RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13826
(173 letters)
>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 = 183 bits (466), Expect = 1e-59
Identities = 60/97 (61%), Positives = 75/97 (77%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
S + G ++FK+++IG G GKSCLLHQF E KF D HTIGVEFG+R++ V G
Sbjct: 12 SGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGG 71
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ +KLQIWDTAGQERFR+VTRSYYRGAAGAL+V D++
Sbjct: 72 KTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDIT 108
Score = 65.0 bits (159), Expect = 1e-13
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ G ++FK+++IG G GKSCLLHQF E K+ T
Sbjct: 14 LVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHT 57
>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 = 182 bits (464), Expect = 2e-59
Identities = 82/95 (86%), Positives = 89/95 (93%)
Query: 75 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 134
S++ Y+YSYIFKYIIIGDMGVGKSCLLHQFTE+KFM DCPHTIGVEFGTRIIEV G+K
Sbjct: 4 GSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK 63
Query: 135 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
IKLQIWDTAGQERFRAVTRSYYRGAAGALMV D++
Sbjct: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 98
Score = 65.3 bits (160), Expect = 6e-14
Identities = 30/44 (68%), Positives = 35/44 (79%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S++ Y+YSYIFKYIIIGDMGVGKSCLLHQFTE+K+ T
Sbjct: 4 GSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHT 47
>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 = 180 bits (460), Expect = 6e-59
Identities = 60/88 (68%), Positives = 76/88 (86%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
+Y ++FK+++IG+ G GKSCLLHQF E+KF D HTIGVEFG++II V G+ +KLQIWD
Sbjct: 6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 65
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERFR+VTRSYYRGAAGAL+V D++
Sbjct: 66 TAGQERFRSVTRSYYRGAAGALLVYDIT 93
Score = 62.6 bits (153), Expect = 6e-13
Identities = 18/37 (48%), Positives = 27/37 (72%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+Y ++FK+++IG+ G GKSCLLHQF E+K+ T
Sbjct: 6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHT 42
>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 = 179 bits (457), Expect = 3e-58
Identities = 62/94 (65%), Positives = 76/94 (80%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
SS SY+FKYIIIGD GVGKSCLL QFT+++F P TIGVEFG R++ + G++I
Sbjct: 11 SSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI 70
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
KLQIWDTAGQE FR++TRSYYRGAAGAL+V D++
Sbjct: 71 KLQIWDTAGQESFRSITRSYYRGAAGALLVYDIT 104
Score = 65.7 bits (161), Expect = 5e-14
Identities = 25/43 (58%), Positives = 30/43 (69%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
SS SY+FKYIIIGD GVGKSCLL QFT++++ LT
Sbjct: 11 SSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLT 53
>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 = 179 bits (457), Expect = 5e-58
Identities = 57/96 (59%), Positives = 72/96 (75%), Gaps = 1/96 (1%)
Query: 75 MSSSGQ-YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 133
MSS Y Y +FK ++IGD GVGKS LL +FT+ +F D TIGVEF TR +E+ G+
Sbjct: 1 MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGK 60
Query: 134 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+IK QIWDTAGQER+RA+T +YYRGA GAL+V D+S
Sbjct: 61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDIS 96
Score = 64.7 bits (158), Expect = 2e-13
Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 4 MSSSGQ-YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
MSS Y Y +FK ++IGD GVGKS LL +FT+ ++ + + T
Sbjct: 1 MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKST 45
>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 = 178 bits (454), Expect = 6e-58
Identities = 48/97 (49%), Positives = 67/97 (69%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
S + G Y+++FK ++IG+ GVGK+ LL +FT +F D TIGVEF TR + +
Sbjct: 12 SGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGT 71
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+K QIWDTAG ER+RA+T +YYRGA GAL+V D++
Sbjct: 72 AAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLT 108
Score = 63.8 bits (156), Expect = 3e-13
Identities = 15/44 (34%), Positives = 27/44 (61%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ G Y+++FK ++IG+ GVGK+ LL +FT ++ + T
Sbjct: 14 LVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTT 57
>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 = 178 bits (453), Expect = 8e-58
Identities = 53/106 (50%), Positives = 70/106 (66%), Gaps = 1/106 (0%)
Query: 64 RKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEF 123
+ + M + Y Y+FK ++IGD GVGKS LL +FT +F + TIGVEF
Sbjct: 8 HHHGIPLPGRAMGTRDD-EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEF 66
Query: 124 GTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
TR I+V G+ IK QIWDTAG ER+RA+T +YYRGA GAL+V D++
Sbjct: 67 ATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIA 112
Score = 63.0 bits (154), Expect = 5e-13
Identities = 18/42 (42%), Positives = 26/42 (61%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ Y Y+FK ++IGD GVGKS LL +FT ++ L + T
Sbjct: 20 GTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKST 61
>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 = 176 bits (449), Expect = 4e-57
Identities = 52/87 (59%), Positives = 66/87 (75%)
Query: 83 YSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDT 142
Y Y+FK ++IGD GVGKS LL +FT +F + TIGVEF TR I+V G+ IK QIWDT
Sbjct: 2 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 143 AGQERFRAVTRSYYRGAAGALMVIDVS 169
AGQER+R +T +YYRGA GAL+V D++
Sbjct: 62 AGQERYRRITSAYYRGAVGALLVYDIA 88
Score = 61.9 bits (151), Expect = 2e-12
Identities = 18/36 (50%), Positives = 25/36 (69%)
Query: 12 YSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
Y Y+FK ++IGD GVGKS LL +FT ++ L + T
Sbjct: 2 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKST 37
>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 = 176 bits (449), Expect = 4e-57
Identities = 44/101 (43%), Positives = 67/101 (66%)
Query: 69 WALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRII 128
LV + S Y ++FK +++GD VGK+C++ +F F TIGV+F + +
Sbjct: 12 SGLVPRGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTL 71
Query: 129 EVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
E+ G+++KLQIWDTAGQERFR +T+SYYR A GA++ D++
Sbjct: 72 EIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDIT 112
Score = 60.7 bits (148), Expect = 4e-12
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S Y ++FK +++GD VGK+C++ +F + T
Sbjct: 19 SGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGST 61
>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 = 175 bits (447), Expect = 9e-57
Identities = 51/97 (52%), Positives = 62/97 (63%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
S SS K +IIG+ GVGKS LL +FT+ F P+ TIGV+F + I V G
Sbjct: 2 SSGSSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDG 61
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
K KL IWDTAGQERFR +T SYYRGA G ++V DV+
Sbjct: 62 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVT 98
Score = 61.1 bits (149), Expect = 2e-12
Identities = 17/43 (39%), Positives = 22/43 (51%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
SS K +IIG+ GVGKS LL +FT+ + L T
Sbjct: 5 SSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAAT 47
>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 = 175 bits (447), Expect = 1e-56
Identities = 45/97 (46%), Positives = 68/97 (70%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
+ Y ++FK ++IG+ GVGK+CL+ +FT+ F P TIGV+F + +E++G
Sbjct: 13 GLVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEING 72
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
EK+KLQIWDTAGQERFR++T+SYYR A ++ D++
Sbjct: 73 EKVKLQIWDTAGQERFRSITQSYYRSANALILTYDIT 109
Score = 61.9 bits (151), Expect = 2e-12
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ Y ++FK ++IG+ GVGK+CL+ +FT+ + G T
Sbjct: 15 VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGAT 58
>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 = 175 bits (447), Expect = 1e-56
Identities = 51/95 (53%), Positives = 69/95 (72%)
Query: 75 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 134
SS SY I K ++IGD GVGKSCLL +F E KF P TIG++F + ++++G+K
Sbjct: 9 ASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK 68
Query: 135 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+KLQ+WDTAGQERFR +T +YYRGA G ++V DV+
Sbjct: 69 VKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVT 103
Score = 63.9 bits (156), Expect = 3e-13
Identities = 21/47 (44%), Positives = 26/47 (55%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ SS SY I K ++IGD GVGKSCLL +F E K+ T
Sbjct: 6 TVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITT 52
>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 = 174 bits (444), Expect = 2e-56
Identities = 41/88 (46%), Positives = 57/88 (64%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S +FK I++GD GVGKS L++++ KF HTIGVEF + +EV G + +QIWD
Sbjct: 3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERFR++ +YRG+ L+ V
Sbjct: 63 TAGQERFRSLRTPFYRGSDCCLLTFSVD 90
Score = 61.0 bits (149), Expect = 2e-12
Identities = 15/37 (40%), Positives = 23/37 (62%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S +FK I++GD GVGKS L++++ K+ L T
Sbjct: 3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHT 39
>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 = 175 bits (445), Expect = 2e-56
Identities = 41/97 (42%), Positives = 62/97 (63%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
+ + + IIIG GVGK+ L+ +FT+ F C T+GV+F + +E+ G
Sbjct: 13 GLVPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRG 72
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+KI+LQIWDTAGQERF ++T +YYR A G ++V D++
Sbjct: 73 KKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDIT 109
Score = 60.3 bits (147), Expect = 6e-12
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ + + IIIG GVGK+ L+ +FT+ + + T
Sbjct: 15 VPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKST 58
>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 = 175 bits (445), Expect = 2e-56
Identities = 38/91 (41%), Positives = 62/91 (68%)
Query: 79 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQ 138
G + + Y+FK +IIG+ VGK+ L ++ + F P T+G++F + I + ++IKLQ
Sbjct: 1 GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQ 60
Query: 139 IWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
IWDTAG ER+R +T +YYRGA G +++ D++
Sbjct: 61 IWDTAGLERYRTITTAYYRGAMGFILMYDIT 91
Score = 61.1 bits (149), Expect = 2e-12
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 8 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
G + + Y+FK +IIG+ VGK+ L ++ + + T
Sbjct: 1 GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVST 40
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 173 bits (442), Expect = 4e-56
Identities = 54/97 (55%), Positives = 67/97 (69%), Gaps = 1/97 (1%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
MSS Y Y+FK ++IGD GVGKSCLL +F + + TIGV+F R IE+ G
Sbjct: 4 GSMSSMNP-EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDG 62
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ IKLQIWDTAGQERFR +T SYYRGA G ++V DV+
Sbjct: 63 KTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVT 99
Score = 62.6 bits (153), Expect = 6e-13
