RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10878
(131 letters)
>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 = 98.4 bits (246), Expect = 3e-27
Identities = 26/64 (40%), Positives = 37/64 (57%)
Query: 67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
+ K++V+GD GKTS + Q TF K YK T+G+DF L+ + + LQ+WD
Sbjct: 3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWD 62
Query: 127 IAGQ 130
I GQ
Sbjct: 63 IGGQ 66
>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 = 97.7 bits (244), Expect = 7e-27
Identities = 27/61 (44%), Positives = 38/61 (62%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+ KVI++GD VGKTS + RYV + + + YK T+G DF K V + +Q+WD AG
Sbjct: 8 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 130 Q 130
Q
Sbjct: 68 Q 68
>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 = 95.4 bits (238), Expect = 7e-26
Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
L KVI++GD VGKTS + +YV F YK T+G DF K V D + + +Q+WD AG
Sbjct: 8 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAG 66
Query: 130 Q 130
Q
Sbjct: 67 Q 67
>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 = 93.7 bits (234), Expect = 2e-25
Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 1/66 (1%)
Query: 65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
A LFKVI++GD VGK+S + RYV N F T+GV+F K ++ D + +Q+
Sbjct: 2 AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE-VDGHFVTMQI 60
Query: 125 WDIAGQ 130
WD AGQ
Sbjct: 61 WDTAGQ 66
>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 = 93.5 bits (233), Expect = 3e-25
Identities = 27/67 (40%), Positives = 44/67 (65%), Gaps = 1/67 (1%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ +K +K+++ GD VGK+SF+ R +N F+++ T+GVDF +K + D ++ LQ
Sbjct: 22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLI-VDGERTVLQ 80
Query: 124 LWDIAGQ 130
LWD AGQ
Sbjct: 81 LWDTAGQ 87
>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 = 92.7 bits (231), Expect = 9e-25
Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 55 RVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKW 114
VP + + LFK++++GD +VGKT VQR+ F + T+GVDF +K ++
Sbjct: 14 LVPRGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLE- 72
Query: 115 RDQQKIKLQLWDIAGQ 130
+++KLQ+WD AGQ
Sbjct: 73 IQGKRVKLQIWDTAGQ 88
>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 = 91.8 bits (229), Expect = 9e-25
Identities = 27/61 (44%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
K++V+G+ VGK+S +QRY + F KDYK T+GVDF + ++ + + ++L LWD AG
Sbjct: 5 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQ-VNDEDVRLMLWDTAG 63
Query: 130 Q 130
Q
Sbjct: 64 Q 64
>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 = 91.9 bits (229), Expect = 1e-24
Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK +VIG+ GK+ + ++++ FK D T+GV+F KI+ + +KLQ+WD AG
Sbjct: 10 LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN-VGGKYVKLQIWDTAG 68
Query: 130 Q 130
Q
Sbjct: 69 Q 69
>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 = 92.3 bits (230), Expect = 1e-24
Identities = 25/61 (40%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK +VIG GK+ + ++++N FK+D T+GV+F ++V + +KLQ+WD AG
Sbjct: 25 LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVN-VGGKTVKLQIWDTAG 83
Query: 130 Q 130
Q
Sbjct: 84 Q 84
>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 = 91.9 bits (229), Expect = 1e-24
Identities = 27/61 (44%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFKV++IGD VGK++ + R+ +N F + K T+GV+FA + ++ D + IK Q+WD AG
Sbjct: 29 LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ-VDGKTIKAQIWDTAG 87
Query: 130 Q 130
Sbjct: 88 L 88
>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 = 91.5 bits (228), Expect = 1e-24
Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FK I+IGD VGK+ + ++ + F D T+GV+F +I++ QKIKLQ+WD AG
Sbjct: 15 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIE-VSGQKIKLQIWDTAG 73
Query: 130 Q 130
Q
Sbjct: 74 Q 74
>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 = 91.6 bits (228), Expect = 2e-24
Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IG+ VGK+ + R+ +T+ DY T+GVDF +K V+ D + +KLQ+WD AG
Sbjct: 8 LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVE-LDGKTVKLQIWDTAG 66
Query: 130 Q 130
Q
Sbjct: 67 Q 67
>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 = 91.1 bits (227), Expect = 2e-24
Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FK+IVIGD VGKT R+ F + T+GVDF + V D ++IK+QLWD AG
Sbjct: 20 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVD-IDGERIKIQLWDTAG 78
Query: 130 Q 130
Q
Sbjct: 79 Q 79
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 91.1 bits (227), Expect = 2e-24
Identities = 30/61 (49%), Positives = 44/61 (72%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IGD VGK+S + R+ NTF Y T+GVDF ++ V+ + +K+KLQ+WD AG
Sbjct: 9 LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVE-INGEKVKLQIWDTAG 67
Query: 130 Q 130
Q
Sbjct: 68 Q 68
>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 = 91.1 bits (227), Expect = 3e-24
Identities = 30/61 (49%), Positives = 45/61 (73%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FK+++IG+ +VGKTSF+ RY ++F + TVG+DF +K V R ++IKLQ+WD AG
Sbjct: 22 MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVY-RHDKRIKLQIWDTAG 80
Query: 130 Q 130
Q
Sbjct: 81 Q 81
>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 = 90.7 bits (226), Expect = 3e-24
Identities = 26/61 (42%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IGD VGKT + R+ ++ F + T+G+DF ++ ++ D ++IKLQ+WD AG
Sbjct: 8 LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIE-LDGKRIKLQIWDTAG 66
Query: 130 Q 130
Q
Sbjct: 67 Q 67
>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 = 91.2 bits (227), Expect = 3e-24
Identities = 29/61 (47%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IG+ VGKT V+R+ Q F T+GVDF +K V+ + +K+KLQ+WD AG
Sbjct: 26 LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVE-INGEKVKLQIWDTAG 84
Query: 130 Q 130
Q
Sbjct: 85 Q 85
>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 = 91.2 bits (227), Expect = 3e-24
Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IGD VGK+ + R+ +T+ + Y T+GVDF ++ ++ D + IKLQ+WD AG
Sbjct: 33 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE-LDGKTIKLQIWDTAG 91
Query: 130 Q 130
Q
Sbjct: 92 Q 92
>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 = 90.7 bits (226), Expect = 3e-24
Identities = 24/61 (39%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FKV++IG+ VGKT+ + R+ +N F D + T+GV+F+ + V +K Q+WD AG
Sbjct: 25 VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVM-LGTAAVKAQIWDTAG 83
Query: 130 Q 130
Sbjct: 84 L 84
>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 = 91.7 bits (228), Expect = 3e-24
Identities = 27/61 (44%), Positives = 44/61 (72%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IGD VGK++ + R+ +N F D K T+GV+FA + ++ + ++IK Q+WD AG
Sbjct: 13 LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLE-IEGKRIKAQIWDTAG 71
Query: 130 Q 130
Q
Sbjct: 72 Q 72
>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 = 90.8 bits (226), Expect = 4e-24
Identities = 30/61 (49%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+VI+IG VGKTS ++R+ +TF + K TVGVDF +K V+ +KI+LQ+WD AG
