RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15257
(65 letters)
>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 = 55.9 bits (135), Expect = 9e-12
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIY 60
M + P VK V+VGD GKT L+ A ++ PTV+ ++Y +
Sbjct: 23 MAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGA------FPESYTPTVF--ERYMVN 74
>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 = 56.0 bits (135), Expect = 9e-12
Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 8/56 (14%)
Query: 6 EQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
P ++KCVVVGD AVGKT L+ + A + +VPTV+ D Y +
Sbjct: 12 HGPGALMLKCVVVGDGAVGKTCLLMSYANDA------FPEEYVPTVF--DHYAVSV 59
>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 = 55.5 bits (134), Expect = 1e-11
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 8/60 (13%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIY 60
+N + +KCVVVGD AVGKT L+ + N ++PTV+ D Y
Sbjct: 19 SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA------FPGEYIPTVF--DNYSAN 70
>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 = 52.0 bits (125), Expect = 2e-10
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 8/57 (14%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRI 59
+ + ++ +K VVVGD AVGKT L+ A + + + T +VPTV+ + +
Sbjct: 14 AGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGE------IPTAYVPTVF--ENFSH 62
>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 = 51.8 bits (124), Expect = 3e-10
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 7 QPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
QP K V+VGD GKT ++ A + T+VPTV+ + Y
Sbjct: 22 QPVVARCKLVLVGDVQCGKTAMLQVLAKDC------YPETYVPTVF--ENYTACL 68
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 50.5 bits (121), Expect = 8e-10
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIY 60
VKCV+VGD AVGKT L+ + N T ++PT + D +
Sbjct: 11 GRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNG------YPTEYIPTAF--DNFSAV 60
>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 = 50.4 bits (121), Expect = 9e-10
Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 11 ELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
+KCV VGD AVGKT L+ + N T +VPTV+ D +
Sbjct: 7 RFIKCVTVGDGAVGKTCLLISYTSNT------FPTDYVPTVF--DNFSANV 49
>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 = 49.4 bits (118), Expect = 3e-09
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 13 VKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
K V+VGD A GKT L+ + + Q +VPTV+ + Y
Sbjct: 26 KKLVIVGDGACGKTCLLIVFSKD------QFPEVYVPTVF--ENYIADI 66
>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 = 49.4 bits (118), Expect = 3e-09
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 9/56 (16%)
Query: 7 QPHQEL-VKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
P+Q + K VVVGD+ GKT L+ A + +VPTV+ + Y
Sbjct: 22 DPNQNVKCKIVVVGDSQCGKTALLHVFAKD------CFPENYVPTVF--ENYTASF 69
>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 = 48.5 bits (116), Expect = 5e-09
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 8/49 (16%)
Query: 13 VKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIYK 61
K VVVGD+ GKT L+ A + +VPTV+ + Y
Sbjct: 8 CKIVVVGDSQCGKTALLHVFAKD------CFPENYVPTVF--ENYTASF 48
>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 = 47.4 bits (113), Expect = 1e-08
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 8/48 (16%)
Query: 13 VKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIY 60
K VVVGD A GKT L+ + + + +VPTV+ + Y
Sbjct: 26 KKLVVVGDGACGKTCLLIVFSKD------EFPEVYVPTVF--ENYVAD 65
>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 = 45.8 bits (109), Expect = 6e-08
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 13 VKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYR 58
+KCV VGD AVGKT ++ NK T ++PTV+ D +
Sbjct: 10 IKCVTVGDGAVGKTCMLICYTSNK------FPTDYIPTVF--DNFS 47
>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 = 45.1 bits (107), Expect = 8e-08
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 8/52 (15%)