Identities = 20/40 (50%), Positives = 27/40 (67%), Gaps = 1/40 (2%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ +MSS Y Y+FK ++IGD GVGKSCLL +F + Y
Sbjct: 3 LGSMSSMNP-EYDYLFKLLLIGDSGVGKSCLLLRFADDTY 41
>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 = 173 bits (440), Expect = 7e-56
Identities = 38/97 (39%), Positives = 65/97 (67%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
+ + Q ++ Y+FK +IIG+ VGK+ L ++ + F P T+G++F + + H
Sbjct: 10 GRENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHE 69
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+++KLQIWDTAGQER+R +T +YYRGA G +++ D++
Sbjct: 70 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDIT 106
Score = 60.3 bits (147), Expect = 5e-12
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ Q ++ Y+FK +IIG+ VGK+ L ++ + +
Sbjct: 12 ENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTF 48
>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 = 173 bits (441), Expect = 8e-56
Identities = 47/88 (53%), Positives = 66/88 (75%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
Y Y+FK ++IG+ GVGKSCLL +F++ + D TIGV+F + +E+ G+ +KLQIWD
Sbjct: 4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWD 63
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERFR +T SYYRG+ G ++V DV+
Sbjct: 64 TAGQERFRTITSSYYRGSHGIIIVYDVT 91
Score = 60.0 bits (146), Expect = 9e-12
Identities = 17/37 (45%), Positives = 24/37 (64%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
Y Y+FK ++IG+ GVGKSCLL +F++ Y T
Sbjct: 4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYIST 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 = 172 bits (438), Expect = 2e-55
Identities = 48/88 (54%), Positives = 67/88 (76%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
+Y Y+FK ++IGD GVGK+C+L +F+E F TIG++F R IE+ G++IKLQIWD
Sbjct: 4 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 63
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERFR +T +YYRGA G ++V D++
Sbjct: 64 TAGQERFRTITTAYYRGAMGIMLVYDIT 91
Score = 59.1 bits (144), Expect = 1e-11
Identities = 15/30 (50%), Positives = 24/30 (80%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+Y Y+FK ++IGD GVGK+C+L +F+E +
Sbjct: 4 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAF 33
>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 = 171 bits (436), Expect = 3e-55
Identities = 37/94 (39%), Positives = 60/94 (63%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
S + + S K +++GD+G GKS L+ +F + +F+ TIG F ++ + V+ +
Sbjct: 2 SMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATV 61
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
K +IWDTAGQER+ ++ YYRGAA A++V DV+
Sbjct: 62 KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVT 95
Score = 59.5 bits (145), Expect = 8e-12
Identities = 12/43 (27%), Positives = 24/43 (55%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S + + S K +++GD+G GKS L+ +F + ++ + T
Sbjct: 2 SMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQEST 44
>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 = 171 bits (436), Expect = 4e-55
Identities = 43/95 (45%), Positives = 62/95 (65%), Gaps = 1/95 (1%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
S + S S IFK I+IGD VGK+CL ++F +F TIGV+F R +++ GE+I
Sbjct: 10 SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERI 69
Query: 136 KLQIWDTAGQERFR-AVTRSYYRGAAGALMVIDVS 169
K+Q+WDTAGQERFR ++ + YYR + V D++
Sbjct: 70 KIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT 104
Score = 60.7 bits (148), Expect = 3e-12
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S + S S IFK I+IGD VGK+CL ++F ++ + T
Sbjct: 10 SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEAT 52
>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 = 171 bits (436), Expect = 5e-55
Identities = 38/94 (40%), Positives = 60/94 (63%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
S+ +S +K ++ GD VGKS L + + +F + T+GV+F + + V GE+
Sbjct: 18 GSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERT 77
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
LQ+WDTAGQERFR++ +SY+R A G L++ DV+
Sbjct: 78 VLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVT 111
Score = 60.4 bits (147), Expect = 6e-12
Identities = 11/43 (25%), Positives = 21/43 (48%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S+ +S +K ++ GD VGKS L + + ++ + T
Sbjct: 18 GSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISAT 60
>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 = 171 bits (435), Expect = 5e-55
Identities = 54/97 (55%), Positives = 67/97 (69%), Gaps = 1/97 (1%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
MSS Y Y+FK ++IGD GVGKSCLL +F + + TIGV+F R IE+ G
Sbjct: 21 RPMSSMNP-EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDG 79
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ IKLQIWDTAGQERFR +T SYYRGA G ++V DV+
Sbjct: 80 KTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVT 116
Score = 58.8 bits (143), Expect = 2e-11
Identities = 19/35 (54%), Positives = 24/35 (68%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
SS Y Y+FK ++IGD GVGKSCLL +F + Y
Sbjct: 24 SSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTY 58
>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 = 172 bits (437), Expect = 6e-55
Identities = 38/107 (35%), Positives = 65/107 (60%), Gaps = 10/107 (9%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
S + G Y Y+ K + +GD GVGK+ L+++T+ KF P T+G++F + + +
Sbjct: 12 SGLVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNA 71
Query: 133 E----------KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ K+ LQ+WDTAGQERFR++T +++R A G L++ D++
Sbjct: 72 QGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLT 118
Score = 65.0 bits (159), Expect = 1e-13
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ G Y Y+ K + +GD GVGK+ L+++T+ K+ T
Sbjct: 14 LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITT 57
>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 = 170 bits (434), Expect = 6e-55
Identities = 44/93 (47%), Positives = 65/93 (69%), Gaps = 1/93 (1%)
Query: 78 SGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDC-PHTIGVEFGTRIIEVHGEKIK 136
SG Y FK +++GD GVGK+CLL +F + F+ T+G++F ++++V G K+K
Sbjct: 2 SGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVK 61
Query: 137 LQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
LQ+WDTAGQERFR+VT +YYR A L++ DV+
Sbjct: 62 LQMWDTAGQERFRSVTHAYYRDAHALLLLYDVT 94
Score = 61.8 bits (151), Expect = 1e-12
Identities = 16/37 (43%), Positives = 23/37 (62%)
Query: 7 SGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLG 43
SG Y FK +++GD GVGK+CLL +F + + G
Sbjct: 2 SGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAG 38
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 170 bits (433), Expect = 6e-55
Identities = 49/88 (55%), Positives = 64/88 (72%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
Y ++FK +IIGD GVGKS LL +F + F TIGV+F R +E++GEK+KLQIWD
Sbjct: 5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWD 64
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERFR +T +YYRG G ++V DV+
Sbjct: 65 TAGQERFRTITSTYYRGTHGVIVVYDVT 92
Score = 58.7 bits (143), Expect = 1e-11
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+M+ Y ++FK +IIGD GVGKS LL +F + + T
Sbjct: 1 SMARD----YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITT 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 = 170 bits (434), Expect = 8e-55
Identities = 41/105 (39%), Positives = 64/105 (60%), Gaps = 10/105 (9%)
Query: 75 MSSSGQY----------SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFG 124
M SS + Y+FK ++IG+ VGK+ L ++ + F P T+G++F
Sbjct: 1 MGSSHHHHHHSSGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60
Query: 125 TRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ + H ++IKLQIWDTAGQER+R +T +YYRGA G L++ D++
Sbjct: 61 VKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIA 105
Score = 58.4 bits (142), Expect = 2e-11
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 10/47 (21%)
Query: 4 MSSSGQY----------SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
M SS + Y+FK ++IG+ VGK+ L ++ + +
Sbjct: 1 MGSSHHHHHHSSGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSF 47
>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 = 168 bits (429), Expect = 2e-54
Identities = 47/85 (55%), Positives = 65/85 (76%)
Query: 85 YIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAG 144
I K ++IGD GVGKSCLL +F E KF P TIG++F + ++++G+K+KLQIWDTAG
Sbjct: 2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG 61
Query: 145 QERFRAVTRSYYRGAAGALMVIDVS 169
QERFR +T +YYRGA G ++V D++
Sbjct: 62 QERFRTITTAYYRGAMGIILVYDIT 86
Score = 55.6 bits (135), Expect = 2e-10
Identities = 17/34 (50%), Positives = 21/34 (61%)
Query: 14 YIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
I K ++IGD GVGKSCLL +F E K+ T
Sbjct: 2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITT 35
>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 = 167 bits (426), Expect = 8e-54
Identities = 34/95 (35%), Positives = 57/95 (60%)
Query: 75 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 134
MSS + FK + +G+ VGK+ L+ +F F TIG++F ++ + +
Sbjct: 3 MSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT 62
Query: 135 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
++LQ+WDTAGQERFR++ SY R + A++V D++
Sbjct: 63 VRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDIT 97
Score = 61.0 bits (149), Expect = 2e-12
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
TMSS + FK + +G+ VGK+ L+ +F + Q T
Sbjct: 2 TMSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQAT 46
>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 = 167 bits (426), Expect = 2e-53
Identities = 39/95 (41%), Positives = 60/95 (63%), Gaps = 4/95 (4%)
Query: 75 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 134
M+S + K II+GD GVGK+ L++Q+ +KF TIG +F T+ + V
Sbjct: 1 MTSR----KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL 56
Query: 135 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ +QIWDTAGQERF+++ ++YRGA ++V DV+
Sbjct: 57 VTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVT 91
Score = 58.8 bits (143), Expect = 2e-11
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
M+S + K II+GD GVGK+ L++Q+ +K+
Sbjct: 1 MTSR----KKVLLKVIILGDSGVGKTSLMNQYVNKKF 33
>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 = 165 bits (421), Expect = 3e-53
Identities = 36/88 (40%), Positives = 58/88 (65%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S +Y FK +++G+ VGK+ L+ ++ E KF T+G F T+ + + G+++ L IWD
Sbjct: 2 SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQERF A+ YYR + GA++V D++
Sbjct: 62 TAGQERFHALGPIYYRDSNGAILVYDIT 89
Score = 56.7 bits (138), Expect = 8e-11
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S +Y FK +++G+ VGK+ L+ ++ E K+ T
Sbjct: 2 SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITT 38
>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 = 166 bits (423), Expect = 4e-53
Identities = 36/98 (36%), Positives = 62/98 (63%), Gaps = 10/98 (10%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV----------H 131
Y Y+ K++ +GD GVGK+ +L+Q+T+ KF T+G++F + +
Sbjct: 7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGR 66
Query: 132 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
G++I LQ+WDTAG ERFR++T +++R A G L++ D++
Sbjct: 67 GQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLT 104
Score = 60.7 bits (148), Expect = 3e-12
