RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9521
(125 letters)
>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 = 95.4 bits (238), Expect = 3e-26
Identities = 38/170 (22%), Positives = 60/170 (35%), Gaps = 59/170 (34%)
Query: 4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
L++ K ++ E +L+LGLDNAGKTT L K + G + I+ T+G NI
Sbjct: 5 LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKT 56
Query: 64 IDINTVRLNFWDLGGQLELQSLWDK----------------------------------- 88
++ +LN WD+GGQ L+S W
Sbjct: 57 LEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEER 116
Query: 89 -------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+ + ++ +S I + SA+T
Sbjct: 117 LAGATLLIFANKQDLPGALSCNAIQEALELDS---IRSHHWRIQGCSAVT 163
>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 = 90.7 bits (226), Expect = 2e-24
Identities = 42/171 (24%), Positives = 55/171 (32%), Gaps = 60/171 (35%)
Query: 4 LVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG 62
L+S K E +L+LGLDNAGKTT L K + S IT T G NI
Sbjct: 2 LLSILRKLKSAPDQEVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIK 53
Query: 63 QIDINTVRLNFWDLGGQLELQSLWDK---------------------------------- 88
+ +LN WD+GGQ +++ W
Sbjct: 54 SVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEE 113
Query: 89 --------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+ E+ N H I R + SALT
Sbjct: 114 KLSCVPVLIFANKQDLLTAAPASEIAEGLN---LHTIRDRVWQIQSCSALT 161
>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 = 90.4 bits (225), Expect = 3e-24
Identities = 40/173 (23%), Positives = 58/173 (33%), Gaps = 60/173 (34%)
Query: 1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
M L + ++ + E V+I+GLDNAGKTT L + T+G N
Sbjct: 1 MGILFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN--------EVVHTSPTIGSN 51
Query: 61 IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
+ +I IN R WD+GGQ L+S W+
Sbjct: 52 VEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLA 111
Query: 89 ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+++CM V E+ S I + ALT
Sbjct: 112 HEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTS---IKDHQWHIQACCALT 161
>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 = 90.3 bits (225), Expect = 4e-24
Identities = 30/172 (17%), Positives = 54/172 (31%), Gaps = 59/172 (34%)
Query: 2 YTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNI 61
+ SG K+E + ++GL +GKTT++ + G + TVG N+
Sbjct: 8 HHHSSGLVP-RGSKEEMELTLVGLQYSGKTTFVNVIAS-------GQFNEDMIPTVGFNM 59
Query: 62 GQIDINTVRLNFWDLGGQLELQSLWDK--------------------------------- 88
+I V + WD+GGQ +S+W++
Sbjct: 60 RKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK 119
Query: 89 ---------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+ + +E+ N I R+ +S
Sbjct: 120 PQLQGIPVLVLGNKRDLPGALDEKELIEKMN---LSAIQDREICCYSISCKE 168
>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 = 88.8 bits (221), Expect = 1e-23
Identities = 40/173 (23%), Positives = 56/173 (32%), Gaps = 61/173 (35%)
Query: 1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
+ SG E V+I+GLDNAGKTT L + + T+G N
Sbjct: 7 HHHHSSGLVP--RGSQEHKVIIVGLDNAGKTTIL--------YQFSMNEVVHTSPTIGSN 56
Query: 61 IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
+ +I IN R WD+GGQ L+S W+
Sbjct: 57 VEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLA 116
Query: 89 ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+++CM V E+ S I + ALT
Sbjct: 117 HEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTS---IKDHQWHIQACCALT 166
>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 = 87.3 bits (217), Expect = 5e-23
Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 1 MYTLVSGFYKYML-RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGL 59
M + S + + E +LILGLD AGKTT L + T+G
Sbjct: 1 MGNIFSSMFDKLWGSNKELRILILGLDGAGKTTIL--------YRLQIGEVVTTKPTIGF 52
Query: 60 NIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
N+ + ++LN WDLGGQ ++ W D V
Sbjct: 53 NVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAV 89
>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 = 87.3 bits (217), Expect = 5e-23
Identities = 30/172 (17%), Positives = 50/172 (29%), Gaps = 61/172 (35%)
Query: 4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
SG E VL LGLDN+GKTT + K I T+G +I +
Sbjct: 10 HSSGLVP--RGSKEVHVLCLGLDNSGKTTIINKLKPS------NAQSQNILPTIGFSIEK 61
Query: 64 IDINTVRLNFWDLGGQLELQSLWDK----------------------------------- 88
+++ +D+ GQ ++LW+
Sbjct: 62 FKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPD 121
Query: 89 ---------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
D+RD + +V + I + + A+
Sbjct: 122 IKHRRIPILFFANKMDLRDAVTSVKVSQLLC---LENIKDKPWHICASDAIK 170