Query: 9 HQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYRIY 60
+ +KCVVVGD AVGKT L+ + N ++PTV+ D Y
Sbjct: 2 SPQAIKCVVVGDGAVGKTCLLISYTTNA------FPGEYIPTVF--DNYSAN 45
>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 = 32.3 bits (74), Expect = 0.005
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLI 29
M S + Q K V+VGD GKT +
Sbjct: 4 MASAAQGEPQVQFKLVLVGDGGTGKTTFV 32
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 31.5 bits (72), Expect = 0.007
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 1 MLSDNEQPHQE----LVKCVVVGDTAVGKTRLI 29
M+ +P K VVG+ VGK+ LI
Sbjct: 5 MVKKEVKPIDITATLRCKVAVVGEATVGKSALI 37
>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 = 31.5 bits (72), Expect = 0.009
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLI 29
++ + L+K + +GD+ VGKT +
Sbjct: 14 LVPRGSGDYDYLIKLLALGDSGVGKTTFL 42
>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 = 31.2 bits (71), Expect = 0.009
Identities = 12/45 (26%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
S N + + ++K +++GD+ VGK+ L+ R + + S + T
Sbjct: 9 ASSGNGKSYDSIMKILLIGDSGVGKSCLL-VRFVEDKFNPSFITT 52
>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 = 31.0 bits (71), Expect = 0.011
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLI 29
M S + K V +G+ +VGKT LI
Sbjct: 3 MSSGDFGNPLRKFKLVFLGEQSVGKTSLI 31
>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 = 30.7 bits (70), Expect = 0.015
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
S Q+ K V+ GD AVGK+ + R C + + T
Sbjct: 19 SAKSFSSQKAYKIVLAGDAAVGKSSFLM-RLCKNEFRENISAT 60
>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 = 30.6 bits (70), Expect = 0.016
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 2 LSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+ + + L K V++GD+ VGK+ L+ +R + +L T
Sbjct: 19 MGTRDDEYDYLFKVVLIGDSGVGKSNLL-SRFTRNEFNLESKST 61
>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 = 30.7 bits (70), Expect = 0.016
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
++ + + + K V++G++ VGKT L+ +R + S T
Sbjct: 14 LVPRGSEDYNFVFKVVLIGESGVGKTNLL-SRFTRNEFSHDSRTT 57
>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 = 30.5 bits (70), Expect = 0.018
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+K VVVG+ AVGK+ +I R C + T
Sbjct: 5 AIKMVVVGNGAVGKSSMI-QRYCKGIFTKDYKKT 37
>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 = 30.3 bits (69), Expect = 0.019
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 9/58 (15%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYR 58
+ ++ + K ++VG++ VGK+ L Q + H P D Y
Sbjct: 14 LYFQGQKDG--IFKVMLVGESGVGKSTLAG------TFGGLQGDSAHEPEN-PEDTYE 62
>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 = 30.3 bits (69), Expect = 0.020
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLI 29
D ++ + L K V+VGD +VGKT ++
Sbjct: 20 GDPDEQYDFLFKLVLVGDASVGKTCVV 46
>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 = 29.9 bits (68), Expect = 0.026
Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 1/45 (2%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
++ L K +V+G GK+ L+ + + T
Sbjct: 14 LVPRGSIWSDFLFKFLVIGSAGTGKSCLL-HQFIENKFKQDSNHT 57
>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 = 30.2 bits (69), Expect = 0.026
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K +++GD VGK+ L+ R + T
Sbjct: 7 LFKVILLGDGGVGKSSLM-NRYVTNKFDTQLFHT 39
>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 = 29.9 bits (68), Expect = 0.027
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L+K +++GD+ VGKT L+ + NK+ S T
Sbjct: 8 LLKVIILGDSGVGKTSLM-NQYVNKKFSNQYKAT 40
>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 = 29.9 bits (68), Expect = 0.029
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 2 LSDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+S + L K +++GD+ VGK+ L+ R + + S + T
Sbjct: 23 MSSMNPEYDYLFKLLLIGDSGVGKSCLL-LRFADDTYTESYIST 65
>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 = 30.1 bits (68), Expect = 0.030
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
