASGEREIGVLPLLELILEALP  266 (267)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             EEEEeCcCCCCcCHHHHHHHHHHhCC
Confidence            37899999999999999999988653

>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=95.95  E-value=0.024  Score=40.08  Aligned_cols=72  Identities=17%  Similarity=0.082  Sum_probs=41.5

Q ss_pred             cccccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCcCCCCCCHHHHHHHHHHhCCc
Q 032001            8 CFIGVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDESKRAVPTSKGQALADEYGIK   86 (149)
Q Consensus         8 ~~~~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   86 (149)
                      .|..-...-++.++.++++| |..+ -......-| ..+..   .++|.+++.||+|..   ..........+.+.++..
T Consensus        83 dF~~e~~~~l~~~D~avlVv-da~~Gv~~~T~~~w-~~a~~---~~lP~i~fINKmDr~---~ad~~~~l~ei~~~l~~~  154 (276)
T d2bv3a2          83 DFTIEVERSMRVLDGAIVVF-DSSQGVEPQSETVW-RQAEK---YKVPRIAFANKMDKT---GADLWLVIRTMQERLGAR  154 (276)
T ss_dssp             SCSTTHHHHHHHCCEEEEEE-ETTTSSCHHHHHHH-HHHHT---TTCCEEEEEECTTST---TCCHHHHHHHHHHTTCCC
T ss_pred             hhHHHHHHHHHhhhheEEec-cccCCcchhHHHHH-HHHHH---cCCCEEEEEeccccc---ccccchhHHHHHHHhCCC
Confidence            44555555566666655555 6654 333444444 44554   469999999999976   222334444555556644


Q ss_pred             E
Q 032001           87 F   87 (149)
Q Consensus        87 ~   87 (149)
                      .
T Consensus       155 ~  155 (276)
T d2bv3a2         155 P  155 (276)
T ss_dssp             E
T ss_pred             e
Confidence            3

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.55  E-value=0.011  Score=40.19  Aligned_cols=47  Identities=19%  Similarity=0.285  Sum_probs=27.9

Q ss_pred             CeEEEEeeCCCCCcC-CCCCCHH----HHHHHHHHhC-----CcEEEecCCCCCCHH
Q 032001           53 VNKVLVGNKADMDES-KRAVPTS----KGQALADEYG-----IKFFETSAKTNLNVE   99 (149)
Q Consensus        53 ~~iilv~nK~Dl~~~-~~~~~~~----~~~~~~~~~~-----~~~~~~Sak~~~~i~   99 (149)
                      .++|++.||+|+... .......    ....+....+     ++++++||..|.|+.
T Consensus       142 ~~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         142 DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             CceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            468888999998621 1111111    1222333332     467899999999874

>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=92.50  E-value=0.075  Score=38.54  Aligned_cols=49  Identities=14%  Similarity=0.051  Sum_probs=30.9

Q ss_pred             cchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           12 VYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        12 ~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      -...-++.+++ +++|+|... -.......|..-. .   .++|++++.||+|..
T Consensus       112 ev~~al~~~D~-allVVda~eGv~~qT~~~~~~a~-~---~~~p~i~viNKiDr~  161 (341)
T d1n0ua2         112 EVTAALRVTDG-ALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  161 (341)
T ss_dssp             HHHHHHHTCSE-EEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             HHHHHHhhcCc-eEEEEecccCcchhHHHHHHHHH-H---cCCCeEEEEECcccc
Confidence            33344455556 555557765 4455555665543 3   468999999999964

>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=91.26  E-value=0.19  Score=36.90  Aligned_cols=87  Identities=15%  Similarity=0.053  Sum_probs=47.4

Q ss_pred             CeEEEEEeeCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCCc-----CC-CCCCHHH-H-------HHHHHHhC--
Q 032001           21 CRFKYCTYKIASYHFSDIRNWIRNIEQHASDNVNKVLVGNKADMDE-----SK-RAVPTSK-G-------QALADEYG--   84 (149)
Q Consensus        21 ~~~vi~v~~~~~~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~~-----~~-~~~~~~~-~-------~~~~~~~~--   84 (149)
                      .++++++.|....  .....+...+..   .++|+++|.||+|...     .. .....+. .       .......+  
T Consensus       136 ~d~~l~~~~~~~~--~~d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~  210 (400)
T d1tq4a_         136 YDFFIIISATRFK--KNDIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIA  210 (400)
T ss_dssp             CSEEEEEESSCCC--HHHHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCS
T ss_pred             ceEEEEecCCCCC--HHHHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcCCC
Confidence            3555555544321  222344455554   3589999999999520     00 1111111 1       11123333  


Q ss_pred             -CcEEEecCCCC--CCHHHHHHHHHHHHHHH
Q 032001           85 -IKFFETSAKTN--LNVEQVFFSIARDIKQR  112 (149)
Q Consensus        85 -~~~~~~Sak~~--~~i~el~~~l~~~i~~~  112 (149)
                       .++|.+|....  .++.+|.+.+.+.+++.
T Consensus       211 ~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         211 EPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             SCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             CCCEEEecCCcccccCHHHHHHHHHHHhHHH
Confidence             25788887644  48889999988877543

>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=86.35  E-value=0.66  Score=32.01  Aligned_cols=52  Identities=12%  Similarity=0.062  Sum_probs=35.5

Q ss_pred             ccchhhhhhcCeEEEEEeeCCh-hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCC
Q 032001           11 GVYPPYLAVLCRFKYCTYKIAS-YHFSDIRNWIRNIEQHASDNVNKVLVGNKADMD   65 (149)
Q Consensus        11 ~~~~~~~~~~~~~vi~v~~~~~-~s~~~~~~~~~~i~~~~~~~~~iilv~nK~Dl~   65 (149)
                      .+...|..+.++++++|.+... .+-.....|...+..   ...+++.|.||+|..
T Consensus       153 ~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~---~~~r~i~Vltk~D~~  205 (299)
T d2akab1         153 DMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKLDLM  205 (299)
T ss_dssp             HHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT---TCSSEEEEEECGGGS
T ss_pred             HHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc---CCCceeeEEeccccc
Confidence            4566777788888888877764 333444455554433   446899999999986