>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 = 82.7 bits (205), Expect = 4e-21
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 8 FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
+ + K + +L++GLD AGKTT L K T+G N+ ++
Sbjct: 20 LFSRIFGKKQMRILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYK 71
Query: 68 TVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
+ WD+GGQ +++ LW ++ G+
Sbjct: 72 NICFTVWDVGGQDKIRPLWRHYFQNTQGL 100
>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 = 81.9 bits (203), Expect = 8e-21
Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 9/97 (9%)
Query: 1 MYTLVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGL 59
+Y+ S +++ L K ++ LGLDNAGKTT L K + T+
Sbjct: 8 IYSGFSSVLQFLGLYKKTGKLVFLGLDNAGKTTLL--------HMLKDDRLGQHVPTLHP 59
Query: 60 NIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
++ I + +DLGG ++ + +W + G+
Sbjct: 60 TSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGI 96
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 80.4 bits (199), Expect = 3e-20
Identities = 26/99 (26%), Positives = 40/99 (40%), Gaps = 11/99 (11%)
Query: 1 MYTLVSGFYKYMLR---KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTV 57
M ++ + + + VL+LGLDNAGKT+ L + TV
Sbjct: 3 MGAWLASLKQTLGLLPADRKIRVLMLGLDNAGKTSIL--------YRLHLGDVVTTVPTV 54
Query: 58 GLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
G+N+ + + WDLGGQ ++ W D V
Sbjct: 55 GVNLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAV 93
>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 = 80.2 bits (198), Expect = 5e-20
Identities = 20/98 (20%), Positives = 40/98 (40%), Gaps = 8/98 (8%)
Query: 7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGM---NPSKITTTVGLNIGQ 63
+ R+ F ++ G +GKTT L+ +K + KG ++ T+ +
Sbjct: 4 STINFANREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLP 63
Query: 64 IDINTV-----RLNFWDLGGQLELQSLWDKDIRDCMGV 96
+DI V R + + + GQ+ + +R G+
Sbjct: 64 LDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGI 101
>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 = 76.8 bits (190), Expect = 4e-19
Identities = 27/154 (17%), Positives = 46/154 (29%), Gaps = 59/154 (38%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
+L++GLD AGKTT L K T+G N+ ++ + WD+GGQ
Sbjct: 3 ILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQ 54
Query: 80 LELQSLWDK------------------------------------------------DIR 91
+++ LW D+
Sbjct: 55 DKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP 114
Query: 92 DCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
+ M E+ H + R+ + A +
Sbjct: 115 NAMNAAEITDKLG---LHSLRHRNWYIQATCATS 145
>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 = 76.1 bits (188), Expect = 8e-19
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 8/84 (9%)
Query: 13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLN 72
E +LILGLD AGKTT L + T+G N+ + ++
Sbjct: 3 HMTREMRILILGLDGAGKTTIL--------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQ 54
Query: 73 FWDLGGQLELQSLWDKDIRDCMGV 96
WDLGG ++ W + V
Sbjct: 55 VWDLGGLTSIRPYWRCYYSNTDAV 78
>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 = 74.1 bits (183), Expect = 7e-18
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
L +L LGLDNAGKTT L K + + T +
Sbjct: 10 FRDVLASLGLWNKHGKLLFLGLDNAGKTTLL--------HMLKNDRLATLQPTWHPTSEE 61
Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
+ I ++ +DLGG ++ + LW
Sbjct: 62 LAIGNIKFTTFDLGGHIQARRLW 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 = 59.8 bits (145), Expect = 3e-12
Identities = 17/87 (19%), Positives = 28/87 (32%), Gaps = 12/87 (13%)
Query: 14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT---VR 70
+ + VL +GL ++GKT + T++ + +N
Sbjct: 4 KSSQRAVLFVGLCDSGKTLLF----VRLLTG----QYRDTQTSITDSSAIYKVNNNRGNS 55
Query: 71 LNFWDLGGQLEL-QSLWDKDIRDCMGV 96
L DL G L L D+ V
Sbjct: 56 LTLIDLPGHESLRFQLLDRFKSSARAV 82
>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 = 56.7 bits (137), Expect = 4e-11
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 9/75 (12%)
Query: 14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNF 73
+ ++I G N+GKT+ L T T + + + + D + +
Sbjct: 45 GSYQPSIIIAGPQNSGKTSLL----TLLTTD----SVRPTVVSQE-PLSAADYDGSGVTL 95
Query: 74 WDLGGQLELQSLWDK 88
D G ++L+
Sbjct: 96 VDFPGHVKLRYKLSD 110
>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 = 57.6 bits (139), Expect = 5e-11
Identities = 31/88 (35%), Positives = 42/88 (47%), Gaps = 12/88 (13%)
Query: 1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVG 58
T + L E +L+LGLD AGKTT L YK +TT TVG
Sbjct: 306 NSTASNSPGIEGLSNKEMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVG 355
Query: 59 LNIGQIDINTVRLNFWDLGGQLELQSLW 86
N+ + V+ N WD+GGQ +++ LW
Sbjct: 356 FNVETVTYKNVKFNVWDVGGQDKIRPLW 383