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+MS Y Y+ K++ +GD GVGK+ +L+Q+T+ K+ T
Sbjct: 2 SMSDG---DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITT 43
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 167 bits (424), Expect = 4e-53
Identities = 29/104 (27%), Positives = 52/104 (50%), Gaps = 4/104 (3%)
Query: 70 ALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQ--KFMPDCPHTIGVEFGTRI 127
++V K + + K ++G+ VGKS L+ FT + KF+ D T GVE
Sbjct: 4 SMVKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAP 63
Query: 128 IEVHGEKIKLQIW--DTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ + + ++++ DTAG + ++ Y+ G A++V DVS
Sbjct: 64 VTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVS 107
Score = 59.6 bits (145), Expect = 1e-11
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQ 38
+K + + K ++G+ VGKS L+ FT +
Sbjct: 6 VKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSK 43
>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 = 164 bits (418), Expect = 1e-52
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 83 YSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDT 142
K +++G+ VGKS ++ ++ + F D TIGV+F R I+V+ E ++L +WDT
Sbjct: 2 SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61
Query: 143 AGQERFRAVTRSYYRGAAGALMVIDVS 169
AGQE F A+T++YYRGA ++V +
Sbjct: 62 AGQEEFDAITKAYYRGAQACVLVFSTT 88
Score = 56.0 bits (136), Expect = 1e-10
Identities = 6/29 (20%), Positives = 16/29 (55%)
Query: 12 YSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
K +++G+ VGKS ++ ++ + +
Sbjct: 2 SEVAIKMVVVGNGAVGKSSMIQRYCKGIF 30
>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 = 164 bits (417), Expect = 2e-52
Identities = 30/89 (33%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE-KIKLQIW 140
S+ K +++GD GK+ L F ++ F TIG++F R I + G + LQIW
Sbjct: 2 SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61
Query: 141 DTAGQERFRAVTRSYYRGAAGALMVIDVS 169
D GQ + Y GA G L+V D++
Sbjct: 62 DIGGQTIGGKMLDKYIYGAQGVLLVYDIT 90
Score = 57.9 bits (141), Expect = 3e-11
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
S+ K +++GD GK+ L F ++ + + T
Sbjct: 2 SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQT 38
>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 = 162 bits (413), Expect = 7e-52
Identities = 33/88 (37%), Positives = 54/88 (61%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
+ FK +++G+ VGKS L+ +F + +F TIG F T+ + + +K +IWD
Sbjct: 2 NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVS 169
TAGQER+ ++ YYRGA A++V D++
Sbjct: 62 TAGQERYHSLAPMYYRGAQAAIVVYDIT 89
Score = 51.0 bits (123), Expect = 8e-09
Identities = 10/37 (27%), Positives = 21/37 (56%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ FK +++G+ VGKS L+ +F + ++ + T
Sbjct: 2 NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQEST 38
>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 = 164 bits (416), Expect = 8e-52
Identities = 31/97 (31%), Positives = 50/97 (51%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
M+S+ Q FK +++GD G GK+ + + +F T+GVE + +
Sbjct: 2 PHMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR 61
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
IK +WDTAGQE+F + YY A A+++ DV+
Sbjct: 62 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVT 98
Score = 59.6 bits (145), Expect = 1e-11
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
M+S+ Q FK +++GD G GK+ + + ++
Sbjct: 3 HMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEF 40
>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 = 161 bits (411), Expect = 2e-51
Identities = 41/96 (42%), Positives = 61/96 (63%), Gaps = 5/96 (5%)
Query: 75 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 134
MSS I K II+GD GVGK+ L+H++ K+ TIG +F T+ + V G+K
Sbjct: 1 MSSR----KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDK 56
Query: 135 -IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+Q+WDTAGQERF+++ ++YRGA ++V DV+
Sbjct: 57 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVT 92
Score = 58.0 bits (141), Expect = 3e-11
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
MSS I K II+GD GVGK+ L+H++ KY
Sbjct: 1 MSSR----KKNILKVIILGDSGVGKTSLMHRYVNDKY 33
>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 = 161 bits (409), Expect = 2e-51
Identities = 38/83 (45%), Positives = 53/83 (63%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K ++GD GVGKS ++ +F E F P+ TIG F T+ ++ E K IWDTAG E
Sbjct: 7 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 147 RFRAVTRSYYRGAAGALMVIDVS 169
RFRA+ YYRG+A A++V D++
Sbjct: 67 RFRALAPMYYRGSAAAIIVYDIT 89
Score = 50.2 bits (121), Expect = 2e-08
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
K ++GD GVGKS ++ +F E + + T
Sbjct: 7 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPT 38
>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 = 160 bits (408), Expect = 6e-51
Identities = 36/94 (38%), Positives = 53/94 (56%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
+ S K ++GD GVGKS ++ +F + F + TIG F T+ + E
Sbjct: 13 GLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH 72
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
K IWDTAGQERF ++ YYRG+A A++V D++
Sbjct: 73 KFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDIT 106
Score = 52.2 bits (126), Expect = 4e-09
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
+ S K ++GD GVGKS ++ +F + + + T
Sbjct: 13 GLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPT 55
>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 = 161 bits (409), Expect = 7e-51
Identities = 33/98 (33%), Positives = 58/98 (59%), Gaps = 1/98 (1%)
Query: 73 SKMSSSGQY-SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 131
MS+ G + + FK + +G+ VGK+ L+ +F F TIG++F ++ + +
Sbjct: 2 PGMSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE 61
Query: 132 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
++LQ+WDTAG ERFR++ SY R + A++V D++
Sbjct: 62 DRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDIT 99
Score = 56.9 bits (138), Expect = 1e-10
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 3 TMSSSGQY-SYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
MS+ G + + FK + +G+ VGK+ L+ +F + Q T
Sbjct: 3 GMSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQAT 48
>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 = 156 bits (397), Expect = 5e-49
Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 1/89 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVE-FGTRIIEVHGEKIKLQIW 140
+K +IGD GVGK+ +++ + +F + T+G ++ G IK +W
Sbjct: 7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVW 66
Query: 141 DTAGQERFRAVTRSYYRGAAGALMVIDVS 169
DTAGQE+ + YY GA+GA++ DV+
Sbjct: 67 DTAGQEKKAVLKDVYYIGASGAILFFDVT 95
Score = 55.0 bits (133), Expect = 6e-10
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +IGD GVGK+ +++ + ++
Sbjct: 7 RRELTYKICLIGDGGVGKTTYINRVLDGRF 36
>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 = 150 bits (380), Expect = 5e-47
Identities = 33/83 (39%), Positives = 51/83 (61%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K +++G+ VGKS ++ +F F + TIG F T+ + ++ +K +IWDTAGQE
Sbjct: 4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 147 RFRAVTRSYYRGAAGALMVIDVS 169
RF ++ YYR A AL+V DV+
Sbjct: 64 RFASLAPXYYRNAQAALVVYDVT 86
Score = 50.6 bits (121), Expect = 2e-08
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLT 47
K +++G+ VGKS ++ +F + + T
Sbjct: 4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPT 35
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 147 bits (373), Expect = 2e-45
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 37/125 (29%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK----- 136
+K +++G+ VGKS ++ + T+ F + TIG F T ++ ++ IK
Sbjct: 3 EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62
Query: 137 --------------------------------LQIWDTAGQERFRAVTRSYYRGAAGALM 164
IWDTAGQER+ ++ YYRGA A++
Sbjct: 63 EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122
Query: 165 VIDVS 169
V D+S
Sbjct: 123 VFDIS 127
>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 = 134 bits (338), Expect = 2e-40
Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 5/92 (5%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPH--TIGVEFGTRIIEVHGEK---IKLQIWD 141
K +I+G+ G GK+ LL Q + K T+G++ I++ ++ + L +WD
Sbjct: 3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDVSHVKE 173
AG+E F + + A L V D+S +
Sbjct: 63 FAGREEFYSTHPHFMTQRALYLAVYDLSKGQA 94
Score = 46.2 bits (110), Expect = 6e-07
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K +I+G+ G GK+ LL Q + K
Sbjct: 3 MKLMIVGNTGSGKTTLLQQLMKTKK 27
>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 = 131 bits (333), Expect = 2e-39
Identities = 23/97 (23%), Positives = 37/97 (38%), Gaps = 1/97 (1%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
+ + Q IFK +++G+ GVGKS L F + + R I V
Sbjct: 10 GRENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDK 69
Query: 133 EKIKLQIWDTAGQERFRAVTRS-YYRGAAGALMVIDV 168
E++ L ++D Q R + L+V V
Sbjct: 70 EEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSV 106
Score = 50.3 bits (121), Expect = 2e-08
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ Q IFK +++G+ GVGKS L F +
Sbjct: 13 NLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQG 48
>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 = 128 bits (324), Expect = 2e-38
Identities = 34/87 (39%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S K +++G GVGKS L QF + F+ D TI + T+I V G +L I D
Sbjct: 5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILD 63
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDV 168
TAGQE F A+ Y R G L+V +
Sbjct: 64 TAGQEEFGAMREQYMRAGHGFLLVFAI 90
Score = 50.6 bits (122), Expect = 1e-08
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+M S K +++G GVGKS L QF + +
Sbjct: 1 SMDPP----PSETHKLVVVGGGGVGKSALTIQFIQSYF 34
>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 = 126 bits (318), Expect = 2e-37
Identities = 30/93 (32%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
G + + K I++G GVGKS L QF +F+ D T + + + + GE++
Sbjct: 8 GGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV 66
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
++ I DTAGQE + A+ +Y+R G L V +
Sbjct: 67 QIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSI 99
Score = 50.2 bits (121), Expect = 2e-08
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
G + + K I++G GVGKS L QF ++
Sbjct: 8 GGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEF 43
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 124 bits (313), Expect = 8e-37
Identities = 20/84 (23%), Positives = 34/84 (40%), Gaps = 1/84 (1%)
Query: 86 IFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQ 145
+FK +++G+ GVGKS L F + + R I V E++ L ++D Q
Sbjct: 2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61
Query: 146 ERFRAVTRS-YYRGAAGALMVIDV 168
+ + L+V V
Sbjct: 62 GDAGGWLQDHCLQTGDAFLIVFSV 85
Score = 44.4 bits (106), Expect = 2e-06
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 15 IFKYIIIGDMGVGKSCLLHQFTEQKY 40
+FK +++G+ GVGKS L F +
Sbjct: 2 VFKVMLVGESGVGKSTLAGTFGGLQG 27
>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 = 123 bits (310), Expect = 5e-36
Identities = 30/96 (31%), Positives = 52/96 (54%), Gaps = 3/96 (3%)
Query: 75 MSSSGQ--YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
M+++ + + K I++G GVGKS L QF +F+ D T + + + + G
Sbjct: 1 MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDG 59
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