D + L K V++GD+ VGK+ L+ +R + ++ T
Sbjct: 4 EDYGYDYDLLFKIVLIGDSGVGKSNLL-SRFTKNEFNMDSKST 45
>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 = 29.9 bits (68), Expect = 0.030
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
++K +++GD+ VGKT L+ R N + S T
Sbjct: 8 ILKVIILGDSGVGKTSLM-HRYVNDKYSQQYKAT 40
>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 = 29.9 bits (68), Expect = 0.033
Identities = 12/40 (30%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 6 EQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+ K +V+GD+ VGKT L R C + T
Sbjct: 14 RGSRSRIFKIIVIGDSNVGKTCLTY-RFCAGRFPDRTEAT 52
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein;
HET: GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 29.8 bits (67), Expect = 0.033
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHV 48
K V++G+++VGK+ ++ R + T
Sbjct: 7 SYKTVLLGESSVGKSSIVL-RLTKDTFHENTNTTIGA 42
>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 = 29.6 bits (67), Expect = 0.037
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
K ++GD VGKT I
Sbjct: 11 TYKICLIGDGGVGKTTYI 28
>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 = 29.4 bits (67), Expect = 0.039
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+K VV+GD A GKT L + T
Sbjct: 6 QLKIVVLGDGASGKTSLT-TCFAQETFGKQYKQT 38
>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 = 29.5 bits (67), Expect = 0.042
Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+K +++G++ VGK+ L+ R + T
Sbjct: 15 TLKILIIGESGVGKSSLL-LRFTDDTFDPELAAT 47
>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 = 29.4 bits (67), Expect = 0.042
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
K V++GD GK+ L+
Sbjct: 12 NAKLVLLGDVGAGKSSLV 29
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling
protein; HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 29.4 bits (67), Expect = 0.047
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 7/47 (14%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYR 58
+ K ++VG++ VGK+ L Q H + D Y
Sbjct: 2 VFKVMLVGESGVGKSTLAG------TFGGLQGDHAHEMEN-SEDTYE 41
>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 = 29.2 bits (66), Expect = 0.053
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K V++GD+ VGK+ L+ +R + +L T
Sbjct: 5 LFKVVLIGDSGVGKSNLL-SRFTRNEFNLESKST 37
>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 = 29.2 bits (66), Expect = 0.054
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K V++G+ VGKT L+ R Q T
Sbjct: 26 LFKIVLIGNAGVGKTCLVR-RFTQGLFPPGQGAT 58
>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 = 29.2 bits (66), Expect = 0.062
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLI 29
+ K V +G+ +VGKT LI
Sbjct: 7 GGDFGNPLRKFKLVFLGEQSVGKTSLI 33
>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 = 29.1 bits (66), Expect = 0.063
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+ + + K +++GD VGK+ L+ + K+ T
Sbjct: 6 ATAPYNYSYIFKYIIIGDMGVGKSCLL-HQFTEKKFMADCPHT 47
>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 = 29.1 bits (66), Expect = 0.065
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K +++GDT VGK+ L+ + +K+ LT
Sbjct: 21 LFKYIIIGDTGVGKSCLLL-QFTDKRFQPVHDLT 53
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 29.1 bits (66), Expect = 0.065
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K +++GD+ VGK+ L+ R + + S + T
Sbjct: 16 LFKLLLIGDSGVGKSCLL-LRFADDTYTESYIST 48
>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 = 29.1 bits (66), Expect = 0.065
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
L K +V+G+ GK+ L+
Sbjct: 10 LFKFLVIGNAGTGKSCLL 27
>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 = 28.8 bits (65), Expect = 0.068
Identities = 9/34 (26%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K +++G++ VGK+ L+ R + + + T
Sbjct: 8 LFKLLLIGNSGVGKSCLL-LRFSDDTYTNDYIST 40
>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 = 28.6 bits (65), Expect = 0.073
Identities = 8/16 (50%), Positives = 14/16 (87%)
Query: 14 KCVVVGDTAVGKTRLI 29
