RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14042
(238 letters)
>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 = 78.1 bits (193), Expect = 8e-18
Identities = 32/80 (40%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 48 QDVIRLHEEGYLRTR-----PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGI 102
+ L + R R P I+V NK DL R R VS + + A F KFIE S +
Sbjct: 128 EKASELRIQ-LRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAV 186
Query: 103 HHNVDELLVGILNQIRLKRS 122
HNV EL GI+ Q+RL+R
Sbjct: 187 QHNVKELFEGIVRQVRLRRD 206
>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 = 76.4 bits (189), Expect = 1e-17
Identities = 38/127 (29%), Positives = 61/127 (48%), Gaps = 22/127 (17%)
Query: 11 KVRAIIWN----EQYEKLTSSDE-----TGLIIVWMLY----KPSYHRVE---QDVIRLH 54
++ + E+ +K S + + +IV Y + S+ + R H
Sbjct: 51 DTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIV---YSIADRGSFESASELRIQLRRTH 107
Query: 55 EEGYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGIL 114
+ ++ P I+V NK DLAR R VS ++ + A F KFIE S + HNV EL G++
Sbjct: 108 QADHV---PIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVV 164
Query: 115 NQIRLKR 121
Q+RL+R
Sbjct: 165 RQLRLRR 171
>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 = 74.5 bits (184), Expect = 5e-17
Identities = 29/59 (49%), Positives = 37/59 (62%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P I+V NK DL R+R VS + + A F KFIE S +HHNV L G++ QIRL+R
Sbjct: 108 PIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR 166
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 74.5 bits (184), Expect = 5e-17
Identities = 29/59 (49%), Positives = 39/59 (66%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P I+V NK DLAR+R VS ++ ++LA + K IE S +HHN EL G + QIRL+R
Sbjct: 111 PVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRR 169
>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 = 73.8 bits (182), Expect = 2e-16
Identities = 29/60 (48%), Positives = 39/60 (65%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
P I+V NK DLAR+R VS ++ ++LA + K IE S +HHN EL G + QIRL+R
Sbjct: 132 PVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRG 191
>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 = 69.1 bits (170), Expect = 1e-14
Identities = 23/95 (24%), Positives = 45/95 (47%), Gaps = 10/95 (10%)
Query: 31 GLIIVWMLY----KPSYHRVEQ--DVIRLHEEGYLRTRPAIIVANKIDLARARAVSSQDA 84
++V Y + S+ +++ LH + R+ PA+++ NK+D+A+ R V+ +
Sbjct: 94 AFLVV---YSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEG 150
Query: 85 KNLAASFKVKFIEVSVGIH-HNVDELLVGILNQIR 118
LA F F EVS + +V + + + R
Sbjct: 151 VALAGRFGCLFFEVSACLDFEHVQHVFHEAVREAR 185
>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 = 68.1 bits (167), Expect = 2e-14
Identities = 33/90 (36%), Positives = 44/90 (48%), Gaps = 6/90 (6%)
Query: 48 QDVIRLHEEGYLRTR-----PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGI 102
+ L + R R P I+V NK DL R R VS + + A F KFIE S +
Sbjct: 97 EKASELRIQ-LRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAV 155
Query: 103 HHNVDELLVGILNQIRLKRSLVQTGGAQAA 132
HNV EL GI+ Q+RL+R + + A
Sbjct: 156 QHNVKELFEGIVRQVRLRRDSKEKNERRLA 185
>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 = 66.8 bits (164), Expect = 6e-14
Identities = 22/59 (37%), Positives = 36/59 (61%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P ++V NK D + +R V S +A+ LA ++K F+E S ++HNV EL +LN + +
Sbjct: 111 PIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRT 169
>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP
binding, GTP hydrolysis, structural genomics, structural
genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens}
SCOP: c.37.1.8
Length = 196
Score = 66.5 bits (163), Expect = 1e-13
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSV-GIHHNVDELLVGILNQIRLKR 121
I+V NK DL +R VS+++ + LA F E S N+ E+ + ++R +R
Sbjct: 134 TLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRR 193
>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 = 66.5 bits (163), Expect = 1e-13
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 1/87 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
P ++V NK DL R VS ++AKN A + V ++E S NVD++ ++ +IR R
Sbjct: 121 PFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIR-ARK 179
Query: 123 LVQTGGAQAAAPWKSNTTLVRASAVIV 149
+ + KS +R I+
Sbjct: 180 MEDSKEKNGKKKRKSLAKRIRERCCIL 206
>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 = 65.2 bits (160), Expect = 2e-13
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLK 120
P ++V NK DL R VS ++AKN A + V ++E S NVD++ ++ +IR +
Sbjct: 111 PFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168
>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 = 64.9 bits (159), Expect = 4e-13
Identities = 21/59 (35%), Positives = 35/59 (59%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P ++V NK DL R VS ++AKN A + V ++E S NVD++ ++ +IR ++
Sbjct: 125 PFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK 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 = 64.2 bits (157), Expect = 7e-13
Identities = 19/76 (25%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
P ++V NK D + R V +++A+ +A +K F+E S +++NV EL +L +
Sbjct: 116 PVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNM 174
Query: 123 LVQTGGAQAAAPWKSN 138
+ G ++ +++
Sbjct: 175 SLNIDGKRSGKQKRTD 190
>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 = 63.3 bits (155), Expect = 9e-13
Identities = 22/56 (39%), Positives = 30/56 (53%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
P I+V NK+DL R VSS + + LA + F+E S VDEL I+ Q+
Sbjct: 110 PVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 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 = 63.3 bits (155), Expect = 1e-12
Identities = 17/65 (26%), Positives = 29/65 (44%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
P ++V NK DL R +S ++ K LA S+ F+E S + ++ I+ +
Sbjct: 113 PIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDG 172
Query: 123 LVQTG 127
G
Sbjct: 173 ACSQG 177
>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 = 62.9 bits (154), Expect = 1e-12
Identities = 26/121 (21%), Positives = 49/121 (40%), Gaps = 20/121 (16%)
Query: 16 IWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEEGYLRT 61
I + E++ + G ++V + + S++ V ++R+ +
Sbjct: 61 ILDTAGQEEFGAMREQYMRAGHGFLLV---FAINDRQSFNEVGKLFTQILRVKDRDDF-- 115
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P ++V NK DL R V +A AS V + E S + NVDE ++ +R +
Sbjct: 116 -PVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ 174
Query: 122 S 122
Sbjct: 175 E 175
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 63.0 bits (154), Expect = 2e-12
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
P ++V NK DL+ R V + + K LA S+ F+E S + + ++ +I
Sbjct: 131 PVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIA 186
>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 = 60.6 bits (148), Expect = 1e-11
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSV-GIHHNVDELLVGILNQIR 118
P I+VANK+DL R V+ K +A + + +IE S NVD+ ++ IR
Sbjct: 125 PMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR 181
>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase;
HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A*
4dso_A*
Length = 189
Score = 60.3 bits (147), Expect = 2e-11
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
P ++V NK DL +R V ++ A++LA S+ + FIE S VD+ ++ +IR +
Sbjct: 111 PMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKE 169
Query: 123 LVQTGGAQAAAPWKSN 138
+ G + K+
Sbjct: 170 KMSKDGKKKKKKSKTK 185
>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 = 59.5 bits (145), Expect = 3e-11