E++++ I DTAGQE + A+ +Y+R G L V +
Sbjct: 60 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSI 95
Score = 47.2 bits (113), Expect = 4e-07
Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 4 MSSSGQ--YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
M+++ + + K I++G GVGKS L QF ++
Sbjct: 1 MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEF 39
>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 = 119 bits (301), Expect = 5e-35
Identities = 29/82 (35%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K I++G GVGKS L QF +F+ D T + + + + GE++++ I DTAGQE
Sbjct: 5 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQE 63
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+ A+ +Y+R G L V +
Sbjct: 64 DYAAIRDNYFRSGEGFLCVFSI 85
Score = 43.6 bits (104), Expect = 5e-06
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K I++G GVGKS L QF ++
Sbjct: 5 HKVIMVGSGGVGKSALTLQFMYDEF 29
>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 = 116 bits (293), Expect = 1e-33
Identities = 32/93 (34%), Positives = 48/93 (51%), Gaps = 1/93 (1%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
+S+ +K +++GD GVGKS L QF ++ F+ D TI + + E+ +
Sbjct: 8 TSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWA 66
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
L + DTAGQE F A+ Y R G L+V V
Sbjct: 67 ILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSV 99
Score = 47.5 bits (114), Expect = 2e-07
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 1 MKTMSSSG-QYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ +M++S +K +++GD GVGKS L QF ++ +
Sbjct: 3 LGSMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIF 43
>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 = 114 bits (289), Expect = 5e-33
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S K I+G VGKS L QF E +F+ TI F T++I V+G++ LQ+ D
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVD 60
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDV 168
TAGQ+ + ++Y G ++V V
Sbjct: 61 TAGQDEYSIFPQTYSIDINGYILVYSV 87
Score = 43.7 bits (104), Expect = 4e-06
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
S K I+G VGKS L QF E ++
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQF 31
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 115 bits (290), Expect = 6e-33
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 1/93 (1%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
K +I+G VGK+ L HQF E +F T+ + ++I+ + ++
Sbjct: 14 LYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEF 72
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
L + DTAGQ+ + + S+ G G ++V V
Sbjct: 73 HLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSV 105
Score = 43.7 bits (104), Expect = 6e-06
Identities = 11/39 (28%), Positives = 17/39 (43%)
Query: 2 KTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ K +I+G VGK+ L HQF E ++
Sbjct: 11 RENLYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEF 49
>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 = 112 bits (284), Expect = 1e-32
Identities = 29/83 (34%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+K +++G GVGKS L Q + F+ +C TI + + + + GE L I DTAGQE
Sbjct: 4 YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 62
Query: 147 RFRAVTRSYYRGAAGALMVIDVS 169
+ A+ Y R G L V ++
Sbjct: 63 EYSAMRDQYMRTGEGFLCVFAIN 85
Score = 41.7 bits (99), Expect = 2e-05
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +++G GVGKS L Q + +
Sbjct: 4 YKLVVVGAGGVGKSALTIQLIQNHF 28
>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 = 113 bits (286), Expect = 2e-32
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S ++ ++ G GVGKS L+ +F + F TI + ++I LQI D
Sbjct: 4 EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITD 62
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDV 168
T G +F A+ R ++V V
Sbjct: 63 TTGSHQFPAMQRLSISKGHAFILVFSV 89
Score = 43.4 bits (103), Expect = 6e-06
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
S ++ ++ G GVGKS L+ +F + +
Sbjct: 4 EQSNDYRVVVFGAGGVGKSSLVLRFVKGTF 33
>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 = 111 bits (279), Expect = 8e-32
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 2/83 (2%)
Query: 86 IFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQ 145
++K +++G GVGKS L F + P+ G + R I V GE+ L ++D Q
Sbjct: 2 VYKVLLLGAPGVGKSALARIFGGVEDGPEAE-AAGHTY-DRSIVVDGEEASLMVYDIWEQ 59
Query: 146 ERFRAVTRSYYRGAAGALMVIDV 168
+ R + ++V V
Sbjct: 60 DGGRWLPGHCMAMGDAYVIVYSV 82
Score = 40.6 bits (96), Expect = 5e-05
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 15 IFKYIIIGDMGVGKSCLLHQFTE 37
++K +++G GVGKS L F
Sbjct: 2 VYKVLLLGAPGVGKSALARIFGG 24
>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 = 111 bits (279), Expect = 9e-32
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 1/85 (1%)
Query: 84 SYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 143
S ++ + G GVGKS L+ +F + F T+ + ++I LQI DT
Sbjct: 1 SNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTT 59
Query: 144 GQERFRAVTRSYYRGAAGALMVIDV 168
G +F A+ R ++V +
Sbjct: 60 GSHQFPAMQRLSISKGHAFILVYSI 84
Score = 40.6 bits (96), Expect = 6e-05
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 13 SYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
S ++ + G GVGKS L+ +F + +
Sbjct: 1 SNDYRVAVFGAGGVGKSSLVLRFVKGTF 28
>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 = 110 bits (278), Expect = 1e-31
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+K +++G GVGKS L QF F+ TI +F + IEV L+I DTAG E
Sbjct: 4 YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+F ++ Y + G ++V +
Sbjct: 63 QFASMRDLYIKNGQGFILVYSL 84
Score = 40.9 bits (97), Expect = 4e-05
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +++G GVGKS L QF +
Sbjct: 4 YKVVVLGSGGVGKSALTVQFVTGTF 28
>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 = 110 bits (277), Expect = 2e-31
Identities = 20/84 (23%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
++ +++GD GVGK+ L F ++ +G + R + V GE L + DT E
Sbjct: 5 YRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAE 63
Query: 147 RFRAVT--RSYYRGAAGALMVIDV 168
+ S +G + ++V +
Sbjct: 64 KLDKSWSQESCLQGGSAYVIVYSI 87
Score = 41.4 bits (98), Expect = 3e-05
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKYFL 42
++ +++GD GVGK+ L F K
Sbjct: 5 YRVVLLGDPGVGKTSLASLFA-GKQER 30
>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 = 109 bits (276), Expect = 2e-31
Identities = 27/82 (32%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+K +++G GVGKS L QF + F+ TI + + +EV ++ L+I DTAG E
Sbjct: 4 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTE 62
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+F A+ Y + G +V +
Sbjct: 63 QFTAMRDLYMKNGQGFALVYSI 84
Score = 41.3 bits (98), Expect = 3e-05
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +++G GVGKS L QF + +
Sbjct: 4 YKLVVLGSGGVGKSALTVQFVQGIF 28
>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 = 110 bits (277), Expect = 4e-31
Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 2/92 (2%)
Query: 77 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK 136
+ S K I G GVGKS L+ +F ++F+ + T+ + + E +
Sbjct: 19 YFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVS 77
Query: 137 LQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
++I DTAGQE + R G ++V D+
Sbjct: 78 MEILDTAGQEDT-IQREGHMRWGEGFVLVYDI 108
Score = 46.1 bits (110), Expect = 8e-07
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLG 43
+ S K I G GVGKS L+ +F K F+
Sbjct: 19 YFQSMAKSAEVKLAIFGRAGVGKSALVVRFL-TKRFIW 55
>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 = 108 bits (272), Expect = 2e-30
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+K +++G GVGKS L Q + F+ + TI + + + + GE L I DTAGQE
Sbjct: 5 YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 63
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+ A+ Y R G L V +
Sbjct: 64 EYSAMRDQYMRTGEGFLCVFAI 85
Score = 41.4 bits (98), Expect = 4e-05
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +++G GVGKS L Q + +
Sbjct: 5 YKLVVVGADGVGKSALTIQLIQNHF 29
>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 = 107 bits (269), Expect = 5e-30
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+K +++G GVGKS L Q + F+ + TI + + + + GE L I DTAGQE
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 80
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+ A+ Y R G L V +
Sbjct: 81 EYSAMRDQYMRTGEGFLCVFAI 102
Score = 40.3 bits (95), Expect = 9e-05
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+K +++G GVGKS L Q + +
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHF 46
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 112 bits (281), Expect = 1e-29
Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 8/113 (7%)
Query: 65 KNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFG 124
+ ++ S + K +IGD GK+ LL Q + F P T G+
Sbjct: 20 RQYFQSIEEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVV 79
Query: 125 TRIIEVH--------GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
T+ ++ WD GQE A + + ++ ++++D
Sbjct: 80 TKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR 132
Score = 40.4 bits (94), Expect = 1e-04
Identities = 10/40 (25%), Positives = 16/40 (40%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ S + K +IGD GK+ LL Q + +
Sbjct: 27 EEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETF 66
>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 = 104 bits (262), Expect = 4e-29
Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 7/82 (8%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+ ++GD GKS L+H+F + T ++ + + V G+ + I + AG
Sbjct: 8 LRLGVLGDARSGKSSLIHRFLTGSYQVLEK-TESEQY-KKEMLVDGQTHLVLIREEAGAP 65
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+ + A + V +
Sbjct: 66 DAK-----FSGWADAVIFVFSL 82
Score = 44.5 bits (106), Expect = 2e-06
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
+ ++GD GKS L+H+F Y
Sbjct: 8 LRLGVLGDARSGKSSLIHRFLTGSY 32
>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 = 104 bits (261), Expect = 9e-29
Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 4/97 (4%)
Query: 72 VSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 131
+ + Q I+G G GKS L +F ++F+ + + + + V
Sbjct: 9 SGRENLYFQGPLEV--NLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVD 65
Query: 132 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
+ + L++ DTA + R R Y A L+V V
Sbjct: 66 HQPVHLRVMDTADLDTPRNCER-YLNWAHAFLVVYSV 101
Score = 41.0 bits (97), Expect = 4e-05
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 3/40 (7%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLG 43
+ Q I+G G GKS L +F K F+
Sbjct: 12 ENLYFQGPLEV--NLAILGRRGAGKSALTVKFL-TKRFIS 48
>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 = 103 bits (260), Expect = 2e-28
Identities = 27/116 (23%), Positives = 50/116 (43%), Gaps = 6/116 (5%)
Query: 57 STSQPITRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCP 116
S+ + +NL + +S S S + ++ ++IG+ GVGKS L + F D
Sbjct: 8 SSGVDLGTENLYFQSMSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD 67
Query: 117 H-TIGVEFGTRIIEVHGEK---IKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
+G + R + V GE I L +W+ G+ + + + L+V +
Sbjct: 68 CEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSI 121
Score = 48.1 bits (115), Expect = 2e-07
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
M T S S + ++ ++IG+ GVGKS L + F
Sbjct: 23 MSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHD 62