Sbjct: 26 KLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVE-LRGKKIRLQIWDTAG 84
Query: 130 Q 130
Q
Sbjct: 85 Q 85
>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 = 90.8 bits (226), Expect = 4e-24
Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFKV++IGD VGK++ + R+ +N F + K T+GV+FA + ++ D + IK Q+WD AG
Sbjct: 5 LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ-VDGKTIKAQIWDTAG 63
Query: 130 Q 130
Q
Sbjct: 64 Q 64
>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 = 90.3 bits (225), Expect = 4e-24
Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK I+IGD VGK+ + ++ F+ + T+GV+F ++V D ++IKLQ+WD AG
Sbjct: 21 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVN-IDGKQIKLQIWDTAG 79
Query: 130 Q 130
Q
Sbjct: 80 Q 80
>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 = 90.4 bits (225), Expect = 5e-24
Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
K+++IG+ VGK+S + R+ +TF + T+GVDF +K + D K KL +WD AG
Sbjct: 15 TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTIS-VDGNKAKLAIWDTAG 73
Query: 130 Q 130
Q
Sbjct: 74 Q 74
>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 = 90.9 bits (226), Expect = 6e-24
Identities = 29/70 (41%), Positives = 37/70 (52%), Gaps = 9/70 (12%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------WRDQQKI 120
L K++ +GD VGKT+F+ RY N F + TVG+DF K V K+
Sbjct: 25 LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84
Query: 121 KLQLWDIAGQ 130
LQLWD AGQ
Sbjct: 85 HLQLWDTAGQ 94
>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 = 90.0 bits (224), Expect = 7e-24
Identities = 30/61 (49%), Positives = 46/61 (75%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FK+++IG+ +VGKTSF+ RY +TF + TVG+DF +K V R ++++KLQ+WD AG
Sbjct: 23 MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVY-RHEKRVKLQIWDTAG 81
Query: 130 Q 130
Q
Sbjct: 82 Q 82
>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 = 89.5 bits (223), Expect = 7e-24
Identities = 25/61 (40%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+ K+++IGD VGK+ + R+V++ F + T+G+DF +K V + +K+KLQ+WD AG
Sbjct: 3 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD-INGKKVKLQIWDTAG 61
Query: 130 Q 130
Q
Sbjct: 62 Q 62
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 89.6 bits (223), Expect = 1e-23
Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
LFK+++IGD VGK+ + R+ +T+ + Y T+GVDF ++ ++ D + IKLQ+WD AG
Sbjct: 16 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE-LDGKTIKLQIWDTAG 74
Query: 130 Q 130
Q
Sbjct: 75 Q 75
>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 = 89.6 bits (223), Expect = 1e-23
Identities = 28/61 (45%), Positives = 45/61 (73%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FK+++IG+ +VGKTSF+ RY ++F + TVG+DF +K + R+ ++IKLQ+WD AG
Sbjct: 8 MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIY-RNDKRIKLQIWDTAG 66
Query: 130 Q 130
Sbjct: 67 L 67
>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 = 88.7 bits (221), Expect = 1e-23
Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
FKV+++G+ VGKTS V RY +N F + T+G F K + +++ L +WD AG
Sbjct: 6 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLN-IGGKRVNLAIWDTAG 64
Query: 130 Q 130
Q
Sbjct: 65 Q 65
>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 = 88.8 bits (221), Expect = 2e-23
Identities = 25/65 (38%), Positives = 44/65 (67%), Gaps = 1/65 (1%)
Query: 66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
P + FK++ +G+ +VGKTS + R++ ++F Y+ T+G+DF K + + + ++LQLW
Sbjct: 10 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRTVRLQLW 68
Query: 126 DIAGQ 130
D AGQ
Sbjct: 69 DTAGQ 73
>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 = 88.9 bits (221), Expect = 3e-23
Identities = 26/61 (42%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+ K+++IGD VGK+ + R+V++ F + T+G+DF +K V + +K+KLQLWD AG
Sbjct: 20 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD-INGKKVKLQLWDTAG 78
Query: 130 Q 130
Q
Sbjct: 79 Q 79
>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 = 88.5 bits (220), Expect = 5e-23
Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 57 PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
P + + P+ FK++++GD GKT+FV+R++ F+K Y T+GV+ + +
Sbjct: 2 PHMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFH-TN 60
Query: 117 QQKIKLQLWDIAGQ 130
+ IK +WD AGQ
Sbjct: 61 RGPIKFNVWDTAGQ 74
>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 = 87.7 bits (218), Expect = 6e-23
Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 9/70 (12%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------WRDQQKI 120
L K + +GD VGKTS + +Y F + TVG+DF K V Q+I
Sbjct: 11 LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70
Query: 121 KLQLWDIAGQ 130
LQLWD AG
Sbjct: 71 HLQLWDTAGL 80
>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 = 88.1 bits (219), Expect = 6e-23
Identities = 24/66 (36%), Positives = 43/66 (65%), Gaps = 1/66 (1%)
Query: 65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
P + FK++ +G+ +VGKTS + R++ ++F Y+ T+G+DF K + + + ++LQL
Sbjct: 11 GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRTVRLQL 69
Query: 125 WDIAGQ 130
WD AG
Sbjct: 70 WDTAGL 75
>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 = 87.3 bits (217), Expect = 7e-23
Identities = 24/67 (35%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ KV ++GD VGK+S V R+VQ+ F + T+G F K V + K
Sbjct: 17 RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVP-CGNELHKFL 75
Query: 124 LWDIAGQ 130
+WD AGQ
Sbjct: 76 IWDTAGQ 82
>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 = 86.1 bits (214), Expect = 2e-22
Identities = 27/62 (43%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKD-YKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
FKV+++GD VGKT + R+ F + TVG+DF K++ D K+KLQ+WD A
Sbjct: 10 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLD-VDGVKVKLQMWDTA 68
Query: 129 GQ 130
GQ
Sbjct: 69 GQ 70
>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 = 85.7 bits (213), Expect = 3e-22
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 62 SFNAPPEK--LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK 119
S A K K++++GD GK+S V R+V++ F + + T+G F + + +
Sbjct: 2 SMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLA-VNDAT 60
Query: 120 IKLQLWDIAGQ 130
+K ++WD AGQ
Sbjct: 61 VKFEIWDTAGQ 71
>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 = 85.2 bits (212), Expect = 3e-22
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
KV ++GD VGK+S + R+V+++F + T+G F K V+ + K +WD AG
Sbjct: 7 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQ-YQNELHKFLIWDTAGL 65
>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 = 84.5 bits (210), Expect = 6e-22
Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
FK++++G+ VGK+S V R+V+ F + + T+G F + V D +K ++WD AGQ
Sbjct: 7 FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVC-LDDTTVKFEIWDTAGQ 65
>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 = 84.1 bits (208), Expect = 1e-21
Identities = 21/60 (35%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
K++++G+ VGK+S V R+V N F ++ + T+G F + V ++ +K ++WD AGQ
Sbjct: 4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVT-INEHTVKFEIWDTAGQ 62
>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 = 83.9 bits (208), Expect = 2e-21
Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV-DFALKIVKWRDQQKIKLQLWDIA 128
+K+ +IGD VGKT+++ R + F+K+Y TVG + + + IK +WD A
Sbjct: 11 TYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLD-DQGNVIKFNVWDTA 69
Query: 129 GQ 130
GQ
Sbjct: 70 GQ 71
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 82.7 bits (205), Expect = 6e-21
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 5/65 (7%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYV--QNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW-- 125
KV V+G+ TVGK++ + + + F KDY T GV+ + V + ++L+
Sbjct: 20 RCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVT-IPDTTVSVELFLL 78
Query: 126 DIAGQ 130
D AG
Sbjct: 79 DTAGS 83
>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 = 81.1 bits (201), Expect = 2e-20
Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 62 SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
F + +FKV+++G+ VGK++ + ++ D + + D++++
Sbjct: 15 YFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIM-VDKEEVT 73
Query: 122 LQLWDIAGQ 130
L ++DI Q
Sbjct: 74 LVVYDIWEQ 82
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 78.3 bits (194), Expect = 2e-19
Identities = 13/61 (21%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
+FKV+++G+ VGK++ + ++ D + + D++++ L ++DI
Sbjct: 2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIM-VDKEEVTLIVYDIWE 60
Query: 130 Q 130
Q
Sbjct: 61 Q 61
>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 = 78.6 bits (194), Expect = 2e-19
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQK--IKLQLWD 126
K++++G+ GKT+ +Q+ ++ TVG+D ++ RD++K + L +WD
Sbjct: 3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62
Query: 127 IAGQ 130
AG+
Sbjct: 63 FAGR 66
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 71.9 bits (177), Expect = 9e-17
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
P + KV+++G VGKTS ++V+ F + Y TV ++ + + + L
Sbjct: 18 GMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVT--LGKDEFHLH 75
Query: 124 LWDIAGQ 130
L D AGQ
Sbjct: 76 LVDTAGQ 82
>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 = 71.0 bits (175), Expect = 1e-16
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 62 SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
S + PP + K++V+G VGK++ +++Q+ F DY T+ D KI D +
Sbjct: 1 SMDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSV-DGIPAR 58
Query: 122 LQLWDIAGQ 130
L + D AGQ
Sbjct: 59 LDILDTAGQ 67
>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 = 71.1 bits (175), Expect = 1e-16
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
++V+V G VGK+S V R+V+ TF+ Y T+ + I D+ LQ+
Sbjct: 3 PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVIS--CDKSVCTLQI 60
Query: 125 WDIAGQ 130
D G
Sbjct: 61 TDTTGS 66
>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 = 70.6 bits (174), Expect = 1e-16
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
P K K+ ++G +VGK+S ++V+ F Y T+ F I + Q+ LQL
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLIT--VNGQEYHLQLV 59
Query: 126 DIAGQ 130
D AGQ
Sbjct: 60 DTAGQ 64
>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 = 70.3 bits (173), Expect = 2e-16
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
S + L KVI++G VGK++ +++ + F +DY+ T + K+V D
Sbjct: 6 SGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV--LDG 63
Query: 118 QKIKLQLWDIAGQ 130
+++++ + D AGQ
Sbjct: 64 EEVQIDILDTAGQ 76
>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 = 70.7 bits (174), Expect = 2e-16
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
+ K L KVI++G VGK++ +++ + F +DY+ T + K+V D
Sbjct: 2 AANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV--LDG 59
Query: 118 QKIKLQLWDIAGQ 130
+++++ + D AGQ
Sbjct: 60 EEVQIDILDTAGQ 72
>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 = 69.4 bits (171), Expect = 3e-16
Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
L KVI++G VGK++ +++ + F +DY+ T + K+V D +++++ + D A
Sbjct: 3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTA 60
Query: 129 GQ 130
GQ
Sbjct: 61 GQ 62
>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 = 69.5 bits (171), Expect = 5e-16
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
S R++ +K++V+G VGK++ + +QN F +Y T+ + ++V D
Sbjct: 9 SGRENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV--IDG 66
Query: 118 QKIKLQLWDIAGQ 130
+ L + D AGQ
Sbjct: 67 ETCLLDILDTAGQ 79
>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 = 68.4 bits (168), Expect = 2e-15
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
K+ + G VGK++ V R++ F +Y T+ + + D + + +++
Sbjct: 24 AKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT--IDDEVVSMEIL 81
Query: 126 DIAGQ 130
D AGQ
Sbjct: 82 DTAGQ 86
>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 = 68.1 bits (167), Expect = 2e-15
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+K K++V+GD VGKT + + + Y TV +F+ + ++ L
Sbjct: 17 IENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMK--YKNEEFILH 74
Query: 124 LWDIAGQ 130
LWD AGQ
Sbjct: 75 LWDTAGQ 81
>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 = 68.0 bits (167), Expect = 2e-15
Identities = 12/73 (16%), Positives = 30/73 (41%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
S R++ + ++G GK++ +++ F +Y + ++ + D
Sbjct: 9 SGRENLYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEET--VDH 66
Query: 118 QKIKLQLWDIAGQ 130
Q + L++ D A
Sbjct: 67 QPVHLRVMDTADL 79
>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 = 67.2 bits (165), Expect = 3e-15
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
L++V+++GDP VGKTS + + ++ +G D + + D + L + D
Sbjct: 3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTV-DGEDTTLVVVDTW 60
Query: 129 GQ 130
Sbjct: 61 EA 62
>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 = 67.2 bits (165), Expect = 3e-15
Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
++V V G VGK+S V R+V+ TF++ Y TV + I D+ LQ+ D G
Sbjct: 4 YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC--DKSICTLQITDTTGS 61
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 67.9 bits (166), Expect = 3e-15
Identities = 21/97 (21%), Positives = 36/97 (37%), Gaps = 36/97 (37%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------------- 113
+K +++G+ +VGK+S V R ++TF ++ T+G F +V
Sbjct: 7 SYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNN 66
Query: 114 --------------------WRDQQKIKLQLWDIAGQ 130
+ IK +WD AGQ
Sbjct: 67 NINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQ 103
>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 = 66.7 bits (164), Expect = 4e-15
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
+K++V+G VGK++ + +QN F + T+ + ++V D + L + D A
Sbjct: 2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVV--IDGETCLLDILDTA 59
Query: 129 GQ 130
GQ
Sbjct: 60 GQ 61
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 69.2 bits (169), Expect = 4e-15
Identities = 23/110 (20%), Positives = 41/110 (37%), Gaps = 12/110 (10%)
Query: 28 WENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
E+ P + +QG + + + + K + KV +IGD GKTS +
Sbjct: 4 LESPPPEIVKQGKEAVRQYFQSIEE-----ARSKGEALVHLQEIKVHLIGDGMAGKTSLL 58
Query: 88 QRYVQNTFKKDYKGTVGVDFALKIV-------KWRDQQKIKLQLWDIAGQ 130
++ + TF T G++ K + ++ WD GQ