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P ++V NK DL R V ++ A LA S+ + FIE S V++ ++ +IR R
Sbjct: 128 PMVLVGNKCDLP-TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYR 185
>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 = 58.7 bits (143), Expect = 5e-11
Identities = 20/56 (35%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
P ++V NK DLA R V S+ A++LA S+ + +IE S V++ ++ +IR
Sbjct: 110 PMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164
>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein
complex, effectors, signaling protein; HET: GTP; 1.90A
{Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A*
3cf6_R* 3brw_D*
Length = 167
Score = 57.5 bits (140), Expect = 1e-10
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASF-KVKFIEVSVGIHHNVDELLVGILNQIR 118
P I+V NK DL R V + +NLA + F+E S NV+E+ ++ QI
Sbjct: 110 PMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166
>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 = 58.1 bits (141), Expect = 1e-10
Identities = 32/134 (23%), Positives = 51/134 (38%), Gaps = 21/134 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVIRLHEEGYL 59
VR +W+ E++ L S D T ++V Y S+ + + + + E
Sbjct: 64 TVRLQLWDTAGLERFRSLIPSYIRDSTVAVVV---YDITNVNSFQQTTKWIDDVRTER-- 118
Query: 60 RTRPAII---VANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+I V NK DLA R VS ++ + A V FIE S +NV +L +
Sbjct: 119 --GSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA 176
Query: 117 IRLKRSLVQTGGAQ 130
+ S
Sbjct: 177 LPGMESTQDRSRED 190
>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 = 57.2 bits (139), Expect = 2e-10
Identities = 31/121 (25%), Positives = 52/121 (42%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVIRLHEEGYL 59
VR +W+ E++ L S D T ++V Y S+H+ + + + E
Sbjct: 62 TVRLQLWDTAGQERFRSLIPSYIRDSTVAVVV---YDITNTNSFHQTSKWIDDVRTER-- 116
Query: 60 RTRPAII---VANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+I V NK DL+ R VS+++ + A V FIE S +NV +L +
Sbjct: 117 --GSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA 174
Query: 117 I 117
+
Sbjct: 175 L 175
>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 = 56.9 bits (138), Expect = 3e-10
Identities = 39/150 (26%), Positives = 62/150 (41%), Gaps = 21/150 (14%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
V+ IW+ E++ +TSS G+IIV Y + S++ V+ ++ R
Sbjct: 56 TVKLQIWDTAGQERFRTITSSYYRGSHGIIIV---YDVTDQESFNGVKMWLQEIDRYATS 112
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
L+ ++V NK DL R V AK A + K+ F+E S NV++ + + Q
Sbjct: 113 TVLK----LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQ 168
Query: 117 IRLKRSLVQTGGAQAAAPWKSNTTLVRASA 146
I+ S K N L S
Sbjct: 169 IKESMSQQNLNETTQKKEDKGNVNLKGQSL 198
>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 = 57.0 bits (138), Expect = 4e-10
Identities = 38/159 (23%), Positives = 65/159 (40%), Gaps = 21/159 (13%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
+++A IW+ E+Y +TS+ G +IV Y SY ++ ++
Sbjct: 61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIV---YDISKSSSYENCNHWLSELRENADD 117
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
++ NK DLA RAV ++++K A ++ F E S NVD+ ++N
Sbjct: 118 NVAV----GLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINT 173
Query: 117 IRLKRSLVQTGGAQAAAPWKSNTTLVRASAVIVGSVDGN 155
I K S Q ++A +N I + N
Sbjct: 174 IYQKVSKHQMDLGDSSANGNANGASAPNGPTISLTPTPN 212
>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 = 56.5 bits (137), Expect = 4e-10
Identities = 33/150 (22%), Positives = 61/150 (40%), Gaps = 21/150 (14%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
+++ IW+ E+Y +T++ G I++ Y + S++ V+ I+ + +
Sbjct: 56 RIKLQIWDTAGLERYRTITTAYYRGAMGFILM---YDITNEESFNAVQDWSTQIKTYSWD 112
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
++V NK D+ R VSS+ + LA +F E S + NV + +++
Sbjct: 113 NAQV----LLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDV 168
Query: 117 IRLKRSLVQTGGAQAAAPWKSNTTLVRASA 146
I K S A K L A
Sbjct: 169 ICEKMSESLDTADPAVTGAKQGPQLTDQQA 198
>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 = 56.1 bits (136), Expect = 5e-10
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
+ +IW+ E++ L +IV Y + S++ ++ +++ E
Sbjct: 71 LHKFLIWDTAGQERFHSLAPMYYRGSAAAVIV---YDITKQDSFYTLKKWVKELKEHGPE 127
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ I NK DL+ R V +DAK A S +E S N++EL GI Q
Sbjct: 128 NIVM----AIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQ 183
Query: 117 I 117
I
Sbjct: 184 I 184
>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 = 56.0 bits (136), Expect = 5e-10
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V+ IW+ E+Y L IIV + + S+ R + Q++
Sbjct: 60 TVKFEIWDTAGQERYHSLAPMYYRGAAAAIIV---FDVTNQASFERAKKWVQELQAQGNP 116
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ + NK DL AR V+++DA+ A + F+E S NV E+ I +
Sbjct: 117 NMVM----ALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARR 172
Query: 117 I 117
+
Sbjct: 173 L 173
>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 = 55.6 bits (135), Expect = 6e-10
Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V+ IW+ E+Y L I+V Y + S+ R + +++ R
Sbjct: 54 TVKFEIWDTAGQERYHSLAPMYYRGAQAAIVV---YDITNEESFARAKNWVKELQRQASP 110
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ + NK DLA RAV Q+A++ A + F+E S NV+E+ + I +
Sbjct: 111 NIVI----ALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166
Query: 117 I 117
+
Sbjct: 167 L 167
>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 = 55.2 bits (134), Expect = 8e-10
Identities = 30/121 (24%), Positives = 55/121 (45%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
+V IW+ E++ L D G I+V Y + S+ +V+ +++ ++
Sbjct: 54 RVNLAIWDTAGQERFHALGPIYYRDSNGAILV---YDITDEDSFQKVKNWVKELRKMLGN 110
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
IV NKIDL + R VS Q+A++ A S K S + ++EL + + +
Sbjct: 111 EICL----CIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKR 166
Query: 117 I 117
+
Sbjct: 167 M 167
>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 = 54.8 bits (133), Expect = 9e-10
Identities = 24/123 (19%), Positives = 51/123 (41%), Gaps = 20/123 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHEEG 57
VR ++W+ E+++ +T + ++V + + S+ + + +
Sbjct: 53 DVRLMLWDTAGQEEFDAITKAYYRGAQACVLV---FSTTDRESFEAISSWREKVVAEVGD 109
Query: 58 YLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
+V NKIDL + +++A+ LA K++F SV NV E+ + +
Sbjct: 110 IPT----ALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 165
Query: 118 RLK 120
K
Sbjct: 166 LQK 168
>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 = 54.8 bits (133), Expect = 1e-09
Identities = 34/121 (28%), Positives = 54/121 (44%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVIRLHEEGYL 59
+ +IW+ E++ L IIV Y + ++ ++ V L + G
Sbjct: 54 LHKFLIWDTAGLERFRALAPMYYRGSAAAIIV---YDITKEETFSTLKNWVRELRQHG-- 108
Query: 60 RTRPAIIVA---NKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
P+I+VA NK DL R V +DAK+ A S F+E S N++EL + I +
Sbjct: 109 --PPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRR 166
Query: 117 I 117
I
Sbjct: 167 I 167
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 54.9 bits (133), Expect = 1e-09
Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 20/125 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHEEG 57
KV+ IW+ E++ +TS+ G+I+V Y S+ V++ I + +
Sbjct: 57 KVKLQIWDTAGQERFRTITSTYYRGTHGVIVV---YDVTSAESFVNVKRWLHEINQNCDD 113
Query: 58 YLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
R I+V NK D + V ++DA A ++ E S + NV+E+ I +
Sbjct: 114 VCR----ILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELV 169
Query: 118 RLKRS 122