>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 = 98.9 bits (247), Expect = 9e-27
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 6/86 (6%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPD-CPHTIGVEFGTRIIEVHGEK---IKLQIWDT 142
++ ++IG+ GVGKS L + F D +G + R + V GE I L +W+
Sbjct: 7 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 143 AGQERFRAVTRSYYRGAAGALMVIDV 168
G+ + + + L+V +
Sbjct: 67 KGENEW--LHDHCMQVGDAYLIVYSI 90
Score = 40.7 bits (96), Expect = 5e-05
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTE 37
++ ++IG+ GVGKS L + F
Sbjct: 7 YRVVLIGEQGVGKSTLANIFAG 28
>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 = 96.9 bits (242), Expect = 5e-26
Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 7/82 (8%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K I+G++ GKS L+H++ ++ + G F + I V G+ L I D G
Sbjct: 21 LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRF-KKEIVVDGQSYLLLIRDEGGPP 78
Query: 147 RFRAVTRSYYRGAAGALMVIDV 168
+ + + V +
Sbjct: 79 ELQ-----FAAWVDAVVFVFSL 95
Score = 43.3 bits (103), Expect = 6e-06
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K I+G++ GKS L+H++ Y
Sbjct: 21 LKVGIVGNLSSGKSALVHRYLTGTY 45
>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 = 85.8 bits (213), Expect = 1e-21
Identities = 24/95 (25%), Positives = 45/95 (47%), Gaps = 1/95 (1%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
+ + K +++GD VGK+CLL F++ + T+ F +++ E+
Sbjct: 13 GAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEF 71
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVSH 170
L +WDTAGQE + + Y + L+ V++
Sbjct: 72 ILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNN 106
Score = 40.8 bits (96), Expect = 6e-05
Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLTQDYV 51
+ + K +++GD VGK+CLL F++ + YV
Sbjct: 13 GAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEI------PTAYV 53
>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 = 82.4 bits (204), Expect = 2e-20
Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 79 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQ 138
G S S K + +GD VGK+CLL +T F D T+ F + + V+G + L
Sbjct: 1 GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLG 59
Query: 139 IWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
+WDTAGQE + + YRGA ++ +
Sbjct: 60 LWDTAGQEDYNRLRPLSYRGADVFILAFSL 89
Score = 38.5 bits (90), Expect = 3e-04
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 8 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
G S S K + +GD VGK+CLL +T +
Sbjct: 1 GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTF 33
>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 = 81.3 bits (201), Expect = 1e-19
Identities = 27/97 (27%), Positives = 45/97 (46%), Gaps = 1/97 (1%)
Query: 72 VSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 131
M+ K +++GD G GK+ LL F + F T+ + ++V
Sbjct: 20 FQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVK 78
Query: 132 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
G+ + L IWDTAGQ+ + + +Y A+ L+ DV
Sbjct: 79 GKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDV 115
Score = 37.4 bits (87), Expect = 9e-04
Identities = 10/40 (25%), Positives = 19/40 (47%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
++M+ K +++GD G GK+ LL F + +
Sbjct: 20 FQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAF 59
>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 = 80.2 bits (198), Expect = 2e-19
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 147
K +++GD GK+CLL F++ +F T+ + I EV G++++L +WDTAGQE
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQED 85
Query: 148 FRAVTRSYYRGAAGALMVIDV 168
+ + Y LM V
Sbjct: 86 YDRLRPLSYPDTDVILMCFSV 106
Score = 36.3 bits (84), Expect = 0.002
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD GK+CLL F++ ++
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEF 50
>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 = 79.4 bits (196), Expect = 4e-19
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 1/96 (1%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
S + G + + K +I+GD GK+CLL F++ +F T+ E IEV G
Sbjct: 12 SGLVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDG 70
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
++++L +WDTAGQE + + Y LM +
Sbjct: 71 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 106
Score = 35.9 bits (83), Expect = 0.003
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
+ G + + K +I+GD GK+CLL F++ ++
Sbjct: 14 LVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQF 50
>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 = 79.0 bits (195), Expect = 6e-19
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 1/83 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K +++GD VGK+CLL +T F + T+ + + + V G+ + L +WDTAGQE
Sbjct: 31 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 147 RFRAVTRSYYRGAAGALMVIDVS 169
+ + Y L+ +
Sbjct: 90 DYDRLRPLSYPQTDVFLICFSLV 112
Score = 35.9 bits (83), Expect = 0.003
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD VGK+CLL +T +
Sbjct: 31 IKCVVVGDGAVGKTCLLISYTTNAF 55
>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 = 78.2 bits (193), Expect = 9e-19
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 147
K +++GD GK+ LLH F + F + T+ + E+ ++I+L +WDT+G
Sbjct: 9 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67
Query: 148 FRAVTRSYYRGAAGALMVIDVS 169
+ V Y + L+ D+S
Sbjct: 68 YDNVRPLSYPDSDAVLICFDIS 89
Score = 36.2 bits (84), Expect = 0.002
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD GK+ LLH F + +
Sbjct: 9 KIVVVGDSQCGKTALLHVFAKDCF 32
>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 = 78.3 bits (193), Expect = 1e-18
Identities = 27/113 (23%), Positives = 49/113 (43%), Gaps = 5/113 (4%)
Query: 57 STSQPITRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCP 116
S+ + L S M + + K +++GD GK+ LLH F + F +
Sbjct: 3 SSHHHHHHSSGLVPRGSHMDPN----QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV 58
Query: 117 HTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
T+ + E+ ++I+L +WDT+G + V Y + L+ D+S
Sbjct: 59 PTVFENYTA-SFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDIS 110
Score = 38.2 bits (89), Expect = 5e-04
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
S + + K +++GD GK+ LLH F + +
Sbjct: 16 PRGSHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCF 53
>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 = 78.0 bits (192), Expect = 2e-18
Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K +++GD+ GK+ +L + + T+ + +E ++++L +WDT+G
Sbjct: 28 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSP 86
Query: 147 RFRAVTRSYYRGAAGALMVIDVS 169
+ V Y + L+ D+S
Sbjct: 87 YYDNVRPLCYSDSDAVLLCFDIS 109
Score = 36.8 bits (85), Expect = 0.002
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD+ GK+ +L + Y
Sbjct: 28 CKLVLVGDVQCGKTAMLQVLAKDCY 52
>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 = 76.3 bits (188), Expect = 5e-18
Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 147
K +++GD VGK+CLL +T F + T+ + + + V G+ + L +WDTAGQE
Sbjct: 7 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 148 FRAVTRSYYRGAAGALMVIDVS 169
+ + Y +L+ +
Sbjct: 66 YDRLRPLSYPQTDVSLICFSLV 87
Score = 34.4 bits (79), Expect = 0.008
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD VGK+CLL +T +
Sbjct: 7 KCVVVGDGAVGKTCLLISYTTNAF 30
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 74.0 bits (182), Expect = 4e-17
Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 1/101 (0%)
Query: 68 LWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRI 127
+ + K +++GD VGK+ L+ +T + + T + + +
Sbjct: 2 MGPGEPGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAV 60
Query: 128 IEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
+ V G ++LQ+ DTAGQ+ F + Y L+ V
Sbjct: 61 VSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSV 101
Score = 36.2 bits (84), Expect = 0.002
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD VGK+ L+ +T Y
Sbjct: 22 KCVLVGDGAVGKTSLVVSYTTNGY 45
>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 = 73.7 bits (181), Expect = 6e-17
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 1/96 (1%)
Query: 73 SKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 132
+ SS + + K +++GD VGK+CLL + F + T+ + + V G
Sbjct: 5 AGRSSMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGG 63
Query: 133 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVIDV 168
++ L ++DTAGQE + + Y L+ V
Sbjct: 64 KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSV 99
Score = 35.9 bits (83), Expect = 0.003
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKY 40
K +++GD VGK+CLL + +
Sbjct: 19 LKCVVVGDGAVGKTCLLMSYANDAF 43
>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 = 73.2 bits (180), Expect = 1e-16
Identities = 30/87 (34%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 141
S S K + +GD VGK+C+L +T KF D T+ F + V G+ + L +WD
Sbjct: 5 SVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWD 63
Query: 142 TAGQERFRAVTRSYYRGAAGALMVIDV 168
TAGQE + + YRGA ++ +
Sbjct: 64 TAGQEDYSRLRPLSYRGADIFVLAFSL 90
Score = 38.5 bits (90), Expect = 3e-04
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKY 40
S S K + +GD VGK+C+L +T K+
Sbjct: 5 SVSKFIKCVTVGDGAVGKTCMLICYTSNKF 34
>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 = 64.0 bits (156), Expect = 2e-13
Identities = 21/94 (22%), Positives = 33/94 (35%), Gaps = 11/94 (11%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPH----------TIGVEFGT-RIIEVHGEKI 135
FK + G GK+ L + T+ +F I EV G K
Sbjct: 15 FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALMVIDVS 169
+ ++ GQ + A + RG G + V D +
Sbjct: 75 RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSA 108
>1upt_A ARL1, ADP-ribosylation factor-like protein 1;
hydrolase/protein-binding, complex (GTPase/golgin),
golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP;
1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*
Length = 171
Score = 57.2 bits (139), Expect = 5e-11
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 149
+I+G G GK+ +L++ + + P TIG F + +K Q+WD G R
Sbjct: 11 LILGLDGAGKTTILYRLQVGEVVTTIP-TIG--FNVETVTYKN--LKFQVWDLGGLTSIR 65
Query: 150 AVTRSYYRGAAGALMVID 167
R YY + V+D
Sbjct: 66 PYWRCYYSNTDAVIYVVD 83
>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein
binding; HET: GDP; 3.17A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 183
Score = 56.1 bits (136), Expect = 2e-10
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+ +I+G G GK+ +L++ + + P TIG F + +KL +WD GQ
Sbjct: 19 LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIG--FNVETLSYKN--LKLNVWDLGGQT 73
Query: 147 RFRAVTRSYYRGAAGALMVID 167
R R YY A + V+D
Sbjct: 74 SIRPYWRCYYADTAAVIFVVD 94
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 56.1 bits (136), Expect = 2e-10
Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 5/78 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 149
+++G GK+ +L++ + P T+G ++ I ++WD GQ R
Sbjct: 26 LMLGLDNAGKTSILYRLHLGDVVTTVP-TVG--VNLETLQYKN--ISFEVWDLGGQTGVR 80
Query: 150 AVTRSYYRGAAGALMVID 167
R Y+ + V+D
Sbjct: 81 PYWRCYFSDTDAVIYVVD 98
>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor,
protein transport-exchang complex; HET: GDP; 1.46A {Bos
taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A*
1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A*
1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A*
2a5f_A* 2j5x_A* 1e0s_A* ...