>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 = 55.9 bits (135), Expect = 9e-11
Identities = 13/69 (18%), Positives = 26/69 (37%), Gaps = 9/69 (13%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
++I G N+GKT+ L T T + + + + D + + D G
Sbjct: 15 IIIAGPQNSGKTSLL----TLLTTD----SVRPTVVSQE-PLSAADYDGSGVTLVDFPGH 65
Query: 80 LELQSLWDK 88
++L+
Sbjct: 66 VKLRYKLSD 74
>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 = 54.9 bits (132), Expect = 3e-10
Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 8 FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
+ + K E +L++GLD AGKTT L K T+G N+ ++
Sbjct: 156 QPRGLFGKKEMRILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYK 207
Query: 68 TVRLNFWDLGGQLELQSLW 86
+ WD+GGQ +++ LW
Sbjct: 208 NISFTVWDVGGQDKIRPLW 226
>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 = 51.1 bits (122), Expect = 5e-09
Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 5/82 (6%)
Query: 6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID 65
SG + + +L++GL +GK++ + + +T + I
Sbjct: 9 SGRENLYFQGSKPRILLMGLRRSGKSSIQK----VVFHKMSPNETLFLESTNKIYKDDIS 64
Query: 66 INT-VRLNFWDLGGQLELQSLW 86
++ V WD GQ++
Sbjct: 65 NSSFVNFQIWDFPGQMDFFDPT 86
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 48.8 bits (116), Expect = 5e-08
Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 5/76 (6%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID-INTVRLNFWDLGG 78
+L++G +GK++ F NY + ++ T+ + + + + LN WD GG
Sbjct: 6 LLLMGRSGSGKSSMR---SIIF-SNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGG 61
Query: 79 QLELQSLWDKDIRDCM 94
Q + +D +
Sbjct: 62 QDVFMENYFTKQKDHI 77
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 39.7 bits (92), Expect = 8e-05
Identities = 14/67 (20%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
VL++G+ GK++ K F N + ++ + +T ++ + L +L GQ
Sbjct: 2 VLLMGVRRCGKSSIC---KVVF-HNMQPLDTLYLESTSNPSLEHFS-TLIDLAVMELPGQ 56
Query: 80 LELQSLW 86
L
Sbjct: 57 LNYFEPS 63
>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 = 39.1 bits (90), Expect = 1e-04
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 14/83 (16%)
Query: 43 KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLG---------GQLELQSLWDKDIRDC 93
N+K +N K+TT + ++ ++ R F L L L +W I+
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL-LSLIWFDVIKSD 403
Query: 94 MGVREVKPIFNKNSAHLIGRRDC 116
V V +K S L+ ++
Sbjct: 404 --VMVVVNKLHKYS--LVEKQPK 422
Score = 25.6 bits (55), Expect = 6.3
Identities = 18/91 (19%), Positives = 33/91 (36%), Gaps = 9/91 (9%)
Query: 13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL- 71
LR + VLI G+ +GKT + + + + KI LN+ + L
Sbjct: 147 LRPAKN-VLIDGVLGSGKTW-V-ALDVCLSYKVQCKMDFKI---FWLNLKNCNSPETVLE 200
Query: 72 NFWDLGGQLE--LQSLWDKDIRDCMGVREVK 100
L Q++ S D + + ++
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
>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 = 37.3 bits (87), Expect = 4e-04
Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 18/101 (17%)
Query: 1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGL 59
M + G + F ++++G GKTT+++ +F K Y T+G+
Sbjct: 4 MASAAQGEPQVQ-----FKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGV 50
Query: 60 NIG----QIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
+ + ++ N WD GQ + L D
Sbjct: 51 EVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCA 91
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 35.0 bits (80), Expect = 0.004
Identities = 16/71 (22%), Positives = 27/71 (38%), Gaps = 5/71 (7%)
Query: 20 VLILGLDNAGKTTYLES-AKTKFTKNYK---GMNPSKITTTVGLNIG-QIDINTVRLNFW 74
V ++G AGKT+ L+ F G+N + ++ +FW
Sbjct: 44 VHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFW 103
Query: 75 DLGGQLELQSL 85
D GGQ + +
Sbjct: 104 DFGGQEIMHAS 114
>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 = 34.3 bits (79), Expect = 0.004
Identities = 20/76 (26%), Positives = 29/76 (38%), Gaps = 12/76 (15%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVG-------LNIGQIDINTV 69
++I+G +GKTT L + K K + T VG + I +
Sbjct: 2 RMKLMIVGNTGSGKTTLL----QQLMKTKKSDLGMQSAT-VGIDVKDWPIQIRDKRKRDL 56
Query: 70 RLNFWDLGGQLELQSL 85
LN WD G+ E S
Sbjct: 57 VLNVWDFAGREEFYST 72
>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 = 33.6 bits (77), Expect = 0.009
Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 15 KDEFCVLILGLDNAGKTTYLE---SAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL 71
+ +++ G N GK++++ A ++Y TT L +G D +
Sbjct: 27 PHKKTIILSGAPNVGKSSFMNIVSRANVD-VQSYS-------FTTKNLYVGHFDHKLNKY 78
Query: 72 NFWDLGGQLE 81
D G L+
Sbjct: 79 QIIDTPGLLD 88
>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 = 32.7 bits (74), Expect = 0.023