+
Sbjct: 170 LRAKK 174
>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 = 54.9 bits (133), Expect = 1e-09
Identities = 22/120 (18%), Positives = 37/120 (30%), Gaps = 16/120 (13%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHEEG 57
V IW+ K+ G+++V Y S+ +E V++ E
Sbjct: 55 NVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLV---YDITNYQSFENLEDWYTVVKKVSEE 111
Query: 58 YLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
+V NKIDL R + + VS +V + +I
Sbjct: 112 SETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEI 171
>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 = 54.5 bits (132), Expect = 2e-09
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 9/82 (10%)
Query: 48 QDVIRLHEEGYLRTR-----PAIIVANKIDL--ARARAVSSQDAKNLAASFK-VKFIEVS 99
Q V R P ++V + + A R + A+ L+ K + E
Sbjct: 102 QTVYNYFLR-LCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETC 160
Query: 100 VGIHHNVDELLVGILNQIRLKR 121
NV+ + + ++ R
Sbjct: 161 ATYGLNVERVFQDVAQKVVALR 182
>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 = 54.5 bits (132), Expect = 2e-09
Identities = 27/135 (20%), Positives = 58/135 (42%), Gaps = 23/135 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
+++ IW+ E++ +T++ G+++V Y + S+ + I H
Sbjct: 56 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLV---YDITNEKSFDNIRNWIRNIEEHASA 112
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ +I+ NK D+ R VS + + LA + +KF+E S + NV+ +
Sbjct: 113 DVEK----MILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARD 168
Query: 117 I--RLKRSLVQTGGA 129
I ++ ++ T
Sbjct: 169 IKAKMDKNWKATAAG 183
>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 = 55.0 bits (133), Expect = 2e-09
Identities = 28/131 (21%), Positives = 58/131 (44%), Gaps = 14/131 (10%)
Query: 3 QSLQGHSGKVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVI 51
G + KV +W+ E++ LT++ D G +++ + + S+ V +
Sbjct: 75 NGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLM---FDLTSQQSFLNVRNWMS 131
Query: 52 RLHEEGYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLV 111
+L Y +++ NK DL R V+ + A+ LA + + + E S NV++ +
Sbjct: 132 QLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVE 191
Query: 112 GILNQIRLKRS 122
+L+ I +
Sbjct: 192 TLLDLIMKRME 202
>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 = 53.8 bits (130), Expect = 3e-09
Identities = 28/126 (22%), Positives = 57/126 (45%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
+++ IW+ E+Y +T++ G +++ Y + S+ V+ I+ + +
Sbjct: 70 RIKLQIWDTAGQERYRTITTAYYRGAMGFLLM---YDIANQESFAAVQDWATQIKTYSWD 126
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
I+V NK DL R V ++D + LA +F E S + NV ++ +++
Sbjct: 127 NAQV----ILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDV 182
Query: 117 IRLKRS 122
I K +
Sbjct: 183 ICEKMN 188
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 53.8 bits (130), Expect = 4e-09
Identities = 33/137 (24%), Positives = 61/137 (44%), Gaps = 21/137 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
++ IW+ E++ +TSS G+I+V Y + S++ V+Q ++ R E
Sbjct: 64 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVV---YDVTDQESFNNVKQWLQEIDRYASE 120
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NK DL + V AK A S + F+E S NV++ + + +
Sbjct: 121 NVNK----LLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 176
Query: 117 IRLKRSLVQTGGAQAAA 133
I+ + T G +
Sbjct: 177 IKKRMGPGATAGGAEKS 193
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 55.0 bits (132), Expect = 4e-09
Identities = 15/125 (12%), Positives = 37/125 (29%), Gaps = 15/125 (12%)
Query: 11 KVRAIIW----NEQYEKLTS---SDETGLIIVWMLYKPSYHRVEQ--DVIRLHEEGYLRT 61
+ W E + + +++ + I +
Sbjct: 97 ECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR--TDSNKHYWLRHIEKYGGK---- 150
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
P I+V NKID + + + + + +F +S V+ + + + +
Sbjct: 151 SPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPD 210
Query: 122 SLVQT 126
S+ T
Sbjct: 211 SIYGT 215
>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 = 53.4 bits (129), Expect = 5e-09
Identities = 31/124 (25%), Positives = 57/124 (45%), Gaps = 21/124 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
++ IW+ E++ +TSS G+I+V Y + S++ V+Q I + E
Sbjct: 81 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVV---YDVTDQESFNNVKQWLQEIDRYASE 137
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NK DL + V AK A S + F+E S NV++ + + +
Sbjct: 138 NVNK----LLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 193
Query: 117 IRLK 120
I+ +
Sbjct: 194 IKKR 197
>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 = 53.4 bits (129), Expect = 5e-09
Identities = 35/147 (23%), Positives = 64/147 (43%), Gaps = 23/147 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
++A IW+ E+Y ++TS+ G ++V Y +Y VE+ ++ +
Sbjct: 53 TIKAQIWDTAGQERYRRITSAYYRGAVGALLV---YDIAKHLTYENVERWLKELRDHADS 109
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NK DL RAV + +A+ A + FIE S NV+E IL +
Sbjct: 110 NIVI----MLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTE 165
Query: 117 I--RLKRSLVQTGGAQAAAPWKSNTTL 141
I + + + A +P + +
Sbjct: 166 IYRIVSQKQIADRAAHDESPGNNVVDI 192
>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 = 53.0 bits (128), Expect = 6e-09
Identities = 27/126 (21%), Positives = 55/126 (43%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
KV+ +W+ E++ +T + D L+++ Y K S+ ++ I + +
Sbjct: 59 KVKLQMWDTAGQERFRSVTHAYYRDAHALLLL---YDVTNKASFDNIQAWLTEIHEYAQH 115
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+++ NK+D A R V +D + LA + + F+E S NVD I +
Sbjct: 116 DVAL----MLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKE 171
Query: 117 IRLKRS 122
++ +
Sbjct: 172 LKRRSM 177
>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 = 53.0 bits (128), Expect = 6e-09
Identities = 32/121 (26%), Positives = 54/121 (44%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
++A IW+ E+Y +TS+ G ++V Y +Y VE+ ++ +
Sbjct: 77 TIKAQIWDTAGLERYRAITSAYYRGAVGALLV---YDIAKHLTYENVERWLKELRDHADS 133
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NK DL RAV + +A+ A + FIE S NV+ IL +
Sbjct: 134 NIVI----MLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTE 189
Query: 117 I 117
I
Sbjct: 190 I 190
>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 = 53.0 bits (128), Expect = 8e-09
Identities = 28/126 (22%), Positives = 59/126 (46%), Gaps = 16/126 (12%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVIRLHEEGYL 59
++ +W+ E++ LT++ D G +++ + + S+ V + +L Y
Sbjct: 69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLL---FDLTNEQSFLNVRNWISQLQMHAYS 125
Query: 60 RTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI-- 117
++ NK DL RAV ++A+ LA + + + E S N+ + +L+ I
Sbjct: 126 ENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMK 185
Query: 118 RLKRSL 123
R++RS+
Sbjct: 186 RMERSV 191
>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural
genomics, structural genomics consortium, SGC, protein
transport; HET: GDP; 2.30A {Homo sapiens}
Length = 193
Score = 52.6 bits (127), Expect = 9e-09
Identities = 33/126 (26%), Positives = 60/126 (47%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
V+A IW+ E+Y +TS+ G ++V + +Y VE+ ++ E
Sbjct: 73 AVKAQIWDTAGLERYRAITSAYYRGAVGALLV---FDLTKHQTYAVVERWLKELYDHAEA 129
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NK DL++AR V +++A+ A + + F+E S NV+ +L +
Sbjct: 130 TIVV----MLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKE 185
Query: 117 IRLKRS 122
I K S
Sbjct: 186 IFAKVS 191
>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 = 52.2 bits (126), Expect = 1e-08