K V++G++AVGK+ L+
Sbjct: 8 KLVLLGESAVGKSSLV 23
>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 = 28.6 bits (65), Expect = 0.086
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
K V++G+ VGKT L+
Sbjct: 6 SFKVVLLGEGCVGKTSLV 23
>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 = 28.4 bits (64), Expect = 0.095
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
L+K + +GD+ VGKT ++
Sbjct: 11 LIKFLALGDSGVGKTSVL 28
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 28.3 bits (64), Expect = 0.097
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
L K +++GD+ VGK+ L+ R + S S + T
Sbjct: 9 LFKLLIIGDSGVGKSSLLL-RFADNTFSGSYITT 41
>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 = 28.3 bits (64), Expect = 0.098
Identities = 6/18 (33%), Positives = 14/18 (77%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ K +++G+++VGKT +
Sbjct: 22 MFKLLLIGNSSVGKTSFL 39
>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 = 28.6 bits (64), Expect = 0.099
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 14 KCVVVGDTAVGKTRLI 29
K V++G+ AVGK+ ++
Sbjct: 5 KLVLLGEAAVGKSSIV 20
>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 = 28.3 bits (64), Expect = 0.100
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
K ++VGD+ VGKT L+
Sbjct: 10 AFKVMLVGDSGVGKTCLL 27
>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 = 28.4 bits (64), Expect = 0.10
Identities = 6/18 (33%), Positives = 14/18 (77%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ K +++G+++VGKT +
Sbjct: 8 MFKILIIGNSSVGKTSFL 25
>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 = 28.5 bits (64), Expect = 0.11
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 14 KCVVVGDTAVGKTRLI 29
K ++VG+T GKT L+
Sbjct: 4 KLMIVGNTGSGKTTLL 19
>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 = 28.3 bits (64), Expect = 0.11
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+K ++GDT VGK+ ++
Sbjct: 23 ELKVCLLGDTGVGKSSIV 40
>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 = 28.3 bits (64), Expect = 0.12
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
L K +++GD+ VGKT ++
Sbjct: 8 LFKLLLIGDSGVGKTCVL 25
>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2; 2.70A
{Staphylococcus epidermidis atcc 12228}
Length = 340
Score = 28.3 bits (64), Expect = 0.12
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 16 VVVGDTAVGKTRL 28
V+VG TA GKT L
Sbjct: 11 VIVGPTASGKTEL 23
>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 = 28.0 bits (63), Expect = 0.13
Identities = 6/18 (33%), Positives = 14/18 (77%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ K +++G+++VGKT +
Sbjct: 23 MFKLLIIGNSSVGKTSFL 40
>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 = 28.0 bits (63), Expect = 0.13
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
++ +++G VGKT L+
Sbjct: 26 KLQVIIIGSRGVGKTSLM 43
>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 = 27.9 bits (63), Expect = 0.13
Identities = 7/18 (38%), Positives = 15/18 (83%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
++K +++GD+ VGK+ L+
Sbjct: 3 IMKILLIGDSGVGKSCLL 20
>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A
Length = 322
Score = 27.9 bits (63), Expect = 0.15
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 16 VVVGDTAVGKTRL 28
+VG TAVGKT+
Sbjct: 7 AIVGPTAVGKTKT 19
>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation,
ATP-binding, cytoplasm, mitochondrion,
nucleotide-binding, nucleus; 2.95A {Saccharomyces
cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*
Length = 409
Score = 28.1 bits (63), Expect = 0.17
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 16 VVVGDTAVGKTRL 28
V+ G T VGK++L
Sbjct: 6 VIAGTTGVGKSQL 18
>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 = 27.8 bits (63), Expect = 0.17
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 14 KCVVVGDTAVGKTRLI 29
K ++GDT VGK+ ++
Sbjct: 8 KVCLLGDTGVGKSSIM 23
>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside
modification, isopentenyl-tRNA transferase,
