RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2646
(168 letters)
>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 = 227 bits (580), Expect = 7e-77
Identities = 86/161 (53%), Positives = 109/161 (67%), Gaps = 9/161 (5%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ + IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+E
Sbjct: 46 KIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQE 105
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
IDRYA V KLLVGNK D K+ V+Y VAKE+AD K+PFLETSA + NVE AFLTM
Sbjct: 106 IDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTM 165
Query: 129 ATEIKKRV-TKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
A +IK+ + ++ +++ K N+N G CC
Sbjct: 166 ARQIKESMSQQNLNETTQKKEDKGNVNLKGQSLTNTGGCCC 206
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 220 bits (563), Expect = 2e-74
Identities = 94/140 (67%), Positives = 107/140 (76%), Gaps = 8/140 (5%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ RT+ + IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+E
Sbjct: 54 KIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQE 113
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
IDRYA +NVNKLLVGNK D T+KK VDY AKE+AD L IPFLETSAKN NVEQ+F+TM
Sbjct: 114 IDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM 173
Query: 129 ATEIKKRVTKDEKPSSESDA 148
A EIKKR+ +
Sbjct: 174 AAEIKKRMGPGATAGGAEKS 193
>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 = 218 bits (559), Expect = 5e-74
Identities = 59/136 (43%), Positives = 92/136 (67%), Gaps = 8/136 (5%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ RT+ + IWDTAGQERFRTIT++YYRGA GI++VYD T++++F+N++ W+
Sbjct: 46 KIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRN 105
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I+ +A +V K+++GNK D K+ V + ++ A I F+ETSAK NVE AF T+
Sbjct: 106 IEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTL 165
Query: 129 ATEIKKRVTKDEKPSS 144
A +IK ++ K+ K ++
Sbjct: 166 ARDIKAKMDKNWKATA 181
>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 = 219 bits (560), Expect = 6e-74
Identities = 55/155 (35%), Positives = 86/155 (55%), Gaps = 13/155 (8%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ IWDTAG ER+RTIT++YYRGA G I++YD T++E+FN ++ W +
Sbjct: 46 KVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQ 105
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I Y+ DN LLVGNK D ++ V + ++ ADHL F E SAK+ NV+Q F +
Sbjct: 106 IKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL 165
Query: 129 ATEIKKRVTKDEKPSSESDA-----KKLNLNSGKP 158
I +++++ + + +L P
Sbjct: 166 VDVICEKMSESLDTADPAVTGAKQGPQLTDQQAPP 200
>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 = 217 bits (556), Expect = 2e-73
Identities = 56/138 (40%), Positives = 85/138 (61%), Gaps = 8/138 (5%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+T+ + IWDTAGQERFR+IT SYYR A+ +I+ YD T +E+F L +WL E
Sbjct: 64 MIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLRE 123
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I++YA + V +LVGNK D ++ V Q A+E+++ + +LETSAK NVE+ FL +
Sbjct: 124 IEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL 183
Query: 129 ATEIKKRVTKDEKPSSES 146
A + ++ ++ S
Sbjct: 184 ACRLISEARQNTLVNNVS 201
>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 = 216 bits (553), Expect = 5e-73
Identities = 51/128 (39%), Positives = 76/128 (59%), Gaps = 8/128 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W +
Sbjct: 61 KVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQ 120
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I Y+ DN +LVGNK D ++ V + + A+ L F E SAK +V QAF +
Sbjct: 121 IKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERL 180
Query: 129 ATEIKKRV 136
I ++
Sbjct: 181 VDAICDKM 188
>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 = 216 bits (553), Expect = 6e-73
Identities = 55/141 (39%), Positives = 85/141 (60%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
IWDTAGQER+R ITS+YYRGA G ++VYD T+ N+++WL+E+ +A N+ +LVG
Sbjct: 58 IWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 117
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
NK+D +AV A+ +A+ + F+ETSA + NVE+AF + TEI + V++ +
Sbjct: 118 NKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIAD 177
Query: 144 SESDAKKLNLNSGKPVDAPRS 164
+ + N P +
Sbjct: 178 RAAHDESPGNNVVDISVPPTT 198
>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 = 216 bits (552), Expect = 7e-73
Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 8/130 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ IWDTAGQER+RTIT++YYRGA G +++YD +QE+F ++ W +
Sbjct: 60 KVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQ 119
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I Y+ DN +LVGNK D ++ V + + AD L F E SAK NV+Q F +
Sbjct: 120 IKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL 179
Query: 129 ATEIKKRVTK 138
I +++ +
Sbjct: 180 VDVICEKMNE 189
>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 = 215 bits (551), Expect = 8e-73
Identities = 55/130 (42%), Positives = 84/130 (64%), Gaps = 8/130 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
R + L V +WDTAGQERFR++T +YYR AH ++++YD T++ +F+N++ WL E
Sbjct: 49 RNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTE 108