Identities = 20/127 (15%), Positives = 38/127 (29%), Gaps = 36/127 (28%)
Query: 3 TLVSGFYKYMLRKDEFCVLILGLDNAGKTT----------YLESAKTKFTKNYKGMNPSK 52
++ F L ++ L L TT Y+ A+ + + + S
Sbjct: 86 LCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT-ARIMAKRPFDKKSNSA 144
Query: 53 ITTTVGLNIGQIDINTVRLNFWDLGGQ-------LELQSLWD--KDIRDCMGVREVKPIF 103
+ V G + + F GGQ EL+ L+ + V +
Sbjct: 145 LFRAV--GEGNAQLVAI---F---GGQGNTDDYFEELRDLYQTYHVL--------VGDLI 188
Query: 104 NKNSAHL 110
++ L
Sbjct: 189 KFSAETL 195
>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 = 31.0 bits (70), Expect = 0.060
Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
VL+ G GKT L+ K+ P TV N + + V L+ WD
Sbjct: 30 LVLV-GDVQCGKTAMLQV----LAKDC---YPETYVPTVFENYTACLETEEQRVELSLWD 81
Query: 76 LGGQLELQSL 85
G ++
Sbjct: 82 TSGSPYYDNV 91
>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 = 31.1 bits (71), Expect = 0.063
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 14/68 (20%)
Query: 18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVG-----LNIGQIDINTVRL 71
+ + ++G GKTTY+ +F KNY TVG + N ++
Sbjct: 12 YKICLIGDGGVGKTTYINRVLDGRFEKNYN--------ATVGAVNHPVTFLDDQGNVIKF 63
Query: 72 NFWDLGGQ 79
N WD GQ
Sbjct: 64 NVWDTAGQ 71
>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold,
GTPase, GTP binding, protein binding, signali protein;
HET: GNP; 2.30A {Homo sapiens}
Length = 204
Score = 30.9 bits (70), Expect = 0.074
Identities = 22/71 (30%), Positives = 28/71 (39%), Gaps = 11/71 (15%)
Query: 18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFW 74
CV ++G GKT L S +T N P + TV N +D V L W
Sbjct: 32 KCV-VVGDGAVGKTCLLIS----YTTNA---FPGEYIPTVFDNYSANVMVDGKPVNLGLW 83
Query: 75 DLGGQLELQSL 85
D GQ + L
Sbjct: 84 DTAGQEDYDRL 94
>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 = 30.1 bits (68), Expect = 0.13
Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
V++ G GKT L F+K+ P TV N ++D V L WD
Sbjct: 28 LVIV-GDGACGKTCLLIV----FSKDQ---FPEVYVPTVFENYIADIEVDGKQVELALWD 79
Query: 76 LGGQLELQSL 85
GQ + L
Sbjct: 80 TAGQEDYDRL 89
>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 = 30.1 bits (67), Expect = 0.16
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 10 KYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN-- 67
K + + F +L +G GK+T +++ F ++G + V L D+
Sbjct: 35 KSVSQGFCFNILCVGETGLGKSTLMDTL---FNTKFEGEPATHTQPGVQLQSNTYDLQES 91
Query: 68 --TVRLNFWDLGG 78
++L G
Sbjct: 92 NVRLKLTIVSTVG 104
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 30.2 bits (68), Expect = 0.17
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 11/72 (15%)
Query: 13 LRKDEFCVLILGLDNAGKTTYLE---SAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTV 69
+ + V+I G N GK+T L+ +AK + +Y TT G+N+GQ +
Sbjct: 163 VDLEIPTVVIAGHPNVGKSTLLKALTTAKPE-IASYP-------FTTRGINVGQFEDGYF 214
Query: 70 RLNFWDLGGQLE 81
R D G L+
Sbjct: 215 RYQIIDTPGLLD 226
>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 = 29.3 bits (66), Expect = 0.24
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
V++ G GKT L F K+ P TV N +ID + L+ WD
Sbjct: 10 IVVV-GDSQCGKTALLHV----FAKDC---FPENYVPTVFENYTASFEIDTQRIELSLWD 61
Query: 76 LGGQLELQSL 85
G ++
Sbjct: 62 TSGSPYYDNV 71
>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 = 28.5 bits (64), Expect = 0.41
Identities = 21/66 (31%), Positives = 27/66 (40%), Gaps = 11/66 (16%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
CV + G GKT L S +T N P+ TV N ++ TV L WD
Sbjct: 11 CVTV-GDGAVGKTCLLIS----YTSNT---FPTDYVPTVFDNFSANVVVNGATVNLGLWD 62
Query: 76 LGGQLE 81
GQ +
Sbjct: 63 TAGQED 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 = 28.0 bits (63), Expect = 0.60
Identities = 21/79 (26%), Positives = 32/79 (40%), Gaps = 18/79 (22%)
Query: 6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-- 62
+ K +L+ V+ILG GKT+ + KF+ YK T+G +
Sbjct: 2 TSRKKVLLK-----VIILGDSGVGKTSLMNQYVNKKFSNQYK--------ATIGADFLTK 48
Query: 63 --QIDINTVRLNFWDLGGQ 79
+D V + WD GQ
Sbjct: 49 EVMVDDRLVTMQIWDTAGQ 67
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 27.7 bits (61), Expect = 0.79
Identities = 8/50 (16%), Positives = 19/50 (38%)
Query: 22 ILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL 71
I+G ++GKTT + + + K I + ++ ++
Sbjct: 7 IVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHGDFEIDKEGKDSWKI 56
>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 = 27.5 bits (62), Expect = 0.84
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
+ + V++LG GK++ + KF T+G+ +
Sbjct: 4 KSSLFK-----VILLGDGGVGKSSLMNRYVTNKFDTQLF--------HTIGVEFLNKDLE 50
Query: 64 IDINTVRLNFWDLGGQ 79
+D + V + WD GQ
Sbjct: 51 VDGHFVTMQIWDTAGQ 66
>1qhl_A Protein (cell division protein MUKB); SMC, chromosome
partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12