transferase-RNA complex; 2.50A {Escherichia coli k-12}
PDB: 2zxu_A* 2zm5_A
Length = 316
Score = 27.9 bits (63), Expect = 0.18
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKTRL 28
M ++ + + ++G TA GKT L
Sbjct: 1 MSDISKASLPKAI--FLMGPTASGKTAL 26
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 27.6 bits (61), Expect = 0.20
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 16 VVVGDTAVGKTRL 28
V++G T GK+RL
Sbjct: 44 VLMGATGTGKSRL 56
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 27.2 bits (61), Expect = 0.26
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 2 LSDNEQPHQELVKCVVVGDTAVGKTRL 28
L P K V++G VGKT L
Sbjct: 14 LYFQGMPLVRYRKVVILGYRCVGKTSL 40
>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 = 27.3 bits (61), Expect = 0.28
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ V++G+ VGK+ L
Sbjct: 37 YYRVVLIGEQGVGKSTLA 54
>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 = 27.1 bits (61), Expect = 0.28
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 8 PHQELVKCVVVGDTAVGKTRLI 29
P + K ++G +VGK+ L
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLT 23
>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 = 27.3 bits (61), Expect = 0.30
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ V++G+ VGK+ L
Sbjct: 6 YYRVVLIGEQGVGKSTLA 23
>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 = 26.8 bits (60), Expect = 0.34
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRL 28
Q L K ++VG VGK+ L
Sbjct: 5 KPKGQNSLALHKVIMVGSGGVGKSAL 30
>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 = 26.7 bits (60), Expect = 0.34
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 8 PHQELVKCVVVGDTAVGKTRL 28
P E K VVVG VGK+ L
Sbjct: 5 PPSETHKLVVVGGGGVGKSAL 25
>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 = 26.7 bits (60), Expect = 0.42
Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 8/47 (17%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLTTHVPTVWAIDQYR 58
L + V++GD VGKT L + Q H D Y
Sbjct: 4 LYRVVLLGDPGVGKTSLAS------LFAGKQERDLHEQLG--EDVYE 42
>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 = 26.8 bits (60), Expect = 0.43
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 8 PHQELVKCVVVGDTAVGKTRLI 29
+ VV G VGK+ L+
Sbjct: 4 EQSNDYRVVVFGAGGVGKSSLV 25
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.7 bits (58), Expect = 0.45
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 11/40 (27%)
Query: 6 EQPHQELVKC----------VVVGDTAVGKTRLICARACN 35
QP+ +L + ++ G GKT + C
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA-LDVCL 172
>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 = 26.4 bits (59), Expect = 0.51
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 3 SDNEQPHQELVKCVVVGDTAVGKTRL 28
Q L K ++VG VGK+ L
Sbjct: 9 GGGSQNSLALHKVIMVGSGGVGKSAL 34
>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 = 26.4 bits (59), Expect = 0.52
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 7 QPHQELVKCVVVGDTAVGKTRLI 29
+ K VVVGD VGK+ L
Sbjct: 13 SENLPTYKLVVVGDGGVGKSALT 35
>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding,
nucleotide-binding, nucleotidyltransferase, tRNA
processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A
3crr_A
Length = 323
Score = 26.3 bits (59), Expect = 0.53
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 16 VVVGDTAVGKTRL 28
++G TA GKT L
Sbjct: 9 FLMGPTAAGKTDL 21
>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 = 26.4 bits (59), Expect = 0.53
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 12 LVKCVVVGDTAVGKTRL 28
++ V+GD GK+ L
Sbjct: 7 ELRLGVLGDARSGKSSL 23
>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 = 26.3 bits (59), Expect = 0.55
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
L K ++VG VGK+ L
Sbjct: 4 LHKVIMVGSGGVGKSALT 21
>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 = 26.3 bits (59), Expect = 0.56
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 14 KCVVVGDTAVGKTRLI 29
K VV+G VGK+ L
Sbjct: 5 KVVVLGSGGVGKSALT 20
>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin