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I YA +V +L+GNK D ++ V + ++ A +PF+ETSAK G NV+ AF +
Sbjct: 109 IHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAI 168
Query: 129 ATEIKKRVTK 138
A E+K+R K
Sbjct: 169 AKELKRRSMK 178
>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 = 215 bits (551), Expect = 1e-72
Identities = 94/128 (73%), Positives = 106/128 (82%), Gaps = 8/128 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ RT+ + IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+E
Sbjct: 71 KIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQE 130
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
IDRYA +NVNKLLVGNK D T+KK VDY AKE+AD L IPFLETSAKN NVEQ+F+TM
Sbjct: 131 IDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM 190
Query: 129 ATEIKKRV 136
A EIKKR+
Sbjct: 191 AAEIKKRM 198
>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 = 215 bits (549), Expect = 2e-72
Identities = 51/115 (44%), Positives = 79/115 (68%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
IWDTAG ER+R ITS+YYRGA G ++V+D T +T+ +++WL+E+ +A + +LVG
Sbjct: 78 IWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVG 137
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
NK+D + + V + A+ +A++ + FLETSA + NVE AF T+ EI +V+K
Sbjct: 138 NKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSK 192
>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 = 215 bits (550), Expect = 3e-72
Identities = 62/157 (39%), Positives = 96/157 (61%), Gaps = 10/157 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ + +WDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW +
Sbjct: 58 KIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKT 117
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
++ +A D LLVGNK+D + V + A L IPF+E+SAKN NV + F T+
Sbjct: 118 VNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 176
Query: 129 ATEIKKRVTKDEKPSSESDAK-KLNLNSGKPVDAPRS 164
A I++++ ++ + + +++NSG + +
Sbjct: 177 AKLIQEKIDSNKLVGVGNGKEGNISINSGSGNSSKSN 213
>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 = 215 bits (549), Expect = 3e-72
Identities = 50/160 (31%), Positives = 81/160 (50%), Gaps = 11/160 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
++T+ + +WDTAG ERFR++ SY R + +VVYD T+ +F +W+++
Sbjct: 54 LSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDD 113
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ +V +LVGNK D K+ V + + A L + F+ETSAK G NV+Q F +
Sbjct: 114 VRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173
Query: 129 ATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
A + + ++ + KL +PV GGC
Sbjct: 174 AAALPGMESTQDRSREDMIDIKLEKPQEQPV---SEGGCL 210
>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 = 213 bits (544), Expect = 1e-71
Identities = 55/124 (44%), Positives = 79/124 (63%), Gaps = 8/124 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
TR++ V IWDTAG ER+R ITS+YYRGA G ++VYD T+ N+++WL+E
Sbjct: 67 ATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE 126
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ +A N+ +LVGNK+D +AV A+ +A+ + F+ETSA + NVE AF T+
Sbjct: 127 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186
Query: 129 ATEI 132
TEI
Sbjct: 187 LTEI 190
>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 = 214 bits (547), Expect = 1e-71
Identities = 60/172 (34%), Positives = 90/172 (52%), Gaps = 20/172 (11%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
TRTL + IWDTAGQER+R ITS+YYRGA G ++VYD + ++ N WL E
Sbjct: 51 ATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSE 110
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ A DNV L+GNK+D +AV + +K +A ++ F ETSA N NV++AF +
Sbjct: 111 LRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL 170
Query: 129 ATEIKKRVTK------------DEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
I ++V+K + +S + ++L + +G C
Sbjct: 171 INTIYQKVSKHQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNC 222
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 212 bits (542), Expect = 2e-71
Identities = 60/132 (45%), Positives = 84/132 (63%), Gaps = 9/132 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ RT+ + IWDTAGQERFRTITS+YYRG HG+IVVYD T E+F N+K+WL E
Sbjct: 47 KIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHE 106
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
I++ D+V ++LVGNKND +K V+ + A ++A + I ETSAK NVE+ F +
Sbjct: 107 INQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI 165
Query: 129 ATEIKKRVTKDE 140
+ + +
Sbjct: 166 TELVLRAKKDNL 177
>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 = 211 bits (540), Expect = 4e-71
Identities = 55/130 (42%), Positives = 83/130 (63%), Gaps = 8/130 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
R + + IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L WLE+
Sbjct: 59 GARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLED 118
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+++ N+ +L+GNK+D S++ V + + +A + F+ETSAK NVE+AF+
Sbjct: 119 ARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINT 178
Query: 129 ATEIKKRVTK 138
A EI +++ +
Sbjct: 179 AKEIYRKIQQ 188
>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 = 211 bits (540), Expect = 6e-71