Length = 227
Score = 27.9 bits (61), Expect = 0.85
Identities = 10/43 (23%), Positives = 19/43 (44%)
Query: 7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMN 49
GF+ DE + G + AGK+T + + T + ++
Sbjct: 17 GFFARTFDLDELVTTLSGGNGAGKSTTMAAFVTALIPDLTLLH 59
>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 = 27.7 bits (62), Expect = 0.93
Identities = 28/98 (28%), Positives = 40/98 (40%), Gaps = 19/98 (19%)
Query: 18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINTV 69
F ++ LG + GKT+ + T+F + + + T IG ++ TV
Sbjct: 17 FKLVFLGEQSVGKTSLI----TRFMYDS--FDNTYQAT-----IGIDFLSKTMYLEDRTV 65
Query: 70 RLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
RL WD G +SL IRD V I N NS
Sbjct: 66 RLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNS 103
>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 = 27.4 bits (61), Expect = 1.0
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
V++ G GKT L F K+ P TV N +ID + L+ WD
Sbjct: 31 IVVV-GDSQCGKTALLHV----FAKDC---FPENYVPTVFENYTASFEIDTQRIELSLWD 82
Query: 76 LGGQLELQSL 85
G ++
Sbjct: 83 TSGSPYYDNV 92
>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 = 27.5 bits (62), Expect = 1.0
Identities = 28/96 (29%), Positives = 42/96 (43%), Gaps = 19/96 (19%)
Query: 7 GFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGL--NIGQ 63
G + L+ +++LG +GKT+ A+ F K YK T+GL + +
Sbjct: 1 GSHMRQLK-----IVVLGDGASGKTSLTTCFAQETFGKQYK--------QTIGLDFFLRR 47
Query: 64 IDIN---TVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
I + V L WD+GGQ + DK I GV
Sbjct: 48 ITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGV 83
>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 = 27.5 bits (62), Expect = 1.0
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGL--NIGQID 65
+ ++ ++++G GK++ ++ K FTK+YK T+G+ QI
Sbjct: 2 SEVAIK-----MVVVGNGAVGKSSMIQRYCKGIFTKDYK--------KTIGVDFLERQIQ 48
Query: 66 IN--TVRLNFWDLGGQ 79
+N VRL WD GQ
Sbjct: 49 VNDEDVRLMLWDTAGQ 64
>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome
condensation, condensin, SMC, N subunit, ABC-type
ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
ducreyi} PDB: 3euk_A*
Length = 483
Score = 27.6 bits (60), Expect = 1.2
Identities = 11/43 (25%), Positives = 18/43 (41%)
Query: 7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMN 49
GF+ DE + G + AGK+T + T + +N
Sbjct: 19 GFFARTFDFDELVTTLSGGNGAGKSTTMAGFVTALIPDLTLLN 61
>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 = 27.0 bits (60), Expect = 1.3
Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG---QIDINTVRLNFWD 75
V++ G GKT L F+K+ P TV N ++D V L WD
Sbjct: 28 LVVV-GDGACGKTCLLIV----FSKDE---FPEVYVPTVFENYVADIEVDGKQVELALWD 79
Query: 76 LGGQLELQSL 85
GQ + L
Sbjct: 80 TAGQEDYDRL 89
>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 = 27.1 bits (60), Expect = 1.4
Identities = 22/99 (22%), Positives = 35/99 (35%), Gaps = 19/99 (19%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINT 68
+++LG GK++ + +F N +K T IG I+ +T
Sbjct: 3 SIKLVLLGEAAVGKSSIV----LRFVSND--FAENKEPT-----IGAAFLTQRVTINEHT 51
Query: 69 VRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
V+ WD GQ SL R+ V + S
Sbjct: 52 VKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQS 90
>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 = 27.2 bits (61), Expect = 1.4
Identities = 14/71 (19%), Positives = 25/71 (35%), Gaps = 19/71 (26%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINT 68
E V +LG GK++ + +F +++ + + T IG
Sbjct: 23 ELKVCLLGDTGVGKSSIV----CRFVQDH--FDHNISPT-----IGASFMTKTVPCGNEL 71
Query: 69 VRLNFWDLGGQ 79
+ WD GQ
Sbjct: 72 HKFLIWDTAGQ 82
>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 = 27.0 bits (60), Expect = 1.6
Identities = 19/68 (27%), Positives = 24/68 (35%), Gaps = 7/68 (10%)
Query: 19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLG 77
CV++ G GKT L S F Y + V +D V L WD
Sbjct: 8 CVVV-GDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-----MVDGKPVNLGLWDTA 61
Query: 78 GQLELQSL 85
GQ + L
Sbjct: 62 GQEDYDRL 69
>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 = 26.9 bits (60), Expect = 1.7
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 13/65 (20%)
Query: 19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG---QIDINTVRLNFW 74
V++ G GKT L + +K + Y TV N + L+ W
Sbjct: 26 IVVV-GDGAVGKTCLLLAFSKGEIPTAY--------VPTVFENFSHVMKYKNEEFILHLW 76
Query: 75 DLGGQ 79
D GQ
Sbjct: 77 DTAGQ 81
>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 = 26.7 bits (59), Expect = 1.8
Identities = 20/70 (28%), Positives = 25/70 (35%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
VL+ G GKT+ L F P T TV Q+ V L+ WD
Sbjct: 37 VVLV-GDGGCGKTSLLMV----FADGA---FPESYTPTVFERYMVNLQVKGKPVHLHIWD 88
Query: 76 LGGQLELQSL 85