Length = 164
Score = 54.9 bits (133), Expect = 3e-10
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 5/78 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 149
+++G GK+ +L++ + + P TIG F +E I +WD GQ++ R
Sbjct: 4 LMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYKN--ISFTVWDVGGQDKIR 58
Query: 150 AVTRSYYRGAAGALMVID 167
+ R Y++ G + V+D
Sbjct: 59 PLWRHYFQNTQGLIFVVD 76
>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF
family; HET: CME GDP; 1.80A {Mus musculus} SCOP:
c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*
Length = 186
Score = 54.9 bits (133), Expect = 4e-10
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 149
+++G GK+ +L +F + P T+G F + +E G KL IWD GQ+ R
Sbjct: 22 LMLGLDNAGKTTILKKFNGEDVDTISP-TLG--FNIKTLEHRG--FKLNIWDVGGQKSLR 76
Query: 150 AVTRSYYRGAAGALMVID 167
+ R+Y+ G + V+D
Sbjct: 77 SYWRNYFESTDGLIWVVD 94
>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport
protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 187
Score = 55.0 bits (133), Expect = 4e-10
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 5/81 (6%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K II+G GK+ +L+QF+ + + P TIG I ++ + +WD GQE
Sbjct: 17 HKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--SNVEEIVINN--TRFLMWDIGGQE 71
Query: 147 RFRAVTRSYYRGAAGALMVID 167
R+ +YY ++V+D
Sbjct: 72 SLRSSWNTYYTNTEFVIVVVD 92
>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural
genomics, structural G consortium, SGC, protein
transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z6x_A* 3aq4_A*
Length = 192
Score = 54.6 bits (132), Expect = 5e-10
Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 10/90 (11%)
Query: 83 YSYIF-----KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKL 137
+S IF + +++G GK+ +L++ + + P TIG F +E I
Sbjct: 21 FSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYKN--ICF 75
Query: 138 QIWDTAGQERFRAVTRSYYRGAAGALMVID 167
+WD GQ++ R + R Y++ G + V+D
Sbjct: 76 TVWDVGGQDKIRPLWRHYFQNTQGLIFVVD 105
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 54.6 bits (132), Expect = 6e-10
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 5/81 (6%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
K II+G GK+ +L+QF+ + + P TIG I ++ + +WD GQE
Sbjct: 22 HKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--SNVEEIVINN--TRFLMWDIGGQE 76
Query: 147 RFRAVTRSYYRGAAGALMVID 167
R+ +YY ++V+D
Sbjct: 77 SLRSSWNTYYTNTEFVIVVVD 97
>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without
magnesium, ARF family, RAS superfamily, G-domain,
signaling protein; HET: MES GDP; 1.70A {Mus musculus}
SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*
Length = 181
Score = 53.7 bits (130), Expect = 1e-09
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 149
+++G GK+ LL Q + P T G F + ++ G KL +WD GQ + R
Sbjct: 20 LLLGLDNAGKTTLLKQLASEDISHITP-TQG--FNIKSVQSQG--FKLNVWDIGGQRKIR 74
Query: 150 AVTRSYYRGAAGALMVID 167
RSY+ + VID
Sbjct: 75 PYWRSYFENTDILIYVID 92
>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 = 53.2 bits (128), Expect = 3e-09
Identities = 15/82 (18%), Positives = 32/82 (39%), Gaps = 5/82 (6%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK-IKLQIWDTAGQERF 148
+ +G GK+ L + ++ +I + I +V+ + L + D G E
Sbjct: 11 LFVGLCDSGKTLLFVRLLTGQYRDTQT-SIT--DSSAIYKVNNNRGNSLTLIDLPGHESL 67
Query: 149 RA-VTRSYYRGAAGALMVIDVS 169
R + + A + V+D +
Sbjct: 68 RFQLLDRFKSSARAVVFVVDSA 89
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 53.7 bits (129), Expect = 3e-09
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 98 GKSCLLHQFTEQKFMPDCPHTIG--VEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSY 155
GK+ +L++ + + P T+G VE V + +K +WD GQ++ R + R Y
Sbjct: 334 GKTTILYKLKLGQSVTTIP-TVGFNVE------TVTYKNVKFNVWDVGGQDKIRPLWRHY 386
Query: 156 YRGAAGALMVID 167
Y G G + V+D
Sbjct: 387 YTGTQGLIFVVD 398
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 52.5 bits (126), Expect = 4e-09
Identities = 19/102 (18%), Positives = 32/102 (31%), Gaps = 10/102 (9%)
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 135
S G SY II G GK+ LL T P + + +
Sbjct: 2 SHMGIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQE-----PLSAADYDGS 55
Query: 136 KLQIWDTAGQERFRAVTRSYYRGAAGALM----VIDVSHVKE 173
+ + D G + R Y + A + ++D + +
Sbjct: 56 GVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPK 97
>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding,
membrane trafficking, structural genomics, structural
genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*
Length = 188
Score = 52.2 bits (126), Expect = 5e-09
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 98 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 157
GK+ ++ +F D T+G F R I + +++WD GQ RFR++ Y R
Sbjct: 34 GKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQPRFRSMWERYCR 89
Query: 158 GAAGALMVID 167
G + + ++D
Sbjct: 90 GVSAIVYMVD 99
>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein
transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP:
c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*
Length = 198
Score = 52.3 bits (126), Expect = 5e-09
Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 5/70 (7%)
Query: 98 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 157
GK+ LLH + + P T+ + + + G + +D G + R V ++Y
Sbjct: 37 GKTTLLHMLKDDRLGQHVP-TLH--PTSEELTIAG--MTFTTFDLGGHIQARRVWKNYLP 91
Query: 158 GAAGALMVID 167
G + ++D
Sbjct: 92 AINGIVFLVD 101
>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*
Length = 190
Score = 51.8 bits (125), Expect = 6e-09
Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 5/70 (7%)
Query: 98 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 157
GK+ LLH + P T + + + IK +D G + R + + Y+
Sbjct: 35 GKTTLLHMLKNDRLATLQP-TWH--PTSEELAIGN--IKFTTFDLGGHIQARRLWKDYFP 89
Query: 158 GAAGALMVID 167
G + ++D
Sbjct: 90 EVNGIVFLVD 99
>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GTP; 2.00A {Homo sapiens}
Length = 190
Score = 51.5 bits (124), Expect = 7e-09
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 90 IIIGDMGVGKSCLLHQF--TEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 147
+ +G GK+ ++++ + + P TIG F + + ++D +GQ R
Sbjct: 25 LCLGLDNSGKTTIINKLKPSNAQSQNILP-TIG--FSIEKFKSSS--LSFTVFDMSGQGR 79
Query: 148 FRAVTRSYYRGAAGALMVID 167
+R + YY+ + VID
Sbjct: 80 YRNLWEHYYKEGQAIIFVID 99
>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 = 50.5 bits (121), Expect = 2e-08
Identities = 18/112 (16%), Positives = 33/112 (29%), Gaps = 10/112 (8%)
Query: 66 NLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGT 125
+ K+ SY II G GK+ LL T P +
Sbjct: 28 QWREWIDEKLGGGSGGGGSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQE----- 81
Query: 126 RIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGAL----MVIDVSHVKE 173
+ + + + D G + R Y + A + ++D + +
Sbjct: 82 PLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPK 133
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
factor 1; structural genomics consortium, GTPase
activation; HET: GDP; 2.80A {Homo sapiens}
Length = 329
Score = 51.0 bits (122), Expect = 2e-08
Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 5/99 (5%)
Query: 69 WALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRII 128
A + +++G GK+ +L++ + + P TIG F +
Sbjct: 148 PAQNWTPPQPRGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETV 204
Query: 129 EVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVID 167
E I +WD GQ++ R + R Y++ G + V+D
Sbjct: 205 EYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD 241
>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 = 49.2 bits (117), Expect = 1e-07
Identities = 29/124 (23%), Positives = 53/124 (42%), Gaps = 9/124 (7%)
Query: 36 TEQKYFLGLQLTQDYVCLRLVSTSQPITRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDM 95
+ +YF+G+QL L+ K + + + + K +++GD
Sbjct: 113 GDVQYFIGVQLDGTEHVRDAAEREG--------VMLIKKTAENIDEAAKELIKCVVVGDG 164
Query: 96 GVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSY 155
VGK+CLL +T F + T+ + + + V G+ + L +WDTAG E + +
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 156 YRGA 159
Y
Sbjct: 224 YPQT 227
>3llu_A RAS-related GTP-binding protein C; structural genomics consortium,
SGC, cytoplasm, nucleotide-binding, nucleus,
phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB:
2q3f_A*
Length = 196
Score = 47.7 bits (113), Expect = 2e-07
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 9/87 (10%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPH---TIGVEFGTRIIEVHGEKIKLQIWDTAG 144
+ +++G GKS + + + T + + + QIWD G
Sbjct: 22 RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDIS---NSSFVNFQIWDFPG 78
Query: 145 QERFRAVT---RSYYRGAAGALMVIDV 168
Q F T +RG + VID
Sbjct: 79 QMDFFDPTFDYEMIFRGTGALIYVIDA 105
>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 = 48.7 bits (115), Expect = 3e-07
Identities = 32/201 (15%), Positives = 61/201 (30%), Gaps = 71/201 (35%)
Query: 30 CLLHQFTEQ-KYFLGLQLTQDYVCL-----------------------RLVSTSQP---- 61
LL + E + F+ L +Y L RL + +Q
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 62 -ITRKNLLWAL---VSKMSSSGQYSYSYIFKYIII-GDMGVGKSCL----LHQFTEQKFM 112
++R L + ++ + K ++I G +G GK+ + + Q M
Sbjct: 130 NVSRLQPYLKLRQALLELRPA---------KNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 113 PDCPH--TIGVEFGTR-IIEV-----------------HGEKIKLQIWDTAGQERFRAVT 152
+ ++E+ H IKL+I + R +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 153 RSYYRGAAGALMVID-VSHVK 172
+ Y L+V+ V + K
Sbjct: 241 KPYEN----CLLVLLNVQNAK 257
Score = 34.4 bits (78), Expect = 0.013
Identities = 17/112 (15%), Positives = 37/112 (33%), Gaps = 29/112 (25%)
Query: 17 KYIII-GDMGVGKSCL----LHQFTEQKYF--------LGLQLTQDYVCLRLVSTSQPIT 63
K ++I G +G GK+ + + Q L + + V L
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML-------- 202
Query: 64 RKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDC 115
+ LL+ + +S +S + + I ++ L + + +C
Sbjct: 203 -QKLLYQIDPNWTSRSDHSSNIKLRIHSI------QAELRRLLKSKPY-ENC 246
Score = 26.4 bits (57), Expect = 6.1
Identities = 26/155 (16%), Positives = 47/155 (30%), Gaps = 46/155 (29%)
Query: 9 QYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLTQDYVCLRLVSTSQPITRKNLL 68