Identities = 58/128 (45%), Positives = 84/128 (65%), Gaps = 9/128 (7%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+TL + IWDTAGQERFRTIT SYYR A+G I+ YD T + +F ++ W+E+
Sbjct: 67 TMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIED 126
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLT 127
+ +YA N+ +LL+GNK+D + + V A+ A+H I +ETSAK+ +NVE+AFL
Sbjct: 127 VRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLR 186
Query: 128 MATEIKKR 135
+ATE+ R
Sbjct: 187 VATELIMR 194
>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 = 211 bits (540), Expect = 6e-71
Identities = 57/132 (43%), Positives = 78/132 (59%), Gaps = 8/132 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+R + V IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N+L WL +
Sbjct: 63 GSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTD 122
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
A N+ +L GNK D ++ V + A +A ++ FLETSA G NVE+AFL
Sbjct: 123 ARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC 182
Query: 129 ATEIKKRVTKDE 140
A I ++ E
Sbjct: 183 ARTILNKIDSGE 194
>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 = 210 bits (538), Expect = 7e-71
Identities = 55/132 (41%), Positives = 78/132 (59%), Gaps = 8/132 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
++ + V IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N L WL +
Sbjct: 48 GSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTD 107
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
A N+ +L GNK D + + V + A +A ++ FLETSA G NVE+AF+
Sbjct: 108 ARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQC 167
Query: 129 ATEIKKRVTKDE 140
A +I ++ E
Sbjct: 168 ARKILNKIESGE 179
>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 = 211 bits (539), Expect = 8e-71
Identities = 54/129 (41%), Positives = 85/129 (65%), Gaps = 9/129 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ + IWDTAGQERF +ITS+YYR A GII+VYD T +ETF++L +W++
Sbjct: 64 KIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKM 123
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
ID+YA ++ LLVGNK D + + + Q +++A + + F E SAK+ NV++ FL
Sbjct: 124 IDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLK 183
Query: 128 MATEIKKRV 136
+ +I K++
Sbjct: 184 LVDDILKKM 192
>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 = 211 bits (539), Expect = 1e-70
Identities = 49/126 (38%), Positives = 83/126 (65%), Gaps = 1/126 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
+WDTAGQERFR++T++++R A G ++++D T Q++F N++ W+ ++ A C+N + +L+
Sbjct: 88 LWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLI 147
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK D ++ V+ + A+E AD IP+ ETSA G NVE+A T+ I KR+ + +
Sbjct: 148 GNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEK 207
Query: 143 SSESDA 148
+ D
Sbjct: 208 TQIPDT 213
>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 = 209 bits (535), Expect = 3e-70
Identities = 44/121 (36%), Positives = 79/121 (65%), Gaps = 1/121 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
+WDTAG ERFR++T++++R A G ++++D T++++F N++ W+ ++ +A +N + +L
Sbjct: 74 LWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLC 133
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK+D ++AV + A+E A+ IP+ ETSA NG N+ A + I KR+ +
Sbjct: 134 GNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERSVDK 193
Query: 143 S 143
S
Sbjct: 194 S 194
>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 = 208 bits (531), Expect = 7e-70
Identities = 57/126 (45%), Positives = 77/126 (61%), Gaps = 8/126 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
TR + V IWDTAGQERFR +T SYYRGA G ++VYD T + T+N+L WL +
Sbjct: 53 GTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD 112
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
N +L+GNK D +++ V Y+ AK++A+ + FLE SAK G NVE AFL
Sbjct: 113 ARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEA 172
Query: 129 ATEIKK 134
A +I +
Sbjct: 173 AKKIYQ 178
>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 = 207 bits (530), Expect = 9e-70
Identities = 60/130 (46%), Positives = 84/130 (64%), Gaps = 9/130 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ + IWDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW +
Sbjct: 41 KIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKT 100
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
++ +A D LLVGNK+D + V + A L IPF+E+SAKN NV + F T+
Sbjct: 101 VNEHANDEAQLLLVGNKSD-METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159
Query: 129 ATEIKKRVTK 138
A I++++
Sbjct: 160 AKLIQEKIDS 169
>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 = 207 bits (528), Expect = 4e-69
Identities = 53/133 (39%), Positives = 82/133 (61%), Gaps = 14/133 (10%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +TLIV +WDTAGQERFR+I SY+R A G++++YD T +++F N+++W++
Sbjct: 66 QMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDM 125
Query: 69 IDRYACDNVNKLLVGNKND------QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVE 122
I+ A + V +LVGNK D +K V ++ A F ETSAK+G+N+
Sbjct: 126 IEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIV 185
Query: 123 QAFLTMATEIKKR 135
+A L +A E+KKR
Sbjct: 186 EAVLHLAREVKKR 198