GQ + L
Sbjct: 89 TAGQDDYDRL 98
>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 = 26.7 bits (60), Expect = 1.9
Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 19/71 (26%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINT 68
E V +LG GK++ + +F ++ +P+ T IG Q
Sbjct: 6 ELKVCLLGDTGVGKSSIM----WRFVEDS--FDPNINPT-----IGASFMTKTVQYQNEL 54
Query: 69 VRLNFWDLGGQ 79
+ WD G
Sbjct: 55 HKFLIWDTAGL 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 = 26.8 bits (60), Expect = 1.9
Identities = 29/98 (29%), Positives = 41/98 (41%), Gaps = 19/98 (19%)
Query: 18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINTV 69
F ++ LG + GKT+ + T+F + + + T IG ++ TV
Sbjct: 15 FKLVFLGEQSVGKTSLI----TRFMYDS--FDNTYQAT-----IGIDFLSKTMYLEDRTV 63
Query: 70 RLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
RL WD GQ +SL IRD V I N NS
Sbjct: 64 RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNS 101
>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 = 26.7 bits (60), Expect = 2.0
Identities = 22/81 (27%), Positives = 30/81 (37%), Gaps = 24/81 (29%)
Query: 7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG---- 62
G Y F V++LG GKT+ + ++ +N N ITT +G
Sbjct: 1 GSRAYS-----FKVVLLGEGCVGKTSLV----LRYCENK--FNDKHITT-----LGASFL 44
Query: 63 ----QIDINTVRLNFWDLGGQ 79
I V L WD GQ
Sbjct: 45 TKKLNIGGKRVNLAIWDTAGQ 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 = 26.3 bits (59), Expect = 2.3
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 19/71 (26%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINT 68
+F +++LG GK++ + +F K + + +T IG +D T
Sbjct: 6 QFKLVLLGESAVGKSSLV----LRFVKGQ--FHEFQEST-----IGAAFLTQTVCLDDTT 54
Query: 69 VRLNFWDLGGQ 79
V+ WD GQ
Sbjct: 55 VKFEIWDTAGQ 65
>1w7j_A Myosin VA; motor protein, unconventional myosin, myosin V, chicken,
molecular motor, ATPase, ELC, IQ motif, muscle protein,
ATP-binding; HET: ADP; 2A {Gallus gallus} SCOP: b.34.3.1
c.37.1.9 PDB: 1w7i_A* 1oe9_A* 1w8j_A
Length = 795
Score = 26.8 bits (60), Expect = 2.3
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 9 YKYMLRKDEF-CVLILGLDNAGKTTYLESAK 38
YK M R + +++ G AGKT SAK
Sbjct: 147 YKQMARDERNQSIIVSGESGAGKT---VSAK 174
>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 = 26.4 bits (59), Expect = 2.4
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 15/75 (20%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG----QI 64
Y F V+++G GKT L +F +TVG++ +
Sbjct: 7 YDVA-----FKVMLVGDSGVGKTCLL----VRFKDG--AFLAGTFISTVGIDFRNKVLDV 55
Query: 65 DINTVRLNFWDLGGQ 79
D V+L WD GQ
Sbjct: 56 DGVKVKLQMWDTAGQ 70
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 26.7 bits (58), Expect = 2.5
Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 8/79 (10%)
Query: 17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN----TVRL 71
EF ++++G GK+T + S T +I TV + ++ I + L
Sbjct: 8 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLL 67
Query: 72 NFWD---LGGQLELQSLWD 87
D G ++ + W
Sbjct: 68 TIVDTPGFGDAVDNSNCWQ 86
>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 = 26.1 bits (58), Expect = 2.7
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F V+++G GK+ L + +F K +T+G+ Q
Sbjct: 2 YDYL-----FKVVLIGDSGVGKSNLLSRFTRNEFNLESK--------STIGVEFATRSIQ 48
Query: 64 IDINTVRLNFWDLGGQ 79
+D T++ WD GQ
Sbjct: 49 VDGKTIKAQIWDTAGQ 64
>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 = 26.0 bits (58), Expect = 2.9
Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y ++ F V+++G GKT L + +F+ + + TT+G+
Sbjct: 22 YNFV-----FKVVLIGESGVGKTNLLSRFTRNEFSHDSR--------TTIGVEFSTRTVM 68
Query: 64 IDINTVRLNFWDLGGQ 79
+ V+ WD G
Sbjct: 69 LGTAAVKAQIWDTAGL 84
>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 = 26.0 bits (58), Expect = 3.1
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
+ V+I+G GKT+ +E F + K +TVG++ +
Sbjct: 23 ADFK-----LQVIIIGSRGVGKTSLMERFTDDTFCEACK--------STVGVDFKIKTVE 69
Query: 64 IDINTVRLNFWDLGGQ 79
+ +RL WD GQ
Sbjct: 70 LRGKKIRLQIWDTAGQ 85
>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 = 26.1 bits (58), Expect = 3.1
Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
+ YM F +LI+G + GKT++L A FT + +TVG++
Sbjct: 5 FDYM-----FKILIIGNSSVGKTSFLFRYADDSFTPAFV--------STVGIDFKVKTIY 51
Query: 64 IDINTVRLNFWDLGGQ 79
+ ++L WD G
Sbjct: 52 RNDKRIKLQIWDTAGL 67
>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 = 26.1 bits (58), Expect = 3.1
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y + +L++G GK+ L + KF ++ TT+G++
Sbjct: 17 YDSI-----MKILLIGDSGVGKSCLLVRFVEDKFNPSFI--------TTIGIDFKIKTVD 63
Query: 64 IDINTVRLNFWDLGGQ 79
I+ V+L WD GQ
Sbjct: 64 INGKKVKLQLWDTAGQ 79
>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 = 26.0 bits (58), Expect = 3.2