Identities = 27/124 (21%), Positives = 54/124 (43%), Gaps = 21/124 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
+V+ IW+ E+Y +T++ G I++ Y + S++ V+ I+ + +
Sbjct: 71 RVKLQIWDTAGQERYRTITTAYYRGAMGFILM---YDITNEESFNAVQDWATQIKTYSWD 127
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
I+V NK D+ R V ++ + LA F E S + +V + +++
Sbjct: 128 NAQV----ILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDA 183
Query: 117 IRLK 120
I K
Sbjct: 184 ICDK 187
>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 = 52.2 bits (126), Expect = 1e-08
Identities = 28/121 (23%), Positives = 52/121 (42%), Gaps = 21/121 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
K++ IW+ E++ +T S G ++V Y + +Y+ + D L
Sbjct: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMV---YDITRRSTYNHLSSWLTDARNLTNP 119
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ I++ NK DL R V+ ++AK A + F+E S NV++ + +
Sbjct: 120 NTVI----ILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKK 175
Query: 117 I 117
I
Sbjct: 176 I 176
>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 = 51.9 bits (125), Expect = 2e-08
Identities = 29/126 (23%), Positives = 49/126 (38%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V+ IW+ E++ +T S G ++V Y + +Y+ + D L
Sbjct: 73 TVKLQIWDTAGQERFRSVTRSYYRGAAGALLV---YDITSRETYNSLAAWLTDARTLASP 129
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ I+ NK DL R V+ +A A ++ F+E S NV+E +
Sbjct: 130 NIVV----ILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCART 185
Query: 117 IRLKRS 122
I K
Sbjct: 186 ILNKID 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 = 51.9 bits (125), Expect = 2e-08
Identities = 29/126 (23%), Positives = 56/126 (44%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
KV+ IW+ E++ +T S LI+ Y + S+ + + I +
Sbjct: 74 KVKLQIWDTAGQERFRSITQSYYRSANALILT---YDITCEESFRCLPEWLREIEQYASN 130
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ ++V NKIDLA R VS Q A+ + + + ++E S NV++L + + +
Sbjct: 131 KVIT----VLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACR 186
Query: 117 IRLKRS 122
+ +
Sbjct: 187 LISEAR 192
>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular
transport, endocytosis, prenylation, protein transport,
transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8
PDB: 2bmd_A* 1yu9_A* 1z0k_A*
Length = 186
Score = 51.0 bits (123), Expect = 3e-08
Identities = 30/126 (23%), Positives = 51/126 (40%), Gaps = 21/126 (16%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V+ IW+ E++ +T S G ++V Y + +Y+ + D L +
Sbjct: 58 YVKLQIWDTAGQERFRSVTRSYYRGAAGALLV---YDITSRETYNALTNWLTDARMLASQ 114
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+ I+ NK DL R V+ +A A ++ F+E S NV+E V +
Sbjct: 115 NIVI----ILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARK 170
Query: 117 IRLKRS 122
I K
Sbjct: 171 ILNKIE 176
>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 = 50.7 bits (122), Expect = 4e-08
Identities = 15/58 (25%), Positives = 26/58 (44%)
Query: 65 IIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRS 122
+++ NK DL R V ++ + A + F+E S NV+E + +I K
Sbjct: 130 MLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQ 187
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 50.6 bits (121), Expect = 5e-08
Identities = 23/130 (17%), Positives = 48/130 (36%), Gaps = 24/130 (18%)
Query: 2 NQSLQGHSGKVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDV 50
+ + + ++ IW+ E+Y + T I+V + + R +
Sbjct: 83 HNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVV---FDISNSNTLDRAKT-- 137
Query: 51 IRLHEEGYLRTRPAII---VANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVD 107
+++ L+ I VANKID + V + + A + FI+ S N+
Sbjct: 138 -WVNQ---LKISSNYIIILVANKIDKNK-FQVDILEVQKYAQDNNLLFIQTSAKTGTNIK 192
Query: 108 ELLVGILNQI 117
+ + +I
Sbjct: 193 NIFYMLAEEI 202
>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 = 49.9 bits (120), Expect = 7e-08
Identities = 29/124 (23%), Positives = 56/124 (45%), Gaps = 22/124 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
KV+ IW+ E++ +T++ G+I+V Y + ++ ++Q + H +
Sbjct: 51 KVKLQIWDTAGQERFRTITTAYYRGAMGIILV---YDITDERTFTNIKQWFKTVNEHAND 107
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
++V NK D+ R V++ + LA + FIE S NV+E+ +
Sbjct: 108 EAQL----LLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKL 162
Query: 117 IRLK 120
I+ K
Sbjct: 163 IQEK 166
>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 = 49.9 bits (120), Expect = 7e-08
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 65 IIVANKIDLARARAVSSQDAKNLAASFKVKFIEVS---VGIHHNVDELLVGILNQI 117
I+V NK DL A V + A+ A + + E S + +V+ + + + +++
Sbjct: 131 ILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186
>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 = 49.9 bits (120), Expect = 7e-08
Identities = 27/128 (21%), Positives = 49/128 (38%), Gaps = 15/128 (11%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQDVIRLHEEGYL 59
K + IW+ E++ LT S G+I+V Y + ++ +++ + L
Sbjct: 63 KAKLAIWDTAGQERFRTLTPSYYRGAQGVILV---YDVTRRDTFVKLDNWLNELETYCTR 119
Query: 60 RTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRL 119
++V NKID R V + A + FIE S V ++ +I
Sbjct: 120 NDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ 178
Query: 120 KRSLVQTG 127
L ++
Sbjct: 179 TPGLWESE 186
>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 = 50.4 bits (121), Expect = 7e-08
Identities = 17/138 (12%), Positives = 45/138 (32%), Gaps = 21/138 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
++ +W+ E+ L +G I+ + + + + ++ +
Sbjct: 60 VIKFNVWDTAGQEKKAVLKDVYYIGASGAILF---FDVTSRITCQNLARWVKEFQAVVGN 116
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
P ++ ANKID+ + +S + + ++ E+S HN + +
Sbjct: 117 EA----PIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARI 172
Query: 117 IRLKRSLVQTGGAQAAAP 134
+ L+
Sbjct: 173 FTGRPDLIFVSNVNLEPT 190
>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 = 49.6 bits (119), Expect = 1e-07
Identities = 29/125 (23%), Positives = 57/125 (45%), Gaps = 22/125 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ---DVIRLHEE 56
+V+ IW+ E++ +T S G I+ Y + S+ V DV +
Sbjct: 77 RVKLQIWDTAGQERFRTITQSYYRSANGAILA---YDITKRSSFLSVPHWIEDVRKYAGS 133
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVK-FIEVSVGIHHNVDELLVGILN 115
++ +++ NK DL+ R VS +A++LA + + IE S NV+E + +
Sbjct: 134 NIVQ----LLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVAT 189
Query: 116 QIRLK 120
++ ++
Sbjct: 190 ELIMR 194
>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 = 49.6 bits (119), Expect = 1e-07
Identities = 22/129 (17%), Positives = 52/129 (40%), Gaps = 25/129 (19%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHEEG 57
+ +W+ E++ + S G++++ Y + S+ + + D+I
Sbjct: 76 RTVLQLWDTAGQERFRSIAKSYFRKADGVLLL---YDVTCEKSFLNIREWVDMIEDAAH- 131
Query: 58 YLRTRPAIIVANKIDLARA------RAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLV 111
T P ++V NK D+ + V + LA ++ F E S N+ E ++
Sbjct: 132 --ETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVL 189
Query: 112 GILNQIRLK 120
+ +++ +
Sbjct: 190 HLAREVKKR 198
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 49.2 bits (118), Expect = 1e-07
Identities = 23/124 (18%), Positives = 45/124 (36%), Gaps = 20/124 (16%)
Query: 11 KVRAIIWN------EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHE 55
V ++ + Y++ S I+V + S+ + ++++
Sbjct: 70 TVSVELFLLDTAGSDLYKEQISQYWNGVYYAILV---FDVSSMESFESCKAWFELLKSAR 126
Query: 56 EGYLRTRPAIIVANKIDLARAR-AVSSQDAKNLAASFKVKFIEVSVGIH-HNVDELLVGI 113
R A++VANK DL R V A++ A + + F +VS + D + I
Sbjct: 127 PDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSI 186
Query: 114 LNQI 117
Sbjct: 187 ATTF 190