QY YS+I + H + ++ R + Q I +
Sbjct: 471 QYFYSHI-GH--------------HLKNIEHPERMTLFRMVFLDFRFL--EQKIRHDSTA 513
Query: 69 WALVSKMSSSGQ----YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDC-PHTIGVEF 123
W + ++ Q Y YI + V +L F+P + I ++
Sbjct: 514 WNASGSILNTLQQLKFYK-PYICDNDPKYERLVNA--ILD------FLPKIEENLICSKY 564
Query: 124 GTRIIEVHGEKIKLQ-----IWDTAGQERFRAVTR 153
T ++ I L I++ A + V R
Sbjct: 565 -TDLLR-----IALMAEDEAIFEEA----HKQVQR 589
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 44.6 bits (105), Expect = 4e-06
Identities = 16/88 (18%), Positives = 29/88 (32%), Gaps = 7/88 (7%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV-HGEKIKLQIWDTAGQE 146
K +++G G GKS + + +G + + L +WD GQ+
Sbjct: 5 KLLLMGRSGSGKSSMR-SIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQD 63
Query: 147 RFRAVT-----RSYYRGAAGALMVIDVS 169
F ++ + V DV
Sbjct: 64 VFMENYFTKQKDHIFQMVQVLIHVFDVE 91
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 39.0 bits (90), Expect = 3e-04
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC----PHTIGVEFGTRIIEVHGEKIKLQIWDT 142
F + +G+ G+GKS L+ KF + + ++ T ++ ++KL I T
Sbjct: 43 FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVST 102
Query: 143 AG 144
G
Sbjct: 103 VG 104
>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 = 36.1 bits (83), Expect = 0.003
Identities = 32/159 (20%), Positives = 49/159 (30%), Gaps = 31/159 (19%)
Query: 22 GDMGVGKSCLLHQFTEQKY------FLGLQLTQDYVCLRLVSTSQPITRKNLLWALVSKM 75
G G+GKSCL ++F + T D+ R+V+ L W VS+
Sbjct: 35 GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDF-GGRVVNNDHF-----LYWGEVSRS 88
Query: 76 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIE---VHG 132
K I+ +F + + T + R
Sbjct: 89 LEDCVE-----CKMHIVEQT---------EFIDDQTFQPHRSTALQPYIKRAAATKLASA 134
Query: 133 EKIKLQIWDTAGQERF--RAVTRSYYRGAAGALMVIDVS 169
EK+ D G E+ + G L+ IDVS
Sbjct: 135 EKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVS 173
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 35.2 bits (80), Expect = 0.008
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQ 138
F +++G+ G+GKS L++ T+ VE +I+ G ++ L
Sbjct: 32 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLT 91
Query: 139 IWDTAG 144
I DT G
Sbjct: 92 IVDTPG 97
>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC,
mitosis, GDP, C cycle, cell division, GTP-binding,
nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB:
2qa5_A* 3ftq_A*
Length = 301
Score = 33.2 bits (75), Expect = 0.027
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 9/78 (11%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC---------PHTIGVEFGTRIIEVHGEKIKL 137
F +++G+ G+GKS L++ P+ T+ +E T IE G K++L
Sbjct: 19 FTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRL 78
Query: 138 QIWDTAGQERFRAVTRSY 155
+ DT G +
Sbjct: 79 TVVDTPGYGDAINCRDCF 96
>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 = 33.5 bits (76), Expect = 0.028
Identities = 15/137 (10%), Positives = 36/137 (26%), Gaps = 48/137 (35%)
Query: 40 YFLGLQLTQDYVCLRLVSTSQPITRKNL-----------LWA-----LVSKMSSSGQYSY 83
+F+ QL + + + P + L + S + S +
Sbjct: 27 FFIASQLQEQF------NKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQF 80
Query: 84 SYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 143
+ L +F E ++ G ++H KL +
Sbjct: 81 DQVLNL------------CLTEF-ENCYL----------EGN---DIHALAAKLLQENDT 114
Query: 144 GQERFRAVTRSYYRGAA 160
+ + + ++Y
Sbjct: 115 TLVKTKELIKNYITARI 131
Score = 32.7 bits (74), Expect = 0.054
Identities = 16/91 (17%), Positives = 31/91 (34%), Gaps = 32/91 (35%)
Query: 44 LQLTQDYVCLRLVSTSQPITRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSC-- 101
L++ + R+V I R + W ++ ++ +I+ D G G +
Sbjct: 468 LRVLSGSISERIVDC---IIRLPVKWETTTQFKAT----------HIL--DFGPGGASGL 512
Query: 102 --LLHQFTEQKFMPDCPHTIGVEFGTRIIEV 130
L H+ + G G R+I
Sbjct: 513 GVLTHRNKD-----------GT--GVRVIVA 530
Score = 31.2 bits (70), Expect = 0.18
Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 17/66 (25%)
Query: 106 FTEQK------FMP-DCP-HT---------IGVEFGTRIIEVHGEKIKLQIWDTAGQERF 148
F+E+K F+P P H+ I + + + + I++ ++DT
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Query: 149 RAVTRS 154
R ++ S
Sbjct: 469 RVLSGS 474
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 32.8 bits (74), Expect = 0.034
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQ 138
F +++G+ G+GKS L++ T+ VE +I+ G ++ L
Sbjct: 9 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLT 68
Query: 139 IWDTAG 144
I DT G
Sbjct: 69 IVDTPG 74
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 32.9 bits (74), Expect = 0.039
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 9/78 (11%)
Query: 87 FKYIIIGDMGVGKSCLLHQFTEQKFMPD---------CPHTIGVEFGTRIIEVHGEKIKL 137
F +++G+ G+GKS L++ P+ T+ +E T IE G K++L
Sbjct: 38 FTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRL 97
Query: 138 QIWDTAGQERFRAVTRSY 155
+ DT G +
Sbjct: 98 TVVDTPGYGDAINCRDCF 115
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus
solfataricus} SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 32.0 bits (72), Expect = 0.081
Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 5/60 (8%)
Query: 18 YIIIGDMGVGKSCLLHQFTEQKYFLGLQLTQDYVCLRLVSTSQPITRKNLLWALVSKMSS 77
+++G GKS ++ + + Y+ LR I+ K+ L L +++
Sbjct: 33 TLVLGLRRTGKSSIIKIGINELNLPYI-----YLDLRKFEERNYISYKDFLLELQKEINK 87
Score = 27.7 bits (61), Expect = 1.9
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 89 YIIIGDMGVGKSCLLHQFTEQK 110
+++G GKS ++ +
Sbjct: 33 TLVLGLRRTGKSSIIKIGINEL 54
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 31.6 bits (71), Expect = 0.11
Identities = 18/112 (16%), Positives = 32/112 (28%), Gaps = 5/112 (4%)
Query: 64 RKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEF 123
R + S +S + + S + + G+ G GKS ++ + GV
Sbjct: 47 RAGNIQLTNSAISDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVE 106
Query: 124 GTRIIEV--HGEKIKLQIWDTAGQERFRAVTRSYYRGAA---GALMVIDVSH 170
T H + WD G +Y +I +
Sbjct: 107 VTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISAT 158
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 30.8 bits (69), Expect = 0.19
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKYFLGLQLTQDYVCLRLVSTSQPITRKNLLWALVSKMSS 77
+++G VGKS LL F ++ + C L + ITR+ L+ L S +S
Sbjct: 35 LLLGIRRVGKSSLLRAFLNERPGIL------IDCRELYAERGHITREELIKELQSTISP 87
Score = 27.0 bits (59), Expect = 3.6
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 90 IIIGDMGVGKSCLLHQFTEQK 110
+++G VGKS LL F ++
Sbjct: 35 LLLGIRRVGKSSLLRAFLNER 55
>3l2p_A DNA ligase 3; DNA ligase, DNA repair, ATP-binding, cell cycle, cell
divisi damage; HET: DNA AMP; 3.00A {Homo sapiens}
Length = 579
Score = 30.9 bits (70), Expect = 0.21
Identities = 16/103 (15%), Positives = 35/103 (33%), Gaps = 7/103 (6%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKYFLGLQLTQDYV---CLRLVS 57
+K S + + + + GD+ Q LT V LRL
Sbjct: 73 VKLFSRIFNCNPDDMARDLEQGDVSETIRVFFEQSKSFPPAAKSLLTIQEVDEFLLRLSK 132
Query: 58 TSQPITRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMGVGKS 100
++ ++ L + S+ +++ I + +I D+ +
Sbjct: 133 LTKEDEQQQALQDIASRCTANDLK---CIIR-LIKHDLKMNSG 171
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.1 bits (65), Expect = 0.69
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
++ G G GK+ QF
Sbjct: 33 VLLTGGTGTGKTTFAAQF 50
Score = 29.1 bits (65), Expect = 0.69
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 89 YIIIGDMGVGKSCLLHQF 106
++ G G GK+ QF
Sbjct: 33 VLLTGGTGTGKTTFAAQF 50
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET:
GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*
Length = 270
Score = 28.4 bits (63), Expect = 1.1
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 13/61 (21%)
Query: 90 IIIGDMGVGKSCLLH------QFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 143
+++G GVGKS ++ + F + P + V G L I DT
Sbjct: 43 LVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVS-----RSRAG--FTLNIIDTP 95
Query: 144 G 144
G
Sbjct: 96 G 96
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 27.9 bits (63), Expect = 1.2
Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 29/72 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIG--------VEFG---TRIIEVHGEKIKLQ 138
+++G G GKS TIG V I + G I
Sbjct: 6 VLVGLPGSGKS-----------------TIGRRLAKALGVGLLDTDVAIEQRTGRSIA-D 47
Query: 139 IWDTAGQERFRA 150
I+ T G++ FR
Sbjct: 48 IFATDGEQEFRR 59
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 28.5 bits (64), Expect = 1.3
Identities = 18/94 (19%), Positives = 30/94 (31%), Gaps = 21/94 (22%)
Query: 91 IIGDMGVGKSCLLHQFTEQKF--MPDCPHTIGVEFGTR-----IIEVHGEKIKLQIWDTA 143
+ G VGKS ++ Q + D T T +E+H + + DT
Sbjct: 39 VAGRRNVGKSSFMNALVGQNVSIVSDYAGT------TTDPVYKSMELHPIG-PVTLVDTP 91
Query: 144 G-------QERFRAVTRSYYRGAAGALMVIDVSH 170
G R + A ++V D +
Sbjct: 92 GLDDVGELGRLRVEKARRVFYRADCGILVTDSAP 125
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 28.0 bits (62), Expect = 1.9
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
++ G G GK+ QF
Sbjct: 42 TLVSGTSGTGKTLFSIQF 59
Score = 28.0 bits (62), Expect = 1.9
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 89 YIIIGDMGVGKSCLLHQF 106
++ G G GK+ QF
Sbjct: 42 TLVSGTSGTGKTLFSIQF 59
Score = 25.7 bits (56), Expect = 9.4
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
+ G G GK+ L+ +F
Sbjct: 284 ILATGATGTGKTLLVSRF 301
Score = 25.7 bits (56), Expect = 9.4
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 89 YIIIGDMGVGKSCLLHQF 106
+ G G GK+ L+ +F
Sbjct: 284 ILATGATGTGKTLLVSRF 301
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 28.0 bits (63), Expect = 1.9
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 93 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR 126
G VG+SCL Q + + DC GV
Sbjct: 187 GFREVGRSCLYLQTPNSRVLLDC----GVNVAGG 216
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 27.1 bits (61), Expect = 2.5
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 29/71 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 138
+ IG MG GKS T+ I + +K+ +
Sbjct: 8 VFIGFMGSGKS-----------------TLARALAKDLDLVFLDSDFLIEQKFNQKVS-E 49
Query: 139 IWDTAGQERFR 149
I++ + FR