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
+ YM F +LI+G + GKT++L A FT + +TVG++
Sbjct: 20 FDYM-----FKLLIIGNSSVGKTSFLFRYADDTFTPAFV--------STVGIDFKVKTVY 66
Query: 64 IDINTVRLNFWDLGGQ 79
V+L WD GQ
Sbjct: 67 RHEKRVKLQIWDTAGQ 82
>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 = 26.1 bits (58), Expect = 3.2
Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 24/79 (30%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG------ 62
Y ++ F ++++G + GKT + +F + + +T IG
Sbjct: 26 YDFL-----FKLVLVGDASVGKTCVV----QRFKTGA--FSERQGST-----IGVDFTMK 69
Query: 63 --QIDINTVRLNFWDLGGQ 79
+I V+L WD GQ
Sbjct: 70 TLEIQGKRVKLQIWDTAGQ 88
>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 = 25.7 bits (57), Expect = 3.6
Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y ++ F ++++G GKT + + F T+G++ +
Sbjct: 23 YDFL-----FKIVLIGNAGVGKTCLVRRFTQGLFPPGQG--------ATIGVDFMIKTVE 69
Query: 64 IDINTVRLNFWDLGGQ 79
I+ V+L WD GQ
Sbjct: 70 INGEKVKLQIWDTAGQ 85
>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 = 25.6 bits (57), Expect = 3.7
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F V+++G GK+ L + +F K +T+G+ Q
Sbjct: 26 YDYL-----FKVVLIGDSGVGKSNLLSRFTRNEFNLESK--------STIGVEFATRSIQ 72
Query: 64 IDINTVRLNFWDLGGQ 79
+D T++ WD G
Sbjct: 73 VDGKTIKAQIWDTAGL 88
>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 = 25.7 bits (57), Expect = 3.8
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F +L++G GK+ L A +T++Y +T+G++ +
Sbjct: 30 YDYL-----FKLLLIGDSGVGKSCLLLRFADDTYTESYI--------STIGVDFKIRTIE 76
Query: 64 IDINTVRLNFWDLGGQ 79
+D T++L WD GQ
Sbjct: 77 LDGKTIKLQIWDTAGQ 92
>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 = 25.6 bits (57), Expect = 3.8
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F +I+G GK+ L + KF + T+G+ G +
Sbjct: 12 YSYI-----FKYIIIGDMGVGKSCLLHQFTEKKFMADCP--------HTIGVEFGTRIIE 58
Query: 64 IDINTVRLNFWDLGGQ 79
+ ++L WD GQ
Sbjct: 59 VSGQKIKLQIWDTAGQ 74
>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 = 25.6 bits (57), Expect = 3.8
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
YM F +L++G + GKT++L A FT + +TVG++
Sbjct: 19 SDYM-----FKLLLIGNSSVGKTSFLFRYADDSFTPAFV--------STVGIDFKVKTVY 65
Query: 64 IDINTVRLNFWDLGGQ 79
++L WD GQ
Sbjct: 66 RHDKRIKLQIWDTAGQ 81
>1bvo_A Transcription factor gambif1; REL protein, morphogen, immunity,
development, insects, complex (transcription
factor/DNA); HET: DNA; 2.70A {Anopheles gambiae} SCOP:
b.2.5.3
Length = 175
Score = 25.8 bits (56), Expect = 4.3
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 46 KGMNPSKITTTVGLNIGQIDINTVRLNF 73
++P + G ID+N VRL F
Sbjct: 120 IRVDPFRTGFGHAKEPGSIDLNAVRLCF 147
>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 = 25.6 bits (57), Expect = 4.4
Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F +L++G GKT L ++ F + +T+G++ +
Sbjct: 5 YDYL-----FKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--------STIGIDFKIRTIE 51
Query: 64 IDINTVRLNFWDLGGQ 79
+D ++L WD GQ
Sbjct: 52 LDGKRIKLQIWDTAGQ 67
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 26.1 bits (56), Expect = 4.5
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 13 LRKDEFCVLILGLDNAGKTT 32
L++ F +L+LG GK+T
Sbjct: 65 LQQGVFRLLVLGDMKRGKST 84
>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 = 25.9 bits (56), Expect = 4.5
Identities = 16/69 (23%), Positives = 28/69 (40%), Gaps = 6/69 (8%)
Query: 17 EFCVLILGLDNAGKTTYLES--AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN----TVR 70
EF ++++G GK+T + S + + KI TV + ++I +R
Sbjct: 18 EFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLR 77
Query: 71 LNFWDLGGQ 79
L D G
Sbjct: 78 LTVVDTPGY 86
>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 = 25.6 bits (57), Expect = 4.7
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 13/67 (19%)
Query: 18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----QIDINTVRLN 72
+L++G GK+ L + KF ++ TT+G++ I+ V+L
Sbjct: 4 MKILLIGDSGVGKSCLLVRFVEDKFNPSFI--------TTIGIDFKIKTVDINGKKVKLQ 55
Query: 73 FWDLGGQ 79
WD GQ
Sbjct: 56 IWDTAGQ 62
>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 = 25.5 bits (56), Expect = 4.8
Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 11/70 (15%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
CV++ G GKT L S + + P + TV + + L +D
Sbjct: 21 CVVV-GDGAVGKTCLLMS----YANDA---FPEEYVPTVFDHYAVSVTVGGKQYLLGLYD 72
Query: 76 LGGQLELQSL 85
GQ + L
Sbjct: 73 TAGQEDYDRL 82
>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 = 25.4 bits (56), Expect = 4.8
Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y + F ++++G GK+ L K +F + K +T+G+ +
Sbjct: 10 YDLL-----FKIVLIGDSGVGKSNLLSRFTKNEFNMDSK--------STIGVEFATRTLE 56
Query: 64 IDINTVRLNFWDLGGQ 79
I+ ++ WD GQ
Sbjct: 57 IEGKRIKAQIWDTAGQ 72