>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 = 49.1 bits (118), Expect = 2e-07
Identities = 30/125 (24%), Positives = 58/125 (46%), Gaps = 22/125 (17%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
K+R IW+ E++ +TS+ G+I+V Y K ++ + + +I + E
Sbjct: 74 KIRLQIWDTAGQERFNSITSAYYRSAKGIILV---YDITKKETFDDLPKWMKMIDKYASE 130
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDELLVGILN 115
++V NK+D R ++ Q + A ++F E S + NVDE+ + +++
Sbjct: 131 DAEL----LLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVD 186
Query: 116 QIRLK 120
I K
Sbjct: 187 DILKK 191
>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 = 49.6 bits (118), Expect = 2e-07
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
P ++V K D R + L + ++ +E S + NVD ++ I
Sbjct: 200 PIVVVLTKCDEGVERYIRDAHTFAL-SKKNLQVVETSARSNVNVDLAFSTLVQLID 254
>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 = 48.5 bits (116), Expect = 3e-07
Identities = 29/138 (21%), Positives = 58/138 (42%), Gaps = 22/138 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLH-EE 56
KV+ +W+ E++ +T++ G+I+V Y + ++ ++Q + H +
Sbjct: 68 KVKLQLWDTAGQERFRTITTAYYRGAMGIILV---YDVTDERTFTNIKQWFKTVNEHAND 124
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
++V NK D+ R V++ + LA + FIE S NV+E+ +
Sbjct: 125 EAQL----LLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKL 179
Query: 117 IRLKRSLVQTGGAQAAAP 134
I+ K + G
Sbjct: 180 IQEKIDSNKLVGVGNGKE 197
>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 = 45.3 bits (108), Expect = 3e-06
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASF-KVKFIEVSVGIHHNVDELLVGILNQIRLKR 121
+ ++I + R V A+ L A + + E NVD + + ++ R
Sbjct: 112 ALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLR 171
>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 = 44.5 bits (106), Expect = 5e-06
Identities = 24/118 (20%), Positives = 44/118 (37%), Gaps = 19/118 (16%)
Query: 16 IWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEEGYLRT 61
+W+ E+++ L + ++V Y S+ ++ + + T
Sbjct: 62 VWDTAGQERFQSLGVAFYRGADCCVLV---YDVTNASSFENIKSWRDEFLVHANVNSPET 118
Query: 62 RPAIIVANKIDLARA-RAVSSQDAKNLAASF-KVKFIEVSVGIHHNVDELLVGILNQI 117
P +I+ NKID + + VS + A+ LA S + S NVD I
Sbjct: 119 FPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 176
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 44.8 bits (106), Expect = 1e-05
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 48 QDVIRLHEE--GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHN 105
++ I L EE G + P ++V NKID+A + + + + I++S
Sbjct: 265 EEQIHLFEEVHGEFKDLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTG 322
Query: 106 VDELLVGILNQIR 118
+D + I+ +R
Sbjct: 323 IDLVKEEIIKTLR 335
>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 = 43.6 bits (103), Expect = 1e-05
Identities = 30/121 (24%), Positives = 55/121 (45%), Gaps = 12/121 (9%)
Query: 11 KVRAIIWN----EQYEKLTS---SDETGLIIVW-MLYKPSYHRVEQDVIRLHEEGYLRTR 62
V+ IW+ E++ L + ++V+ + S+ + V LHE+ +
Sbjct: 51 TVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS-KDI 109
Query: 63 PAIIVANKIDLARA---RAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRL 119
+V NKID + R V+ ++ + LA + F E S NV+++ +GI +I L
Sbjct: 110 IIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169
Query: 120 K 120
K
Sbjct: 170 K 170
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 44.7 bits (105), Expect = 1e-05
Identities = 39/216 (18%), Positives = 69/216 (31%), Gaps = 59/216 (27%)
Query: 5 LQGHSGKVRAIIWNEQYEKLTSSD-ETGLIIVWMLYKP--SYHRVEQDVIRLHEEGYLRT 61
+ +S R + L+ E L++ P S+ Q L E+ + +
Sbjct: 1 MDAYS--TRPLT-------LSHGSLEHVLLV------PTASFFIASQ----LQEQ-FNKI 40
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFKVKFI--EVSVGIHHNVDELLVGILNQIR- 118
P A ++ L F + ++ V D++L L +
Sbjct: 41 LPE----PTEGFAADDEPTTP--AELVGKF-LGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 119 --LKR----SLVQTGGAQAAAPWKSNTTLVRASAVIVGSVDGNRIWGKEFKK--TSMLGV 170
L+ +L A +++TTLV+ +I + + + F K S L
Sbjct: 94 CYLEGNDIHALA------AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL-F 146
Query: 171 QWTSDSQNLLFAIKGGQ----------VHLYD-YEG 195
+ + L AI GGQ LY Y
Sbjct: 147 RAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Score = 30.8 bits (69), Expect = 0.41
Identities = 31/140 (22%), Positives = 56/140 (40%), Gaps = 49/140 (35%)
Query: 7 GHS-GKVRAIIWNEQYEKLTS-----SDETGLIIVWMLYKPSYHR--VEQDVIRLHEEGY 58
GHS G E Y L S S E+ + +V ++R Q + E G
Sbjct: 1761 GHSLG--------E-YAALASLADVMSIESLVEVV-------FYRGMTMQVAVPRDELG- 1803
Query: 59 LRTRPAIIVANKIDLARARAVSSQDA-KNLAASFKVK---FIEVSVGIHHNVD------- 107
R+ +I A I+ R A SQ+A + + + +E+ +++NV+
Sbjct: 1804 -RSNYGMI-A--INPGRVAASFSQEALQYVVERVGKRTGWLVEI---VNYNVENQQYVAA 1856
Query: 108 ------ELLVGILNQIRLKR 121
+ + +LN I+L++
Sbjct: 1857 GDLRALDTVTNVLNFIKLQK 1876
Score = 30.4 bits (68), Expect = 0.62
Identities = 46/294 (15%), Positives = 92/294 (31%), Gaps = 118/294 (40%)
Query: 1 MNQSLQGHSGKVRAII----------WNEQYEKLTSSDETGLIIVWMLY----------- 39
+ L+G +G + ++ W + + I + +
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK------AITVLFFIGVRCYEAYPN 316
Query: 40 ---KPSYHRVEQDVIRLHEEGYLRTRPAIIVANKIDLARARAVSSQDAKN--LAASFKVK 94
PS + +D + + EG P + + +L + + + N L A +
Sbjct: 317 TSLPPS---ILEDSLE-NNEG--VPSPMLSI---SNLTQEQVQDYVNKTNSHLPAGKQ-- 365
Query: 95 FIEVSV--GIHHNV----DELLVGILNQIRLKRSLVQTGGAQA----------------- 131
+E+S+ G + V + L G LN + L+++ +G Q+
Sbjct: 366 -VEISLVNGAKNLVVSGPPQSLYG-LN-LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP 422
Query: 132 -AAPWKSNTTLVRASAVIVGSVDGN--RIWGKEFK---------------KTSMLG---- 169
A+P+ S+ LV AS +I + N K+ + S+
Sbjct: 423 VASPFHSH-LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD 481
Query: 170 ------VQWTSDSQNLLFAIKGGQVHLYDYEGNFMNKVSMWSGPGSEMGEIAAL 217
V+W + + H+ D+ GPG G + L
Sbjct: 482 CIIRLPVKWET-------TTQFKATHILDF------------GPGGASG-LGVL 515
>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 = 42.9 bits (102), Expect = 2e-05
Identities = 21/122 (17%), Positives = 46/122 (37%), Gaps = 19/122 (15%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V IW+ E++ L + ++ + S+ + ++ I +
Sbjct: 55 FVTMQIWDTAGQERFRSLRTPFYRGSDCCLLT---FSVDDSQSFQNLSNWKKEFIYYADV 111
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAAS-FKVKFIEVSVGIHHNVDELLVGILN 115
+ P +I+ NKID++ R VS+++A+ + E S NV +
Sbjct: 112 KEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR 170
Query: 116 QI 117
++
Sbjct: 171 RV 172
>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 = 43.0 bits (102), Expect = 2e-05
Identities = 18/134 (13%), Positives = 46/134 (34%), Gaps = 17/134 (12%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVE---QDVIRLHEE 56
V IW+ E+++ L + ++V + ++ ++ + +
Sbjct: 56 LVTMQIWDTAGQERFQSLGVAFYRGADCCVLV---FDVTAPNTFKTLDSWRDEFLIQASP 112
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
P +++ NKIDL + + + + + + E S NV++ I
Sbjct: 113 RDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARN 172
Query: 117 IRLKRSLVQTGGAQ 130
+ + V+
Sbjct: 173 ALKQETEVELYNEF 186
>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 = 42.7 bits (101), Expect = 3e-05
Identities = 18/138 (13%), Positives = 50/138 (36%), Gaps = 22/138 (15%)
Query: 10 GKVRAIIWN----EQYEKLTSS---DETGLIIVWMLY----KPSYHRVEQ--DVIRLHEE 56
G ++ +W+ E++ L II+ + + +Y V + E
Sbjct: 62 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM---FDVTSRVTYKNVPNWHRDLVRVCE 118
Query: 57 GYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
P ++ NK+D+ + + + +++ ++S ++N ++ + + +
Sbjct: 119 NI----PIVLCGNKVDIKDRKVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARK 172
Query: 117 IRLKRSLVQTGGAQAAAP 134
+ +L A P
Sbjct: 173 LIGDPNLEFVAMPALAPP 190