Sbjct: 59 KQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQ 108
>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 = 66.8 bits (164), Expect = 5e-15
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ +K++V+GD VGK++ ++ Q F DY T+ D LK + D Q L
Sbjct: 12 PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTE-IDNQWAILD 69
Query: 124 LWDIAGQ 130
+ D AGQ
Sbjct: 70 VLDTAGQ 76
>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 = 67.1 bits (164), Expect = 7e-15
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
S+ P + KV+++GD GKTS + + F + Y TV + + +
Sbjct: 22 SMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQV--KG 79
Query: 118 QKIKLQLWDIAGQ 130
+ + L +WD AGQ
Sbjct: 80 KPVHLHIWDTAGQ 92
>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 = 66.8 bits (163), Expect = 8e-15
Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
+ P K++++GD GKT+ +Q ++ + + Y TV ++ + ++
Sbjct: 15 YFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLE--TEE 72
Query: 118 QKIKLQLWDIAGQ 130
Q+++L LWD +G
Sbjct: 73 QRVELSLWDTSGS 85
>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 = 65.6 bits (161), Expect = 9e-15
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
+ +K++V+G VGK++ ++VQ F + Y T+ + K V+ D Q+ L++ D A
Sbjct: 2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVE-VDCQQCMLEILDTA 59
Query: 129 GQ 130
G
Sbjct: 60 GT 61
>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 = 65.7 bits (161), Expect = 2e-14
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
+K++V+G VGK++ + +QN F +Y T+ + ++V D + L + D A
Sbjct: 3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV--IDGETCLLDILDTA 60
Query: 129 GQ 130
GQ
Sbjct: 61 GQ 62
>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 = 64.8 bits (159), Expect = 2e-14
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
+ +KV+V+G VGK++ ++V TF + Y T+ DF K ++ D L++ D A
Sbjct: 2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEV-DSSPSVLEILDTA 59
Query: 129 GQ 130
G
Sbjct: 60 GT 61
>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 = 65.2 bits (159), Expect = 3e-14
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ K +V+GD VGKT + Y N F +Y TV +++ ++ D + + L
Sbjct: 24 LYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLG 81
Query: 124 LWDIAGQ 130
LWD AGQ
Sbjct: 82 LWDTAGQ 88
>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 = 63.4 bits (155), Expect = 8e-14
Identities = 12/62 (19%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
++ V+GD GK+S + R++ ++ + + T + +++ D Q + + + A
Sbjct: 6 PELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYKKEMLV--DGQTHLVLIREEA 62
Query: 129 GQ 130
G
Sbjct: 63 GA 64
>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 = 63.2 bits (154), Expect = 1e-13
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
+ K + +GD VGKT + Y NTF DY TV +F+ +V + + L LW
Sbjct: 4 SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV--VNGATVNLGLW 61
Query: 126 DIAGQ 130
D AGQ
Sbjct: 62 DTAGQ 66
>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 = 62.6 bits (153), Expect = 2e-13
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
PE KV ++G+ + GK++ V RY+ T+ ++ G F +IV D Q L +
Sbjct: 18 GPE--LKVGIVGNLSSGKSALVHRYLTGTYVQEES-PEGGRFKKEIV--VDGQSYLLLIR 72
Query: 126 DIAGQ 130
D G
Sbjct: 73 DEGGP 77
>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 = 62.5 bits (152), Expect = 3e-13
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 61 KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
+ K++V+GD GKT+ + + ++ F ++Y TV ++ D Q+I
Sbjct: 19 SHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI--DTQRI 76
Query: 121 KLQLWDIAGQ 130
+L LWD +G
Sbjct: 77 ELSLWDTSGS 86
>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 = 62.5 bits (152), Expect = 3e-13
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
++ K++V+GD GKT + + ++ F + Y TV ++ I D
Sbjct: 13 LGTENLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIE--VDG 70
Query: 118 QKIKLQLWDIAGQ 130
++++L LWD AGQ
Sbjct: 71 KQVELALWDTAGQ 83
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 61.7 bits (150), Expect = 7e-13
Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 57 PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
P R + K +++GD VGKTS V Y N + +Y T +F+ + D
Sbjct: 7 PGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVS--VD 64
Query: 117 QQKIKLQLWDIAGQ 130
+ ++LQL D AGQ
Sbjct: 65 GRPVRLQLCDTAGQ 78
>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 = 60.2 bits (147), Expect = 1e-12
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
++KV+++G P VGK++ + + G + IV D ++ L ++DI
Sbjct: 2 VYKVLLLGAPGVGKSALARIF-GGVEDGPEAEAAGHTYDRSIVV--DGEEASLMVYDIWE 58
Query: 130 Q 130
Q
Sbjct: 59 Q 59
>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 = 60.8 bits (148), Expect = 1e-12
Identities = 25/67 (37%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ K K + +GD VGKT + Y N F DY TV +F+ + D Q + L
Sbjct: 3 HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVA--VDGQIVNLG 60
Query: 124 LWDIAGQ 130
LWD AGQ
Sbjct: 61 LWDTAGQ 67
>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 = 60.1 bits (146), Expect = 2e-12
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
+ K++V+GD GKT+ + + ++ F ++Y TV ++ D Q+I+L L
Sbjct: 2 SNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE--IDTQRIELSL 59
Query: 125 WDIAGQ 130
WD +G
Sbjct: 60 WDTSGS 65
>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 = 60.0 bits (146), Expect = 3e-12
Identities = 15/91 (16%), Positives = 39/91 (42%), Gaps = 5/91 (5%)
Query: 44 IEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRY--VQNTFKKDYKG 101
+++ +L + + + ++V++IG+ VGK++ + V ++ D +
Sbjct: 11 VDLGTENLYFQSMSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEV 70
Query: 102 TVGVDFALKIVKWRDQQ--KIKLQLWDIAGQ 130
G D + + + I L +W+ G+
Sbjct: 71 L-GEDTYERTLMVDGESATIILLDMWENKGE 100
>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 = 59.4 bits (144), Expect = 4e-12
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
+ P + K +V+GD VGKT + Y + F ++Y TV D V ++ L
Sbjct: 12 HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTV-GGKQYLLG 69
Query: 124 LWDIAGQ 130
L+D AGQ
Sbjct: 70 LYDTAGQ 76
>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 = 59.0 bits (143), Expect = 5e-12
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 61 KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
+ K++++GD GKT + + ++ F + Y TV ++ I D +++
Sbjct: 16 PRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIE--VDGKQV 73
Query: 121 KLQLWDIAGQ 130
+L LWD AGQ
Sbjct: 74 ELALWDTAGQ 83
>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 = 58.5 bits (142), Expect = 8e-12
Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 3/65 (4%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG-TVGVDFALKIVKWRDQQ--KIKLQLW 125
++V++IG+ VGK++ + D +G D + + + I L +W
Sbjct: 5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64
Query: 126 DIAGQ 130
+ G+
Sbjct: 65 ENKGE 69
>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super
family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8
PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D*
2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A*
3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...