>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 = 25.7 bits (57), Expect = 4.9
Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 18/79 (22%)
Query: 6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-- 62
S + ++ F L++G GK+ L + KF ++ T+G+ G
Sbjct: 19 SIWSDFL-----FKFLVIGSAGTGKSCLLHQFIENKFKQDSN--------HTIGVEFGSR 65
Query: 63 --QIDINTVRLNFWDLGGQ 79
+ TV+L WD GQ
Sbjct: 66 VVNVGGKTVKLQIWDTAGQ 84
>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 = 25.2 bits (56), Expect = 6.5
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 19/70 (27%)
Query: 18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--------QIDINTV 69
+++LG AGK++ + +F K+ + +T IG ++ TV
Sbjct: 13 AKLVLLGDVGAGKSSLV----LRFVKDQ--FVEFQEST-----IGAAFFSQTLAVNDATV 61
Query: 70 RLNFWDLGGQ 79
+ WD GQ
Sbjct: 62 KFEIWDTAGQ 71
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 25.1 bits (55), Expect = 7.7
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN---IGQIDINTVRLNFWD 75
CV ++G GKT+ + S +T N P++ T N + +D VRL D
Sbjct: 23 CV-LVGDGAVGKTSLVVS----YTTNG---YPTEYIPTAFDNFSAVVSVDGRPVRLQLCD 74
Query: 76 LGGQ 79
GQ
Sbjct: 75 TAGQ 78
>3b57_A LIN1889 protein; Q92AN1, X-RAY, NESG, structural genomics, PSI-2,
protein structure initiative; 3.00A {Listeria innocua
CLIP11262} SCOP: a.211.1.1
Length = 209
Score = 25.1 bits (54), Expect = 8.0
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 80 LELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
+E + + D D D +G + F AH
Sbjct: 114 IEEKIVQDADRLDAIGAIGIARTFTYGGAH 143
>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 = 24.9 bits (55), Expect = 8.4
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
+ F ++++G N GKT +F + T+G++
Sbjct: 17 RSRI-----FKIIVIGDSNVGKTCLTYRFCAGRFPDRTE--------ATIGVDFRERAVD 63
Query: 64 IDINTVRLNFWDLGGQ 79
ID +++ WD GQ
Sbjct: 64 IDGERIKIQLWDTAGQ 79
>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF
hand, TIM barrel, C2 domain, GTPase, lipase, C binding,
GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q*
2rgn_A* 3ah8_A*
Length = 327
Score = 25.0 bits (54), Expect = 8.5
Identities = 16/96 (16%), Positives = 32/96 (33%)
Query: 15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFW 74
+ E +L+LG +GK+T+++ + Y + T V NI +R
Sbjct: 5 RRELKLLLLGTGESGKSTFIKQMRIIHGSGYSDEDKRGFTKLVYQNIFTAMQAMIRAMDT 64
Query: 75 DLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHL 110
+ + + V +V N +
Sbjct: 65 LKIPYKYEHNKAHAQLVREVDVEKVSAFENPYVDAI 100
>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 = 25.0 bits (55), Expect = 8.7
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 18/76 (23%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG----Q 63
Y Y+ F +L++G GK+ L + +T +Y +T+G++ +
Sbjct: 5 YDYL-----FKLLLIGNSGVGKSCLLLRFSDDTYTNDYI--------STIGVDFKIKTVE 51
Query: 64 IDINTVRLNFWDLGGQ 79
+D TV+L WD GQ
Sbjct: 52 LDGKTVKLQIWDTAGQ 67
>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 = 24.9 bits (55), Expect = 9.0
Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 24/79 (30%)
Query: 9 YKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG------ 62
L+ +LI+G GK++ L +FT + +P T IG
Sbjct: 12 VLTTLK-----ILIIGESGVGKSSLL----LRFTDDT--FDPELAAT-----IGVDFKVK 55
Query: 63 --QIDINTVRLNFWDLGGQ 79
+D N +L WD GQ
Sbjct: 56 TISVDGNKAKLAIWDTAGQ 74
>1bdg_A Hexokinase; phosphotransferase; HET: GLC; 2.60A {Schistosoma
mansoni} SCOP: c.55.1.3 c.55.1.3
Length = 451
Score = 25.0 bits (54), Expect = 9.5
Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 19/106 (17%)
Query: 3 TLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG 62
TL S + D C + L + Y+E + SK+ G+
Sbjct: 201 TLASCALE-----DPKCAVGLIVGTGTNVAYIEDS-------------SKVELMDGVKEP 242
Query: 63 QIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSA 108
++ INT F + G ++ +DK + D + K ++ K +
Sbjct: 243 EVVINTEWGAFGEKGELDCWRTQFDKSM-DIDSLHPGKQLYEKMVS 287
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 24.8 bits (54), Expect = 9.8
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 2 YTLVSGFYKYMLRKDEF-CVLILGLDNAGKTTYLESAK 38
Y + Y+ ML+ E +L G AGKT E+ K
Sbjct: 153 YAIADTAYRSMLQDREDQSILCTGESGAGKT---ENTK 187
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
0.322 0.139 0.420
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,816,075
Number of extensions: 93222
Number of successful extensions: 346
Number of sequences better than 10.0: 1
Number of HSP's gapped: 323
Number of HSP's successfully gapped: 102
Length of query: 125
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 43
Effective length of database: 4,412,271
Effective search space: 189727653
Effective search space used: 189727653
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.4 bits)