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 39.0 bits (91), Expect = 6e-04
Identities = 10/68 (14%), Positives = 23/68 (33%), Gaps = 5/68 (7%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFK-----VKFIEVSVGIHHNVDELLVGI 113
+ +I NKID ++S + + +KF S V++ +
Sbjct: 140 FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITA 199
Query: 114 LNQIRLKR 121
++ +
Sbjct: 200 CELLKNDQ 207
>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
Length = 342
Score = 39.1 bits (92), Expect = 8e-04
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
L RP IIVANK+D+ A + L + V +S + ELL + NQ+
Sbjct: 272 LTERPQIIVANKMDMPEAAENLEAFKEKLTDDYPV--FPISAVTREGLRELLFEVANQLE 329
>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
Length = 416
Score = 39.1 bits (92), Expect = 8e-04
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
L RP+++ NK+DL AV + + A + + VS + L + +R
Sbjct: 267 LLRRPSLVALNKVDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALVR 324
>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 = 36.2 bits (84), Expect = 0.004
Identities = 16/126 (12%), Positives = 38/126 (30%), Gaps = 23/126 (18%)
Query: 11 KVRAIIWN----EQYEKLTSS---DETGLIIVW--MLYKPSYHRVEQ--DVIRLHEEGYL 59
+ +W+ E++ + V+ + ++ I+
Sbjct: 55 DLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASS-- 112
Query: 60 RTRPAIIVANKIDLARAR---AVSSQDAKNLAASFKVKFI-----EVSVGIHHNVDELLV 111
P I+V +D++ + A S+ K L I + + +L
Sbjct: 113 --SPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRK 170
Query: 112 GILNQI 117
I+N+
Sbjct: 171 TIINES 176
>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 = 35.4 bits (82), Expect = 0.008
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 63 PAIIVANKIDLA--RARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
++V K+DL + V+ Q+ +L V +IE S ++E+
Sbjct: 129 KTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEV 178
>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 = 35.0 bits (81), Expect = 0.012
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 9/56 (16%)
Query: 63 PAIIVANKIDL--------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
P ++V K+DL ++S + L +IE S NV +
Sbjct: 115 PIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAV 170
>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*
Length = 482
Score = 34.1 bits (79), Expect = 0.036
Identities = 7/59 (11%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
++ + ++V NK+D+ +++ +++S +++L I +
Sbjct: 348 IKNKRYLVVINKVDVVEK---INEEEIKNKLGTDRHMVKISALKGEGLEKLEESIYRET 403
>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*
Length = 476
Score = 34.1 bits (79), Expect = 0.038
Identities = 18/98 (18%), Positives = 41/98 (41%), Gaps = 9/98 (9%)
Query: 21 YEKLTSSDETGLIIVWMLYKPSYHRVEQDVIRLHE-EGYLRTRPAIIVANKIDLARARAV 79
K+ +D +I+++L R++ ++ + E + + VANK+D A A
Sbjct: 307 RMKMAEAD----LILYLL-DLGTERLDDELTEIRELKAAHPAAKFLTVANKLDRA---AN 358
Query: 80 SSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
+ + +A + I +S +D L + + +
Sbjct: 359 ADALIRAIADGTGTEVIGISALNGDGIDTLKQHMGDLV 396
>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}
Length = 462
Score = 32.9 bits (76), Expect = 0.081
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDEL 109
++ RP I+V NKIDL + ++S + + + + +D L
Sbjct: 328 VKHRPLILVMNKIDLVEKQLITSLEYPENIT----QIVHTAAAQKQGIDSL 374
>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 = 32.0 bits (73), Expect = 0.097
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 63 PAIIVANKIDL----------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
P ++V K+DL A +++ + L +IE S NV +
Sbjct: 114 PIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGV 171
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.5 bits (70), Expect = 0.13
Identities = 9/54 (16%), Positives = 17/54 (31%), Gaps = 26/54 (48%)
Query: 19 EQYEKLTSSDETGLIIVWMLYKPSYHRVEQDVIRLHEEGYLRTRPAIIVANKID 72
+ +KL +S L LY D + PA+ + ++
Sbjct: 20 QALKKLQAS----L----KLYAD-------D-----------SAPALAIKATME 47
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 31.9 bits (73), Expect = 0.15
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 7/65 (10%)
Query: 47 EQDVI-RLHEEGYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHN 105
E DV+ E P ++V NKID+ +A + + ++ K + VS
Sbjct: 129 EDDVVNLFKE----MEIPFVVVVNKIDVLGEKA--EELKGLYESRYEAKVLLVSALQKKG 182
Query: 106 VDELL 110
D++
Sbjct: 183 FDDIG 187
>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
Length = 172
Score = 31.0 bits (71), Expect = 0.17
Identities = 12/98 (12%), Positives = 33/98 (33%), Gaps = 12/98 (12%)
Query: 21 YEKLTSSDETGLIIVWML-YKPSYHRVEQDVIRLHEEGYLRTRPAIIVANKIDLARARAV 79
++++ +D +++M+ + ++ P +V NK D+
Sbjct: 78 WQEIEQAD----RVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADI------ 127
Query: 80 SSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQI 117
+ + ++ I +S VD L + +
Sbjct: 128 -TGETLGMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 164
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 31.2 bits (71), Expect = 0.17
Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 24/111 (21%)
Query: 19 EQYEKL--TSSDETGLIIVW--MLYKPSYHRVEQ---DVIRLHEEGYLRTRPAIIVANKI 71
++++KL T + ++ ++ S+ V + IR H P I+V +
Sbjct: 79 DEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKA----PIILVGTQS 134
Query: 72 DL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
DL + + V + AK LA K +IE S N+ E+
Sbjct: 135 DLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEV 185
>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 = 32.1 bits (72), Expect = 0.19
Identities = 34/217 (15%), Positives = 64/217 (29%), Gaps = 74/217 (34%)
Query: 19 EQYEKLT----SSD--ETGLIIVWMLYKPSYHRVEQDVIRLHEEGYLRTRPAIIVANKID 72
+ +++L+ S+ L ++W + V V +LH
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIW--FDVIKSDVMVVVNKLH--------------KYSL 416
Query: 73 LARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLKRSLVQTGGAQAA 132
+ + K E ++ I EL V + N+ L RS+V
Sbjct: 417 VEK-------QPK-----------ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 133 APWKSNTTLVRASAVIVGSVDG---NRIWGKEFKKTSMLGVQWTSDSQNLLFAIKGGQVH 189
+D + I G K + LF
Sbjct: 459 FDSDDLIPP---------YLDQYFYSHI-GHHLKNIEH-------PERMTLFR------M 495
Query: 190 LY-DYEGNFM-NKV----SMWSGPGSEMGEIAALKYY 220
++ D+ F+ K+ + W+ GS + + LK+Y
Sbjct: 496 VFLDF--RFLEQKIRHDSTAWNASGSILNTLQQLKFY 530
>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 = 30.9 bits (70), Expect = 0.24
Identities = 9/65 (13%), Positives = 22/65 (33%), Gaps = 13/65 (20%)
Query: 58 YLRTRPAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHH 104
Y P +++ +IDL + + + + + LA ++E S
Sbjct: 119 YAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQK 178
Query: 105 NVDEL 109
+ +
Sbjct: 179 GLKTV 183
>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 = 30.5 bits (69), Expect = 0.27
Identities = 20/117 (17%), Positives = 44/117 (37%), Gaps = 26/117 (22%)
Query: 16 IWN----EQYEKLT--SSDETGLIIVW--MLYKPSYHRVEQDVIRLHEE--GYLRTRPAI 65
+W+ E Y++L S +T + ++ ++ S+ V + + E + P I
Sbjct: 57 LWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRA---KWYPEVRHHCPNTPII 113
Query: 66 IVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
+V K+DL + ++ +A VK++E S + +
Sbjct: 114 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTV 170
>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 = 30.1 bits (68), Expect = 0.40
Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 13/65 (20%)
Query: 58 YLRTRPAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHH 104
+ P I+V K+DL + ++ +A VK++E S
Sbjct: 131 HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 190
Query: 105 NVDEL 109
+ +
Sbjct: 191 GLKTV 195