Length = 186
Score = 57.5 bits (139), Expect = 2e-11
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
+ K +V+GD VGKT + Y N F +Y TV +++ ++ D + + L LWD
Sbjct: 2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWD 59
Query: 127 IAGQ 130
AGQ
Sbjct: 60 TAGQ 63
>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 = 49.0 bits (117), Expect = 3e-08
Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 12/74 (16%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG-----------TVGVDFALKIVKWRD 116
E FK++ G GKT+ ++ + + + KG T+ DF +
Sbjct: 12 EINFKIVYYGPGLSGKTTNLKW-IYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVK 70
Query: 117 QQKIKLQLWDIAGQ 130
K + L+ + GQ
Sbjct: 71 GFKTRFHLYTVPGQ 84
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 38.1 bits (88), Expect = 3e-04
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
K++++G GK+S ++ + + + +G ++ R + L LWD GQ
Sbjct: 5 KLLLMGRSGSGKSS-MRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQ 62
>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 = 35.3 bits (81), Expect = 0.003
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 55 RVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKW 114
+ ++ + ++L K +V+GD VGKT + Y N F +Y TV +++ ++
Sbjct: 140 LIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-- 197
Query: 115 RDQQKIKLQLWDIAGQ 130
D + + L LWD AG
Sbjct: 198 VDGKPVNLGLWDTAGL 213
>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 = 0.013
Identities = 13/98 (13%), Positives = 27/98 (27%), Gaps = 44/98 (44%)
Query: 29 ENVTPIVSEQGD--GEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSF 86
E + +V G G ++EI++ +N + V
Sbjct: 1824 EALQYVVERVGKRTGWLVEIVN--------------YNVENQ----QYVAA--------- 1856
Query: 87 VQRYVQNTFKKDYKGTV-GVDFALKIVKWRDQQKIKLQ 123
G + +D ++ + QKI +
Sbjct: 1857 --------------GDLRALDTVTNVLNFIKLQKIDII 1880
>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 = 32.6 bits (74), Expect = 0.019
Identities = 10/66 (15%), Positives = 23/66 (34%), Gaps = 7/66 (10%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD---YKGTVGVDFALKIVKWRDQQKIKLQL 124
+++++G GK+S + + + T + + + Q+
Sbjct: 18 GSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIY----KDDISNSSFVNFQI 73
Query: 125 WDIAGQ 130
WD GQ
Sbjct: 74 WDFPGQ 79
>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 = 32.2 bits (74), Expect = 0.027
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 63 FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
++ ++ ++G GKT+FV F +D TVG F ++ + + +
Sbjct: 15 VPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKG---NVTI 69
Query: 123 QLWDIAGQ 130
+LWDI GQ
Sbjct: 70 KLWDIGGQ 77
>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 = 30.7 bits (70), Expect = 0.079
Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
++K E+ +++++G GKT+ ++++ T+G F +K ++ R
Sbjct: 8 ILKKMKQ--KERELRLLMLGLDNAGKTTILKKFNGEDVDTISP-TLG--FNIKTLEHR-- 60
Query: 118 QKIKLQLWDIAGQ 130
KL +WD+ GQ
Sbjct: 61 -GFKLNIWDVGGQ 72
>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 = 30.8 bits (69), Expect = 0.10
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 42 EIIEIIDPSLKLVRVPS----IRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
EI+ +I+ ++ + I + + V V G+ GK+SF+
Sbjct: 37 EILNLIELRMRAGNIQLTNSAISDALKEIDSSVLNVAVTGETGSGKSSFI 86
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 30.0 bits (67), Expect = 0.17
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR 115
V+ +G GKT+ + + V +D +K + +
Sbjct: 15 MIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYE 59
>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 = 29.5 bits (67), Expect = 0.21
Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 10/74 (13%)
Query: 59 IRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG--VDFALKIVKWRD 116
+ + + KVI++G GKT+ + + F + + ++ +
Sbjct: 5 FTRIWRLFNHQEHKVIIVGLDNAGKTTILYQ-----FSMNEVVHTSPTIGSNVEEIVIN- 58
Query: 117 QQKIKLQLWDIAGQ 130
+ +WDI GQ
Sbjct: 59 --NTRFLMWDIGGQ 70
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.24
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 110 KIVKWRDQQKIKLQLWDIAGQ 130
I KWR++Q+ +LQ D A +
Sbjct: 86 SIRKWREEQRKRLQELDAASK 106
>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 = 29.1 bits (66), Expect = 0.30
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
SI + + P++ +++++G GKT+ +++ T G F +K V+ +
Sbjct: 4 SILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITP-TQG--FNIKSVQSQ-- 58
Query: 118 QKIKLQLWDIAGQ 130
KL +WDI GQ
Sbjct: 59 -GFKLNVWDIGGQ 70
>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 = 29.4 bits (65), Expect = 0.35
Identities = 23/120 (19%), Positives = 45/120 (37%), Gaps = 29/120 (24%)
Query: 1 MSYKAKKPILLPSASEDPSIDNWDKASWENVT-PIVSEQGDGEIIEIIDPSLKLVRVPSI 59
Y+ K +L ED +DN+D +++ I+S++ II D +R
Sbjct: 14 HQYQYKD--ILS-VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR---- 66
Query: 60 RKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK 119
LF ++ + VQ++V+ + +Y F + +K +Q
Sbjct: 67 ----------LFWTLL-----SKQEEMVQKFVEEVLRINY------KFLMSPIKTEQRQP 105
Score = 27.9 bits (61), Expect = 1.3
Identities = 20/118 (16%), Positives = 40/118 (33%), Gaps = 25/118 (21%)
Query: 15 SEDPS-IDNWDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSF--------NA 65
+ + DNW + + +T II+ SL ++ RK F +A
Sbjct: 338 RDGLATWDNWKHVNCDKLT------------TIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
Query: 66 P-PEKLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYK-GTVGV-DFALKIVKWRDQQK 119
P L +I V + + + +K K T+ + L++ + +
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY 443
Score = 26.7 bits (58), Expect = 3.2
Identities = 15/111 (13%), Positives = 29/111 (26%), Gaps = 28/111 (25%)
Query: 45 EIIDPSLKLVRVPSIR-KSFNAPP-----------------EKLFK------VIVIGDPT 80
E PS+ R + +N + L + V++ G
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160
Query: 81 VGKTSFVQRYVQN-TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
GKT + + + F L + + + L + Q
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKI---FWLNLKNCNSPETVLEMLQKLLYQ 208
>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 = 29.2 bits (65), Expect = 0.37
Identities = 14/92 (15%), Positives = 31/92 (33%), Gaps = 26/92 (28%)