Sbjct: 50 IFEQKRENFFR 60
>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain,
acetylation, ADP- ribosylation, alternative splicing,
cell cycle, cell division; 2.40A {Homo sapiens}
Length = 227
Score = 26.9 bits (59), Expect = 2.8
Identities = 2/31 (6%), Positives = 6/31 (19%)
Query: 140 WDTAGQERFRAVTRSYYRGAAGALMVIDVSH 170
+ + G + V +
Sbjct: 107 DQQGSRYSVIPQIQKVCEVVDGFIYVANAEA 137
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 26.9 bits (60), Expect = 2.9
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 89 YIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 133
+ G+ G GK+ F + G+ G I V E
Sbjct: 26 IALTGEPGTGKTIFSLHFIAK----------GLRDGDPCIYVTTE 60
Score = 26.9 bits (60), Expect = 3.0
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
+ G+ G GK+ F
Sbjct: 26 IALTGEPGTGKTIFSLHF 43
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 27.3 bits (60), Expect = 2.9
Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTI---GVEFGTRIIEVHGEKIKL 137
I+ G GKS +++M I E+ ++ G I
Sbjct: 39 TILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPEREYKEMCRKLGGVWINC 89
Score = 25.7 bits (56), Expect = 8.7
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKYFLG 43
I+ G GKS ++Y G
Sbjct: 39 TILAKPGAGKSFTAKMLLLREYMQG 63
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP;
1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 27.1 bits (60), Expect = 3.2
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 13/61 (21%)
Query: 90 IIIGDMGVGKSCLLH------QFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 143
+++G GVGKS ++ F + + V + G + I DT
Sbjct: 40 LVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVS-----RTMGG--FTINIIDTP 92
Query: 144 G 144
G
Sbjct: 93 G 93
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia chrysanthemi}
SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 26.8 bits (60), Expect = 3.3
Identities = 10/72 (13%), Positives = 17/72 (23%), Gaps = 29/72 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 138
++G G G + T+G E + G +
Sbjct: 6 FMVGARGCGMT-----------------TVGRELARALGYEFVDTDIFMQHTSGMTVA-D 47
Query: 139 IWDTAGQERFRA 150
+ G FR
Sbjct: 48 VVAAEGWPGFRR 59
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A
3n2e_A*
Length = 168
Score = 26.7 bits (60), Expect = 3.4
Identities = 16/71 (22%), Positives = 27/71 (38%), Gaps = 29/71 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 138
++IG MG GKS ++ E G I E G ++ +
Sbjct: 11 VLIGFMGSGKS-----------------SLAQELGLALKLEVLDTDMIISERVGLSVR-E 52
Query: 139 IWDTAGQERFR 149
I++ G++ FR
Sbjct: 53 IFEELGEDNFR 63
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit;
metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J
recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10
PDB: 2i7v_A
Length = 459
Score = 27.2 bits (61), Expect = 3.6
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 93 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIE 129
VG+SC++ +F +K M DC G+ G ++
Sbjct: 19 AGQEVGRSCIILEFKGRKIMLDC----GIHPGLEGMD 51
>3t7h_A Ubiquitin-like modifier-activating enzyme ATG7; autophagy, ligase;
1.60A {Saccharomyces cerevisiae} PDB: 3t7f_A 3t7g_A
3ruj_A
Length = 291
Score = 26.6 bits (58), Expect = 4.0
Identities = 10/86 (11%), Positives = 20/86 (23%), Gaps = 6/86 (6%)
Query: 40 YFLGLQLTQDYVCLRLVSTSQPI---TRKNLLWALVSKMSSSGQYSYSYIFKYIIIGDMG 96
Y + + +R ST + + KN L L + + +
Sbjct: 194 YDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSVLQYDVPDLIDFK---LLIIRQNEGSF 250
Query: 97 VGKSCLLHQFTEQKFMPDCPHTIGVE 122
+ + G E
Sbjct: 251 ALNATFASIDPQSSSSNPDMKVSGWE 276
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 26.6 bits (59), Expect = 4.1
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 10/45 (22%)
Query: 89 YIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 133
++ G G GK+ QF G++ G I V E
Sbjct: 26 VLLSGGPGTGKTIFSQQFLWN----------GLKMGEPGIYVALE 60
Score = 26.6 bits (59), Expect = 4.2
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
++ G G GK+ QF
Sbjct: 26 VLLSGGPGTGKTIFSQQF 43
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 26.9 bits (60), Expect = 4.3
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 93 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR 126
G VG+SC L E + + DC GV G+
Sbjct: 191 GCKEVGRSCFLLSTPESRILIDC----GVNVGSD 220
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 26.3 bits (59), Expect = 4.5
Identities = 18/72 (25%), Positives = 26/72 (36%), Gaps = 29/72 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIG--------VEFG---TRIIEVHGEKIKLQ 138
++G MG GKS TIG +EF I + G +
Sbjct: 8 FLVGPMGAGKS-----------------TIGRQLAQQLNMEFYDSDQEIEKRTGADVG-W 49
Query: 139 IWDTAGQERFRA 150
++D G+E FR
Sbjct: 50 VFDLEGEEGFRD 61
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 26.4 bits (59), Expect = 4.5
Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 13/64 (20%)
Query: 90 IIIGDMGVGKSC---LLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 146
+IG MG GK+ L + T++ D I + G I I++ G+
Sbjct: 9 YLIGLMGAGKTSVGSQLAKLTKRILY-DSDK--------EIEKRTGADIA-WIFEMEGEA 58
Query: 147 RFRA 150
FR
Sbjct: 59 GFRR 62
>3ebh_A PFA-M1, M1 family aminopeptidase; hydrolase, metal-binding,
metalloprotease, P hydrolase inhibitor; HET: BES; 1.65A
{Plasmodium falciparum} PDB: 3ebg_A* 3ebi_A* 3q43_A*
3q44_A* 3t8v_A*
Length = 889
Score = 26.8 bits (59), Expect = 5.3
Identities = 10/65 (15%), Positives = 20/65 (30%), Gaps = 7/65 (10%)
Query: 99 KSCLLHQFTE------QKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVT 152
QF E P+ ++ F T + G ++ G+E ++
Sbjct: 350 DLLRSVQFLEDSSPLSHPIRPESYVSME-NFYTTTVYDKGSEVMRMYLTILGEEYYKKGF 408
Query: 153 RSYYR 157
Y +
Sbjct: 409 DIYIK 413
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 26.3 bits (58), Expect = 5.4
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 16/65 (24%)
Query: 90 IIIGDMGVGKSC---LLHQFTEQKFMPDCPHTIGVEFGTRIIE--VHGEKIKLQIWDTAG 144
++G MG GK+ ++ + F DC +IE + G + +I++ G
Sbjct: 52 YLVGMMGSGKTTVGKIMARSLGYTFF-DCDT---------LIEQAMKGTSVA-EIFEHFG 100
Query: 145 QERFR 149
+ FR
Sbjct: 101 ESVFR 105
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 25.7 bits (56), Expect = 6.5
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 8/68 (11%)
Query: 88 KYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQI 139
K II G+ GVGK+ L+ + E+ G RII G+K
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSS 61
Query: 140 WDTAGQER 147
++
Sbjct: 62 KFFTSKKL 69
>2ao3_A 29-kDa galactose-binding lectin; earthworm lumbricus terrestris,
hemagglutinin, R-type lectin, beta-trefoil fold, sugar
complex; HET: MGC; 1.80A {Lumbricus terrestris} PDB:
2d12_A* 2zqo_A* 2zqn_A* 2dry_A* 2drz_A* 2ds0_A*
Length = 130
Score = 25.5 bits (56), Expect = 6.7
Identities = 12/63 (19%), Positives = 25/63 (39%)
Query: 107 TEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVI 166
Q + D I + I+ E+I+ Q +D +R V+ + + +V+
Sbjct: 40 VNQLWYTDQQGVIRSKLNDFAIDASHEQIETQPFDPNNPKRAWIVSGNTIAQLSDRDIVL 99
Query: 167 DVS 169
D+
Sbjct: 100 DII 102
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 26.1 bits (58), Expect = 7.6
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 93 GDMGVGKSCLLHQFTEQKFMPDC 115
G VG+S LL Q E + D
Sbjct: 196 GFREVGRSALLVQTDESFVLVDF 218
>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 = 25.7 bits (56), Expect = 7.7
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 90 IIIGDMGVGKSCLLHQFT-EQKFM-PDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAG 144
+++G G GKS + + F +I + R ++ + DT G
Sbjct: 33 VLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV--VVDTPG 87
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 25.7 bits (57), Expect = 7.7
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 29/71 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 138
+ G MG GK+ T+G F + I E + + +
Sbjct: 29 FLTGYMGAGKT-----------------TLGKAFARKLNVPFIDLDWYIEERFHKTVG-E 70
Query: 139 IWDTAGQERFR 149
++ G+ FR
Sbjct: 71 LFTERGEAGFR 81
>3uy7_A KEMP eliminase KE59 R1 7/10H; structural genomics, israel
structural proteomics center, is barrel, lyase; 1.45A
{Escherichia coli} PDB: 3uxd_A* 3uxa_A* 3nyz_A 3nz1_A*
3uy8_A 3uyc_A 3uzj_A 3uz5_A 1igs_A 1juk_A 1jul_A* 3tc7_A
3tc6_A 1a53_A* 1lbf_A* 1lbl_A* 3nl8_A* 3nxf_A* 3o6y_X
3ud6_A* ...
Length = 252
Score = 25.6 bits (57), Expect = 7.8
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 11/39 (28%)
Query: 29 SCLLHQFTEQKYFLGLQLTQDYVCLRLV--STSQPITRK 65
L TE+KYF G + + LR + S S PI
Sbjct: 81 VIL----TEEKYFNG---SYED--LRKIASSVSIPILMW 110
>1i4n_A Indole-3-glycerol phosphate synthase; thermostable TIM-barrel
protein, salt bridges, electrostatic interactions,
lyase; 2.50A {Thermotoga maritima} SCOP: c.1.2.4 PDB:
1j5t_A
Length = 251
Score = 26.0 bits (58), Expect = 7.9
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 11/39 (28%)
Query: 29 SCLLHQFTEQKYFLGLQLTQDYVCLRLVS--TSQPITRK 65
S L TE+ YF G + +R T +PI K
Sbjct: 78 SIL----TEKHYFKG---DPAF--VRAARNLTCRPILAK 107
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 25.5 bits (57), Expect = 8.9
Identities = 15/71 (21%), Positives = 22/71 (30%), Gaps = 29/71 (40%)
Query: 90 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 138
+IG M GKS T+G + + G I Q
Sbjct: 4 YLIGFMCSGKS-----------------TVGSLLSRSLNIPFYDVDEEVQKREGLSIP-Q 45
Query: 139 IWDTAGQERFR 149
I++ G+ FR
Sbjct: 46 IFEKKGEAYFR 56
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 25.6 bits (57), Expect = 9.3
Identities = 5/23 (21%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLH 33
I+ + G + G++ L+H
Sbjct: 51 GVQAIYLW---GPVKSGRTHLIH 70
Score = 25.6 bits (57), Expect = 9.3
Identities = 5/23 (21%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 82 SYSYIFKYIIIGDMGVGKSCLLH 104
I+ + G + G++ L+H
Sbjct: 51 GVQAIYLW---GPVKSGRTHLIH 70
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
0.324 0.138 0.415
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: 2,568,988
Number of extensions: 139710
Number of successful extensions: 782
Number of sequences better than 10.0: 1
Number of HSP's gapped: 714
Number of HSP's successfully gapped: 253
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.5 bits)