>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 = 30.1 bits (68), Expect = 0.42
Identities = 24/117 (20%), Positives = 46/117 (39%), Gaps = 26/117 (22%)
Query: 16 IWN----EQYEKLT--SSDETGLIIVW--MLYKPSYHRVEQDVIRLHEE--GYLRTRPAI 65
+W+ E Y++L S +T +I++ + S + + + E + P I
Sbjct: 77 LWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPE---KWVPEVKHFCPNVPII 133
Query: 66 IVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
+VANK DL + V + D + +A + ++E S V E+
Sbjct: 134 LVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREV 190
>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 = 30.1 bits (68), Expect = 0.44
Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 13/60 (21%)
Query: 63 PAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
P I+V K DL V+ + +A S V ++E S +H NV +
Sbjct: 140 PIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAV 199
>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane
G-proteins, cell membrane, ION transport, transmembrane;
HET: GDP; 2.20A {Methanocaldococcus jannaschii}
Length = 188
Score = 29.8 bits (68), Expect = 0.49
Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLK 120
++ NK+DLA++ + D L VK + +S ++EL I ++ K
Sbjct: 112 GANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAVKDK 170
Query: 121 RSL 123
++
Sbjct: 171 KTA 173
>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved
in replication initiation, csgid, IDP90222; HET: DGI;
1.80A {Bacillus anthracis str}
Length = 368
Score = 30.3 bits (68), Expect = 0.54
Identities = 13/75 (17%), Positives = 21/75 (28%), Gaps = 6/75 (8%)
Query: 56 EGYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFK------VKFIEVSVGIHHNVDEL 109
++ ++V NK DL + + S K +S + EL
Sbjct: 91 HRFVGNNKVLLVGNKADLIPKSVKHDKVKHWMRYSAKQLGLKPEDVFLISAAKGQGIAEL 150
Query: 110 LVGILNQIRLKRSLV 124
I K V
Sbjct: 151 ADAIEYYRGGKDVYV 165
>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 = 29.7 bits (67), Expect = 0.54
Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 13/60 (21%)
Query: 63 PAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDEL 109
P I+V NK DL + V S++ +++A ++E S V E+
Sbjct: 131 PIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREV 190
>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*
Length = 272
Score = 29.6 bits (67), Expect = 0.72
Identities = 10/62 (16%), Positives = 19/62 (30%), Gaps = 1/62 (1%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLK 120
P I N ID+ + + L+ V + S VD+++ +
Sbjct: 107 GIPVTIALNMIDVLDGQGKKI-NVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHTTTST 165
Query: 121 RS 122
Sbjct: 166 VG 167
>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
Length = 258
Score = 29.2 bits (66), Expect = 1.0
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 1/62 (1%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLK 120
+ I+ ID A+ + D L + + S ++EL I+ +
Sbjct: 110 EKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQKN 168
Query: 121 RS 122
Sbjct: 169 TI 170
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 29.2 bits (66), Expect = 1.0
Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 1/64 (1%)
Query: 59 LRTRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIR 118
+ + I+V NK DL + + D K + V I + V+EL I
Sbjct: 107 MEVKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVEELKRMIALMAE 165
Query: 119 LKRS 122
K +
Sbjct: 166 GKVT 169
>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
Length = 397
Score = 29.2 bits (66), Expect = 1.1
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 47 EQDVIRLHEEGYLRTRPAIIVANKIDLA 74
+ D++ E +P +I ANK D A
Sbjct: 200 QDDLLAFASEIRRVNKPMVIAANKADAA 227
>4aez_A CDC20, WD repeat-containing protein SLP1; cell cycle, KEN-BOX,
D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}
Length = 401
Score = 29.1 bits (66), Expect = 1.2
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 3 QSLQGHSGKVRAIIWNEQYEKLTSSDETGLIIVW 36
+++ GH +V + WN L+S +G I
Sbjct: 170 RTMAGHQARVGCLSWNRHV--LSSGSRSGAIHHH 201
>2xyi_A Probable histone-binding protein CAF1; transcription, repressor,
phosphoprotein, WD-repeat; HET: PG4; 1.75A {Drosophila
melanogaster} PDB: 3c99_A 3c9c_A 2yb8_B 2yba_A 2xu7_A*
3gfc_A 3cfs_B 3cfv_B
Length = 430
Score = 29.3 bits (66), Expect = 1.2
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 3 QSLQGHSGKVRAIIWNEQYEK-LTSSDETGLIIVW 36
L+GH + + WN L S+ + I +W
Sbjct: 175 LRLRGHQKEGYGLSWNPNLNGYLLSASDDHTICLW 209
Score = 27.0 bits (60), Expect = 5.7
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 5 LQGHSGKVRAIIWNEQYEKL---TSSDETGLIIVWMLYKPSYHRVEQDV 50
GH+ K+ WN + S D + VW + + Y+ E ++
Sbjct: 374 HGGHTAKISDFSWNPNEPWIICSVSEDNI--MQVWQMAENVYNDEEPEI 420
>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}
Length = 256
Score = 28.8 bits (65), Expect = 1.2
Identities = 12/63 (19%), Positives = 27/63 (42%), Gaps = 1/63 (1%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQIRLK 120
+P ++ N +D+A R +S D + L + I + + + L +L+ +
Sbjct: 110 GKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQSLLHCSQKI 168
Query: 121 RSL 123
+ L
Sbjct: 169 KPL 171
>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*
Length = 165
Score = 28.6 bits (65), Expect = 1.3
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELL 110
++ NK+DLA++ + D L VK + +S ++EL
Sbjct: 108 GANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELK 156
>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}
Length = 302
Score = 28.3 bits (64), Expect = 1.9
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 11/61 (18%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKV------KFIEVSVGIHHNVDELLVGILNQ 116
+IV NKIDL ++ ++ K L + ++VS +DEL+ +
Sbjct: 112 EPVIVFNKIDL-----LNEEEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLEGF 166
Query: 117 I 117
I
Sbjct: 167 I 167
>2y53_A Aldehyde dehydrogenase (BOX pathway); oxidoreductase, NADP,
nucleotide-binding; HET: NAP; 1.40A {Burkholderia
xenovorans LB400} PDB: 2y52_A 2y51_A 2vro_A* 2y5d_A*
Length = 534
Score = 28.8 bits (65), Expect = 1.9
Identities = 10/71 (14%), Positives = 26/71 (36%), Gaps = 17/71 (23%)
Query: 172 WTSDSQN---LLFAIKGGQVHLYDYEGNFMNKVSMW--------------SGPGSEMGEI 214
+++D + L + ++ + + + +G G E+G +
Sbjct: 444 YSNDDAHLGRLALELADSHGRVHAISPSVQHSQTGHGNVMPMSLHGGPGRAGGGEELGGL 503
Query: 215 AALKYYLNRTS 225
AL +Y R++
Sbjct: 504 RALAFYHRRSA 514
>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 = 28.4 bits (63), Expect = 1.9
Identities = 11/59 (18%), Positives = 20/59 (33%), Gaps = 13/59 (22%)
Query: 63 PAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDE 108
P I+V K+DL + ++ +A VK++E S +
Sbjct: 261 PIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKT 319
>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*
Length = 274
Score = 28.4 bits (64), Expect = 2.0
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 61 TRPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELL 110
P I+ N +D+A + + + L+A I + ++ L
Sbjct: 112 GIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVSTRGRGIEALK 160
>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
Length = 364
Score = 28.0 bits (63), Expect = 2.8
Identities = 11/60 (18%), Positives = 17/60 (28%), Gaps = 4/60 (6%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKVKFIEVSVGI----HHNVDELLVGILNQIR 118
P ++ NKID D + I + I N++ L I
Sbjct: 294 PILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLAT 353
>1vlu_A Gamma-glutamyl phosphate reductase; YOR323C, structural GENO
JCSG, protein structure initiative, PSI, joint center
for S genomics; 2.29A {Saccharomyces cerevisiae} SCOP:
c.82.1.1
Length = 468