Query: 61 KSFNAPPEKLFKVIVIGDPT---------VGKTSFVQRYVQ---NTFKKDYKGTVG-VDF 107
N + + + V+G +GK+ R+V+ + F D+ + DF
Sbjct: 10 GRENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDF 69
Query: 108 ALKIV-------------KWRDQQKIKLQLWD 126
++V D + K+ + +
Sbjct: 70 GGRVVNNDHFLYWGEVSRSLEDCVECKMHIVE 101
>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 = 28.8 bits (65), Expect = 0.39
Identities = 14/66 (21%), Positives = 31/66 (46%), Gaps = 10/66 (15%)
Query: 67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG--VDFALKIVKWRDQQKIKLQL 124
K +++++G GKT+ + R + T + F ++ + ++ +KL +
Sbjct: 15 SNKELRILILGLDGAGKTTILYR-----LQIGEVVTTKPTIGFNVETLSYK---NLKLNV 66
Query: 125 WDIAGQ 130
WD+ GQ
Sbjct: 67 WDLGGQ 72
>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 = 28.4 bits (64), Expect = 0.50
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 16/69 (23%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG------TVGVDFALKIVKWRDQQKIK 121
K V+ +G GKT+ + N K T+G F+++ K +
Sbjct: 19 SKEVHVLCLGLDNSGKTTII-----NKLKPSNAQSQNILPTIG--FSIEKFKSS---SLS 68
Query: 122 LQLWDIAGQ 130
++D++GQ
Sbjct: 69 FTVFDMSGQ 77
>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 = 28.4 bits (64), Expect = 0.51
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 10/65 (15%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG--VDFALKIVKWRDQQKIKLQLW 125
+ KVI++G GKT+ + + F + + ++ + + +W
Sbjct: 19 SQEHKVIIVGLDNAGKTTILYQ-----FSMNEVVHTSPTIGSNVEEIVIN---NTRFLMW 70
Query: 126 DIAGQ 130
DI GQ
Sbjct: 71 DIGGQ 75
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 28.6 bits (63), Expect = 0.53
Identities = 6/30 (20%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
+ F F ++V+G+ +GK++ +
Sbjct: 2 PLGSGFE------FTLMVVGESGLGKSTLI 25
>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem
G-domains, ligand binding protein; HET: GDP; 1.90A
{Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1
Length = 439
Score = 28.6 bits (65), Expect = 0.58
Identities = 13/92 (14%), Positives = 32/92 (34%), Gaps = 8/92 (8%)
Query: 3 YKAKKPILLPSASEDPSIDNWDKASWE-------NVTPIVSEQGDGEIIEIIDPSLKLVR 55
K+ +L + + + + E P+ +E + +++ +K +
Sbjct: 107 RKSTVDTILVANKAENLREFEREVKPELYSLGFGEPIPVSAEHNIN-LDTMLETIIKKLE 165
Query: 56 VPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
+ KV ++G P VGK++
Sbjct: 166 EKGLDLESKPEITDAIKVAIVGRPNVGKSTLF 197
>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 = 28.3 bits (64), Expect = 0.60
Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 10/61 (16%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG--VDFALKIVKWRDQQKIKLQLWDIAG 129
+++++G GKT+ + + K T + F ++ V+++ I +WD+ G
Sbjct: 2 RILMVGLDAAGKTTILYK-----LKLGEIVTTIPTIGFNVETVEYK---NISFTVWDVGG 53
Query: 130 Q 130
Q
Sbjct: 54 Q 54
>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET:
DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11
PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*
Length = 296
Score = 28.0 bits (63), Expect = 0.74
Identities = 8/37 (21%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFAL 109
++V +GK++FV++ VG+ L
Sbjct: 38 IMVTSGSGMGKSTFVRQQALQWGTA-MGKKVGL-AML 72
>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 = 27.9 bits (63), Expect = 0.77
Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 14/66 (21%)
Query: 69 KLFKVIVIGDPTVGKTSFVQRY----VQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
+ +++++G GKT+ + R V T T+G F ++ V ++ +K Q+
Sbjct: 6 REMRILILGLDGAGKTTILYRLQVGEVVTTIP-----TIG--FNVETVTYK---NLKFQV 55
Query: 125 WDIAGQ 130
WD+ G
Sbjct: 56 WDLGGL 61
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 28.0 bits (62), Expect = 0.87
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG 104
V V+G VGK++F+ R ++ K T
Sbjct: 164 DVYVVGCTNVGKSTFINRIIEEATGKGNVITTS 196
>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 = 27.6 bits (62), Expect = 0.94
Identities = 14/67 (20%), Positives = 32/67 (47%), Gaps = 10/67 (14%)
Query: 67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTV--GVDFALKIVKWRDQQKIKLQL 124
+K +++++G GKT+ + + K T + F ++ V+++ I +
Sbjct: 26 GKKQMRILMVGLDAAGKTTILYK-----LKLGEIVTTIPTIGFNVETVEYK---NICFTV 77
Query: 125 WDIAGQN 131
WD+ GQ+
Sbjct: 78 WDVGGQD 84
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 27.8 bits (62), Expect = 0.99
Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTV-GVDFALKIVKWRDQQKIKLQLWD 126
V+ +G GKT R + Y+ T + + I K + + L L D
Sbjct: 5 SSQRAVLFVGLCDSGKTLLFVRLLTG----QYRDTQTSITDSSAIYKVNNNRGNSLTLID 60
Query: 127 IAGQ 130
+ G
Sbjct: 61 LPGH 64
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural G medical structural genomics of
pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi}
PDB: 3hrk_A* 3hri_A
Length = 456
Score = 27.2 bits (61), Expect = 1.5
Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 19 SIDNWDKASWENVTPIVSEQG-DGEIIEIIDPSLKLVRVPSIRKSFNAPPEKL 70
+D +K E V ++ G + +++ I +L L + I + E +
Sbjct: 213 IVDKMEKIPREEVEAQLAVLGLEPTVVDAITTTLSLKSIDEIAQRVGEEHEAV 265
>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 = 27.3 bits (60), Expect = 1.5
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQ 92
K+I+ G+P VGKT+ V++ V+
Sbjct: 2 KIIITGEPGVGKTTLVKKIVE 22
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 26.8 bits (60), Expect = 1.7
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 15/78 (19%)
Query: 58 SIRKSFNA-PPEKLFKVIVIGDPTVGKTSFVQRY----VQNTFKKDYKGTVGVDFALKIV 112
S++++ P ++ +V+++G GKTS + R V T TVG L+ +
Sbjct: 9 SLKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLHLGDVVTTVP-----TVG--VNLETL 61
Query: 113 KWRDQQKIKLQLWDIAGQ 130
+++ I ++WD+ GQ
Sbjct: 62 QYK---NISFEVWDLGGQ 76
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 26.9 bits (59), Expect = 1.8
Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 3/58 (5%)
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
V+++G GK+S + N D T+ ++ I L + ++ GQ
Sbjct: 2 VLLMGVRRCGKSSICKVVFHNMQPLD---TLYLESTSNPSLEHFSTLIDLAVMELPGQ 56
>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 = 27.2 bits (60), Expect = 1.8
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 102 TVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
TVG F ++ V ++ +K +WD+ GQ
Sbjct: 353 TVG--FNVETVTYK---NVKFNVWDVGGQ 376