biosynthesis; HET: DST AMP; 2.10A {Agrobacterium
tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A
Length = 253
Score = 26.3 bits (58), Expect = 0.56
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 16 VVVGDTAVGKTRL 28
++ G T GKT +
Sbjct: 5 LIYGPTCSGKTDM 17
>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 = 25.9 bits (58), Expect = 0.65
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 14 KCVVVGDTAVGKTRLI 29
K VV+G VGK+ L
Sbjct: 5 KLVVLGSGGVGKSALT 20
>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 = 25.9 bits (58), Expect = 0.69
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 12 LVKCVVVGDTAVGKTRLI 29
+ K +++G VGK+ L
Sbjct: 2 VYKVLLLGAPGVGKSALA 19
>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 = 26.0 bits (58), Expect = 0.69
Identities = 8/27 (29%), Positives = 10/27 (37%)
Query: 2 LSDNEQPHQELVKCVVVGDTAVGKTRL 28
L VK + G VGK+ L
Sbjct: 18 LYFQSMAKSAEVKLAIFGRAGVGKSAL 44
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 26.1 bits (57), Expect = 0.77
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 12 LVKCVVVGDTAVGKTRLICARACNKQVSLSQLLT 45
+K ++GD GKT L+ + + + T
Sbjct: 41 EIKVHLIGDGMAGKTSLLK-QLIGETFDPKESQT 73
>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 = 25.9 bits (58), Expect = 0.86
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 14 KCVVVGDTAVGKTRLI 29
+ V G VGK+ L+
Sbjct: 5 RVAVFGAGGVGKSSLV 20
>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 = 25.5 bits (57), Expect = 1.0
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 14 KCVVVGDTAVGKTRL 28
K VVVG VGK+ L
Sbjct: 5 KLVVVGAGGVGKSAL 19
>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 = 25.6 bits (57), Expect = 1.0
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 14 KCVVVGDTAVGKTRLI 29
K VVVG VGK+ L
Sbjct: 6 KLVVVGADGVGKSALT 21
>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 = 25.6 bits (57), Expect = 1.1
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 1/23 (4%)
Query: 7 QPHQELVKCVVVGDTAVGKTRLI 29
Q E V ++G GK+ L
Sbjct: 17 QGPLE-VNLAILGRRGAGKSALT 38
>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 = 25.2 bits (56), Expect = 1.2
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 14 KCVVVGDTAVGKTRL 28
K VVVG VGK+ L
Sbjct: 23 KLVVVGAGGVGKSAL 37
>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 = 24.8 bits (55), Expect = 2.2
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 14 KCVVVGDTAVGKTRL 28
K +VG+ + GK+ L
Sbjct: 22 KVGIVGNLSSGKSAL 36
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 24.6 bits (54), Expect = 2.3
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 3/24 (12%)
Query: 19 GDTAVGKTRLICA---RACNKQVS 39
G VGKT L+ A + VS
Sbjct: 61 GSFGVGKTYLLAAIANELAKRNVS 84
>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial
GTPase, bacterial POL motility, POLE localisation,
alpha/beta protein; HET: GDP; 1.90A {Thermus
thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*
Length = 198
Score = 23.5 bits (51), Expect = 5.1
Identities = 11/55 (20%), Positives = 18/55 (32%), Gaps = 4/55 (7%)
Query: 1 MLSDNEQPHQELVKCVVVGDTAVGKT----RLICARACNKQVSLSQLLTTHVPTV 51
M + N + K V G GKT + ++ + L T T+
Sbjct: 3 MSTINFANREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTL 57
>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}
Length = 239
Score = 23.4 bits (50), Expect = 7.2
Identities = 7/28 (25%), Positives = 14/28 (50%)
Query: 4 DNEQPHQELVKCVVVGDTAVGKTRLICA 31
++P ++ V+VG T GK+ +
Sbjct: 21 GRQEPRNSQLRIVLVGKTGAGKSATGNS 48
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.132 0.398
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 905,682
Number of extensions: 35894
Number of successful extensions: 205
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 94
Length of query: 65
Length of database: 6,701,793
Length adjustment: 36
Effective length of query: 29
Effective length of database: 5,696,637
Effective search space: 165202473
Effective search space used: 165202473
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)