Score = 28.0 bits (63), Expect = 2.9
Identities = 13/30 (43%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASF 91
AI ANKIDLA A+ LA S
Sbjct: 53 AHAIEEANKIDLAVAK------ETGLADSL 76
>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
Length = 301
Score = 27.8 bits (63), Expect = 3.0
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFK-VKFIEVSVGIHHNVDELL 110
P I+ NK+D + +A + LA+ + + +S NVD +
Sbjct: 117 APVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIA 166
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 28.0 bits (62), Expect = 3.1
Identities = 11/75 (14%), Positives = 22/75 (29%), Gaps = 6/75 (8%)
Query: 56 EGYLRTRPAIIVANKIDLARARAVSSQDAKNLAASFK------VKFIEVSVGIHHNVDEL 109
+ P ++V NK DL + + + + V VS + ++
Sbjct: 93 PRFAADNPILLVGNKADLLPRSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKV 152
Query: 110 LVGILNQIRLKRSLV 124
+ I V
Sbjct: 153 MEAINRYREGGDVYV 167
>3f3f_A Nucleoporin SEH1; structural protein, protein complex, nucleopori
complex, nuclear pore complex, macromolecular assembly,
MEM coat; 2.90A {Saccharomyces cerevisiae} PDB: 3f3g_A
3f3p_A 3ewe_A
Length = 351
Score = 27.6 bits (62), Expect = 3.2
Identities = 10/33 (30%), Positives = 13/33 (39%), Gaps = 8/33 (24%)
Query: 3 QSLQGHSGKVRAIIWNEQYEKLTSSDETGLIIV 35
S + H + AI W +S E G II
Sbjct: 51 DSWRAHDSSIVAIDW--------ASPEYGRIIA 75
>1o20_A Gamma-glutamyl phosphate reductase; TM0293, structural genom
JCSG, PSI, protein structure initiative, joint center
for S genomics; 2.00A {Thermotoga maritima} SCOP:
c.82.1.1
Length = 427
Score = 27.9 bits (63), Expect = 3.5
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 62 RPAIIVANKIDLARARA 78
R I+ AN+ID+ +AR
Sbjct: 53 RKEILEANRIDVEKARE 69
>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
Length = 307
Score = 27.5 bits (62), Expect = 3.5
Identities = 7/58 (12%), Positives = 20/58 (34%), Gaps = 4/58 (6%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFK---VKFIEVSVGIHHNVDELLVGILNQI 117
II K+DL + + + A ++ S ++ +++ ++
Sbjct: 119 QPIICITKMDLIEDQD-TEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIPHFQDKT 175
>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
Length = 301
Score = 27.4 bits (62), Expect = 3.8
Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 8/52 (15%)
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIE---VSVGIHHNVDELL 110
P ++V NK+D + A + E +S V EL
Sbjct: 118 VPILLVGNKLDA-----AKYPEEAMKAYHELLPEAEPRMLSALDERQVAELK 164
>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*
Length = 308
Score = 27.4 bits (62), Expect = 3.9
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 62 RPAIIVANKIDLARARAVSSQDAKNLAASFKVKFIE---VSVGIHHNVDELL 110
+P I+V NKID + + E +S N+DEL+
Sbjct: 123 KPVIVVINKIDKIGPAKNVLPLIDEIHKKH-PELTEIVPISALKGANLDELV 173
>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
Length = 301
Score = 27.5 bits (62), Expect = 3.9
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 63 PAIIVANKIDLARARAVSSQDAKNLAASFKV-----KFIEVSVGIHHNVDEL 109
++V NK+DL D + + ++ ++ S ++EL
Sbjct: 117 ETVMVINKMDL-----YDEDDLRKVRELEEIYSGLYPIVKTSAKTGMGIEEL 163
>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding,
hydrolase, nucleotide-binding; HET: GDP; 2.25A
{Salmonella typhimurium} PDB: 2ykr_W 4a2i_V
Length = 358
Score = 27.2 bits (61), Expect = 4.5
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 63 PAIIVANKIDLARARAVSSQDA-KNLAASFKVKFIEVSVGIHHNVDEL 109
+IV NKIDL + + ++ + + + VS + L
Sbjct: 162 EPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHTQDGLKPL 209
>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
Length = 282
Score = 26.9 bits (60), Expect = 5.3
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 56 EGYLRTRPAIIVANKIDLA 74
E L+ +P I++ NK D A
Sbjct: 45 EDILKNKPRIMLLNKADKA 63
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 27.0 bits (60), Expect = 5.4
Identities = 13/80 (16%), Positives = 31/80 (38%), Gaps = 14/80 (17%)
Query: 7 GHSGKVRAIIWNEQYEKLTSSDETGLIIVWMLYKPSYHRVEQDV------IRLHEEGYLR 60
GH +R + + + +V+++ ++ R +DV + +
Sbjct: 63 GH-ESLRFQLLDRFKSSARA-------VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKN 114
Query: 61 TRPAIIVANKIDLARARAVS 80
+ +I NK D+A A++
Sbjct: 115 SPSLLIACNKQDIAMAKSAK 134
>4a11_B DNA excision repair protein ERCC-8; DNA binding protein, DNA damage
repair; HET: DNA; 3.31A {Homo sapiens}
Length = 408
Score = 27.2 bits (61), Expect = 5.8
Identities = 8/35 (22%), Positives = 12/35 (34%), Gaps = 1/35 (2%)
Query: 3 QSLQGHSGKVRAIIWNEQYEKL-TSSDETGLIIVW 36
+ + N +E +SSDE G W
Sbjct: 367 EPVPDDDETTTKSQLNPAFEDAWSSSDEEGGTSAW 401
>2h5g_A Delta 1-pyrroline-5-carboxylate synthetase; dehydrogenase,
structural genomics, structural genomics CONS SGC,
oxidoreductase; 2.25A {Homo sapiens}
Length = 463
Score = 27.2 bits (61), Expect = 5.9
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 62 RPAIIVANKIDLARARA 78
R I++ANK DL A
Sbjct: 68 RDEILLANKKDLEEAEG 84
>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 = 26.6 bits (59), Expect = 6.3
Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 13/50 (26%)
Query: 63 PAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVS 99
++V K DL R VS N+A +IE S
Sbjct: 134 KMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS 183
>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 = 26.6 bits (59), Expect = 7.0
Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 13/50 (26%)
Query: 63 PAIIVANKIDL------------ARARAVSSQDAKNLAASFK-VKFIEVS 99
++V K DL R VS N+A +IE S
Sbjct: 113 KMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS 162
>2pm9_A Protein WEB1, protein transport protein SEC31; beta propeller;
3.30A {Saccharomyces cerevisiae}
Length = 416
Score = 26.5 bits (59), Expect = 7.5
Identities = 5/35 (14%), Positives = 12/35 (34%), Gaps = 1/35 (2%)
Query: 3 QSLQGHSGKVRAIIWNEQYEK-LTSSDETGLIIVW 36
+V ++ WN+ S+ + +W
Sbjct: 159 GQSMSSVDEVISLAWNQSLAHVFASAGSSNFASIW 193
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 26.4 bits (59), Expect = 7.6
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 6/65 (9%)
Query: 61 TRPAIIVANKIDLARA----RAVSSQDAKNLAASFKVKFIEVSVGIHHNVDELLVGILNQ 116
+IV NKIDLA A DAK + + + +S+ D++L I
Sbjct: 164 KTADLIVINKIDLADAVGADIKKMENDAKRINP--DAEVVLLSLKTMEGFDKVLEFIEKS 221
Query: 117 IRLKR 121
++ +
Sbjct: 222 VKEVK 226
>3frx_A Guanine nucleotide-binding protein subunit beta- like protein;
RACK1, WD40, beta propeller, ribosome, translation,
acetylation; 2.13A {Saccharomyces cerevisiae} PDB:
3izb_a 3o2z_T 3o30_T 3u5c_g 3u5g_g 3rfg_A 3rfh_A 1trj_A
3jyv_R*
Length = 319
Score = 26.7 bits (60), Expect = 7.9
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 3 QSLQGHSGKVRAIIWNEQYEKL---TSSDETGLIIVW 36
+L+GH+G V ++ + L S D+T +I W
Sbjct: 11 GTLEGHNGWVTSLATSAGQPNLLLSASRDKT--LISW 45
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 26.2 bits (58), Expect = 8.9
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 48 QDVIRLHEEGYLRTRPAIIVANKIDLARARAVS 80
D++ + E +I NK +L AR S
Sbjct: 143 VDILSITESSCENGIDILIACNKSELFTARPPS 175
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
0.317 0.132 0.386
Gapped
Lambda K H
0.267 0.0860 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,592,122
Number of extensions: 208866
Number of successful extensions: 804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 779
Number of HSP's successfully gapped: 168
Length of query: 238
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 147
Effective length of database: 4,160,982
Effective search space: 611664354
Effective search space used: 611664354
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.1 bits)