>3nzo_A UDP-N-acetylglucosamine 4,6-dehydratase; structural genomics,
PSI-2, protein structure initiative, MI center for
structural genomics, MCSG, NAD; HET: MSE NAD; 2.10A
{Vibrio fischeri} PDB: 3pvz_A*
Length = 399
Score = 27.0 bits (60), Expect = 1.8
Identities = 11/55 (20%), Positives = 18/55 (32%), Gaps = 1/55 (1%)
Query: 32 TPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSF 86
P + E D E+ + P + S + EK F+ T+ F
Sbjct: 284 EPHLCESEDEAR-ELAKTLPAQGKWPCLFTSSDTTGEKDFEEFFTDKETLDMARF 337
>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 = 27.0 bits (59), Expect = 1.9
Identities = 11/75 (14%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR-- 115
S+ + F F ++ +G+ +GK++ + F+ + L+ +
Sbjct: 36 SVSQGFC------FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQ 89
Query: 116 -DQQKIKLQLWDIAG 129
++KL + G
Sbjct: 90 ESNVRLKLTIVSTVG 104
>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 = 27.1 bits (59), Expect = 2.0
Identities = 8/30 (26%), Positives = 18/30 (60%), Gaps = 6/30 (20%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
S++K F F ++V+G+ +GK++ +
Sbjct: 12 SVKKGFE------FTLMVVGESGLGKSTLI 35
>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 = 27.2 bits (60), Expect = 2.1
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKG 101
++ G GKT V R+V+N +
Sbjct: 284 ILATGATGTGKTLLVSRFVENACANKERA 312
>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA
replication, ATPase; HET: FLC; 2.50A {Helicobacter
pylori}
Length = 338
Score = 27.0 bits (60), Expect = 2.3
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFAL 109
VI+ P++GKTS + V + V V F+L
Sbjct: 49 VIIGARPSMGKTSLMMNMVLSALND--DRGVAV-FSL 82
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural
genomics, structural genomics consortium, SGC, unknown
function; 1.70A {Plasmodium falciparum}
Length = 187
Score = 26.6 bits (59), Expect = 2.5
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 52 KLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD 98
+ +++ S R++ N P I++GDP VGKT+ V+ + D
Sbjct: 33 RAIQILS-RRTKNNP-------ILLGDPGVGKTAIVEGLAIKIVQGD 71
>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 = 26.8 bits (59), Expect = 2.6
Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 102 TVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
T+G F ++ V+++ I +WD+ GQ
Sbjct: 196 TIG--FNVETVEYK---NISFTVWDVGGQ 219
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 26.3 bits (59), Expect = 3.0
Identities = 20/98 (20%), Positives = 33/98 (33%), Gaps = 26/98 (26%)
Query: 3 YKAKKPILLPSA---SEDPSIDNWDKASWE----NVTPIVSEQGDG------EIIEIIDP 49
Y+ KKP++L A ++ + + PI G G + E
Sbjct: 108 YRTKKPVVL--AVNKLDNTEMRANIYDFYSLGFGEPYPISGTHGLGLGDLLDAVAEHFKN 165
Query: 50 SLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
E++ + +IG P VGK+S V
Sbjct: 166 -----------IPETKYNEEVIQFCLIGRPNVGKSSLV 192
>4g2n_A D-isomer specific 2-hydroxyacid dehydrogenase, Na; structural
genomics, protein structure initiative, nysgrc, P
biology; 1.70A {Polaromonas SP}
Length = 345
Score = 26.4 bits (59), Expect = 3.0
Identities = 12/76 (15%), Positives = 19/76 (25%), Gaps = 22/76 (28%)
Query: 1 MSYKAKKPIL----LPSASEDPSIDNWDKASWENVTPI------------------VSEQ 38
MS + A E +D T + +E
Sbjct: 23 MSTHPIQKAFLCRRFTPAIEAELRQRFDLEVNLEDTVLTPSGIASRAHGAEVLFVTATEA 82
Query: 39 GDGEIIEIIDPSLKLV 54
E+I + P LK +
Sbjct: 83 ITAEVIRKLQPGLKTI 98
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 26.1 bits (58), Expect = 3.1
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 52 KLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD 98
+ ++V R++ N P ++IG+P VGKT+ V+ Q +
Sbjct: 33 RTIQVLQ-RRTKNNP-------VLIGEPGVGKTAIVEGLAQRIINGE 71
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 26.2 bits (58), Expect = 3.4
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 4/35 (11%)
Query: 4 KAKKPILLPSASE---DPSIDNWDKASW-ENVTPI 34
K +K I+ PS SE S +D+ V P+
Sbjct: 107 KYRKRIIFPSTSEVYGMCSDKYFDEDHSNLIVGPV 141
>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics,
nysgxrc T18, GTPase, PSI, protein structure initiative;
HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8
Length = 282
Score = 26.1 bits (58), Expect = 3.6
Identities = 14/92 (15%), Positives = 33/92 (35%), Gaps = 12/92 (13%)
Query: 20 IDNWDKASW------ENVTPI-VSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFK 72
D W + + + ++ + +I+ S ++++ R + +
Sbjct: 63 ADAAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIR 122
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVG 104
++IG P VGK++ + N K G
Sbjct: 123 ALIIGIPNVGKSTLI-----NRLAKKNIAKTG 149
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 25.9 bits (57), Expect = 4.0
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 7/37 (18%)
Query: 53 LVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQR 89
+PSI +I+ G P VGK+SF+
Sbjct: 19 FQGLPSINPH-------KKTIILSGAPNVGKSSFMNI 48
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 25.9 bits (56), Expect = 4.3
Identities = 11/56 (19%), Positives = 18/56 (32%), Gaps = 5/56 (8%)
Query: 42 EIIEIIDPSLKLVRVPSIRKSFNAPPEKL-FKVIVIGDPTVGKTSFVQRYVQNTFK 96
I E L+ V R+ E + G+P GKT+ + +
Sbjct: 42 RIRETAA----LLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR 93
>3pu2_A Uncharacterized protein; SRPBCC superfamily, PSI-biology, NESG,
RHR263, structural GE protein structure initiative;
HET: MSE; 2.61A {Rhodobacter sphaeroides}
Length = 164
Score = 25.5 bits (56), Expect = 4.4
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 6/26 (23%)
Query: 48 DPSLKLVRVPSIRKSFNAPPEKLFKV 73
L+ R F A PE+L+
Sbjct: 12 ATRLEFRRH------FAATPEQLWAA 31
>2il5_A Hypothetical protein; structural genomics, APC23650, PSI-2,
structure initiative; 2.30A {Staphylococcus aureus
subsp} SCOP: d.129.3.5
Length = 171
Score = 25.6 bits (56), Expect = 4.6
Identities = 2/27 (7%), Positives = 11/27 (40%), Gaps = 6/27 (22%)
Query: 48 DPSLKLVRVPSIRKSFNAPPEKLFKVI 74
+++ ++ + PE +++
Sbjct: 13 HVEVEIEKL------YKFSPELVYEAW 33
>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A
{Bacillus phage SPP1}
Length = 315
Score = 25.6 bits (57), Expect = 4.9
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFAL 109
V++ P++GKT+F + +N D V + +L
Sbjct: 71 VLIAARPSMGKTAFALKQAKNMSDND--DVVNL-HSL 104
>3q64_A MLL3774 protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG; 1.50A {Mesorhizobium loti}
Length = 162
Score = 25.6 bits (56), Expect = 5.1
Identities = 6/34 (17%), Positives = 15/34 (44%), Gaps = 8/34 (23%)
Query: 46 IIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDP 79
++ + + R+ + APP K+F + +
Sbjct: 6 VVHSTFIIERL------YPAPPSKVFFALG--NA 31
>2jqm_A Envelope protein E; yellow fever envelope protein domain III,
asibi strain, structure, transferase; NMR {Yellow fever
virus} PDB: 2jv6_A
Length = 112
Score = 24.8 bits (54), Expect = 5.9
Identities = 12/48 (25%), Positives = 16/48 (33%)
Query: 2 SYKAKKPILLPSASEDPSIDNWDKASWENVTPIVSEQGDGEIIEIIDP 49
P +P D +K V PI S D +IE+ P
Sbjct: 37 KVPKGAPCKIPVIVADDLTAAINKGILVTVNPIASTNDDEVLIEVNPP 84
>1xuv_A Hypothetical protein MM0500; alpha-beta protein, northeast
structural genomics consortium, NESG, structural
genomics; 2.10A {Methanosarcina mazei GO1} SCOP:
d.129.3.5
Length = 178
Score = 25.3 bits (55), Expect = 6.2
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 14/54 (25%)
Query: 20 IDNWDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV 73
+ + + + N T I +E G EII + R F+AP E +FK
Sbjct: 1 MKGYGEMAKNNPTRITAEPGKQEII--------ITRE------FDAPRELVFKA 40
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 25.4 bits (55), Expect = 6.3
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQ 92
V + G P VGKT+ + + +
Sbjct: 3 HVFLTGPPGVGKTTLIHKASE 23
>2l9p_A Uncharacterized protein; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Staphylococcus epidermidis}
Length = 164
Score = 25.3 bits (55), Expect = 6.4
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 6/30 (20%)
Query: 44 IEIIDPSLKLVRVPSIRKSFNAPPEKLFKV 73
IE + R F+AP K+F
Sbjct: 3 IEKKKNKIIFTRT------FSAPINKVFDA 26
>2lf2_A Uncharacterized protein; NESG, structural genomics, PSI-biology,
protein structure in northeast structural genomics
consortium; NMR {Cytophaga hutchinsonii}
Length = 175
Score = 25.3 bits (55), Expect = 6.6
Identities = 3/26 (11%), Positives = 10/26 (38%), Gaps = 6/26 (23%)
Query: 48 DPSLKLVRVPSIRKSFNAPPEKLFKV 73
+ ++ + R F A +++
Sbjct: 15 NKTITIKRE------FAAVRAIVWEA 34
>1osn_A Thymidine kinase, VZV-TK; chickenpox, BVDU-MP, transferase; HET:
BVP ADP; 3.20A {Human herpesvirus 3} SCOP: c.37.1.1
Length = 341
Score = 25.5 bits (55), Expect = 6.7
Identities = 6/50 (12%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
+ ++ + G +GKT+ + ++ + + + + WR+
Sbjct: 9 KMGVLRIYLDGAYGIGKTTAAEEFLHHFAITPNRILL---IGEPLSYWRN 55
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 25.6 bits (57), Expect = 6.8
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 12/43 (27%)
Query: 54 VRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFV----QRYVQ 92
+++ R++ N P ++IG+P VGKT+ V QR V+
Sbjct: 183 IQILL-RRTKNNP-------VLIGEPGVGKTAIVEGLAQRIVK 217
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 25.5 bits (55), Expect = 7.4
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 5/48 (10%)
Query: 58 SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV 105
IR S P +V+++G GKTS R + + K
Sbjct: 130 KIRMSNFEGP----RVVIVGGSQTGKTSLS-RTLCSYALKFNAYQPLY 172
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 25.4 bits (55), Expect = 7.4
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 73 VIVIGDPTVGKTSFVQRYVQN 93
VI++G P GK++ + Q
Sbjct: 27 VILVGSPGSGKSTIAEELCQI 47
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 25.2 bits (56), Expect = 7.8
Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 4/24 (16%)
Query: 74 IVIGDPTVGKTSFV----QRYVQN 93
++IG+P VGKT+ Q+ + N
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQIINN 228
>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 = 24.9 bits (55), Expect = 8.4
Identities = 9/63 (14%), Positives = 23/63 (36%), Gaps = 6/63 (9%)
Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
+K K++ +G GKT+ + + + T+ + + + +D+
Sbjct: 23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVP-TLH--PTSEELTIA---GMTFTTFDL 76
Query: 128 AGQ 130
G
Sbjct: 77 GGH 79
>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural
genomics; HET: GDP; 1.96A {Thermus thermophilus}
Length = 161
Score = 24.8 bits (55), Expect = 8.7
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 70 LFKVIVIGDPTVGKTSFVQRYVQ 92
+ KV+++G P VGK+S R ++
Sbjct: 1 MHKVVIVGRPNVGKSSLFNRLLK 23
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 25.0 bits (54), Expect = 9.1
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 72 KVIVIGDPTVGKTSFVQRYVQ--NTFKKDYKGTVGVDFALKIVKWRD 116
V+V G P VG T+ Q + +YK ++ K +
Sbjct: 5 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEEN 51
>3udf_A Penicillin-binding protein 1A; transglycosylase, transpeptidase;
HET: MES; 1.70A {Acinetobacter baumannii} PDB: 3udi_A*
3udx_A* 3ue0_A* 3ue1_A*
Length = 731
Score = 25.0 bits (55), Expect = 9.2
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 2/66 (3%)
Query: 15 SEDPSIDNWDKASWENVTP--IVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFK 72
SE + N A V + DG + + + R S A P + +
Sbjct: 300 SEFRAYANTYPAQVTKVNSSSFEALMQDGSTVTVQWSGMSWARPYRNANSVGAAPSRASQ 359
Query: 73 VIVIGD 78
++ + D
Sbjct: 360 IVKVKD 365
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 24.9 bits (53), Expect = 9.4
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 5/28 (17%)
Query: 44 IEIIDPSLKLV---RVPSIRKSFNAPPE 68
++ + SLKL P++ + A E
Sbjct: 22 LKKLQASLKLYADDSAPAL--AIKATME 47
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 24.9 bits (55), Expect = 10.0
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 76 IGDPTVGKTSFV----QRYVQN 93
IG+P VGKT+ Q+ + N
Sbjct: 207 IGEPGVGKTAIAEGLAQQIINN 228
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
0.316 0.135 0.403
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,113,285
Number of extensions: 119763
Number of successful extensions: 656
Number of sequences better than 10.0: 1
Number of HSP's gapped: 570
Number of HSP's successfully gapped: 172
Length of query: 131
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 48
Effective length of database: 4,384,350
Effective search space: 210448800
Effective search space used: 210448800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (23.7 bits)