>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 = 207 bits (528), Expect = 6e-69
Identities = 52/164 (31%), Positives = 80/164 (48%), Gaps = 15/164 (9%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+ ++V IWDTAGQERF+++ ++YRGA ++V+D T TF L W +E
Sbjct: 46 LTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDE 105
Query: 69 IDRYA----CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA 124
A +N +++GNK D +++ + IP+ ETSAK NVEQA
Sbjct: 106 FLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQA 165
Query: 125 FLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
F T+A K+ T+ E + + KL+ N + C
Sbjct: 166 FQTIARNALKQETEVELYNEFPEPIKLDKNERAK---ASAESCS 206
>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 = 205 bits (525), Expect = 6e-69
Identities = 46/131 (35%), Positives = 72/131 (54%), Gaps = 8/131 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
++TL V IWDTAGQER+ ++ YYRGA I+V+D T+Q +F K+W++E
Sbjct: 50 FSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQE 109
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ N+ L GNK+D + V + A+ YA + F+ETSAK NV++ F +
Sbjct: 110 LQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEI 169
Query: 129 ATEIKKRVTKD 139
A + + +
Sbjct: 170 ARRLPRVQPTE 180
>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 = 205 bits (524), Expect = 8e-69
Identities = 43/126 (34%), Positives = 70/126 (55%), Gaps = 8/126 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+ L + IWDTAGQERF + YYR ++G I+VYD TD+++F +K W++E
Sbjct: 44 LTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKE 103
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ + + + +VGNK D ++ V Q A+ YA+ + TSAK +E+ FL +
Sbjct: 104 LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163
Query: 129 ATEIKK 134
+ +
Sbjct: 164 CKRMIE 169
>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 = 205 bits (523), Expect = 1e-68
Identities = 55/126 (43%), Positives = 79/126 (62%), Gaps = 8/126 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+T+ + IWDTAGQER+ ++ YYRGA IVVYD T++E+F K W++E
Sbjct: 44 LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ R A N+ L GNK D +K+AVD+Q A+ YAD + F+ETSAK NV + F+ +
Sbjct: 104 LQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163
Query: 129 ATEIKK 134
A ++ K
Sbjct: 164 AKKLPK 169
>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 = 204 bits (521), Expect = 2e-68
Identities = 41/127 (32%), Positives = 63/127 (49%), Gaps = 9/127 (7%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
R + V +WDTAGQE F IT +YYRGA ++V+ TD+E+F + W E+
Sbjct: 43 LERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREK 102
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ ++ LV NK D + + A+ A LK+ F TS K NV + F +
Sbjct: 103 VVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL 161
Query: 129 ATEIKKR 135
A + ++
Sbjct: 162 AEKHLQK 168
>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase,
rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus
musculus} SCOP: c.37.1.8 PDB: 1yvd_A*
Length = 170
Score = 203 bits (520), Expect = 3e-68
Identities = 49/126 (38%), Positives = 73/126 (57%), Gaps = 8/126 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+T+ IWDTAG ERFR + YYRG+ I+VYD T +ETF+ LK W+ E
Sbjct: 44 MTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRE 103
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ ++ ++ + GNK D T + V + AK+YAD + F+ETSAKN N+ + F+ +
Sbjct: 104 LRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEI 163
Query: 129 ATEIKK 134
+ I
Sbjct: 164 SRRIPS 169
>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 = 203 bits (518), Expect = 1e-67
Identities = 47/131 (35%), Positives = 76/131 (58%), Gaps = 8/131 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+T+ IWDTAGQERF ++ YYRG+ ++VYD T Q++F LK+W++E
Sbjct: 61 MTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKE 120
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ + +N+ + GNK D + + V + AKEYA+ + +ETSAKN N+E+ F +
Sbjct: 121 LKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGI 180
Query: 129 ATEIKKRVTKD 139
+ +I +
Sbjct: 181 SRQIPPLDPHE 191
>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 = 203 bits (518), Expect = 1e-67
Identities = 55/142 (38%), Positives = 78/142 (54%), Gaps = 10/142 (7%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ +T+ V IWDTAGQERFRT+T SYYRGA G+I+VYD T ++TF L WL E
Sbjct: 53 KVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNE 112
Query: 69 IDRYACDN-VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLT 127
++ Y N + +LVGNK D+ + VD ++A + F+E SAK V+ AF
Sbjct: 113 LETYCTRNDIVNMLVGNKIDK-ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE 171
Query: 128 MATEIKKRVTKDEKPSSESDAK 149
+ +I + E + S
Sbjct: 172 LVEKIIQTPGLWESENQNSGPS 193
>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 = 201 bits (512), Expect = 2e-66
Identities = 35/135 (25%), Positives = 60/135 (44%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
+WDTAGQE+ + YY GA G I+ +D T + T NL +W++E + ++
Sbjct: 65 VWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCA 124
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
NK D +++ + ++ E + E SAK N FL +A R +
Sbjct: 125 NKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSN 184
Query: 144 SESDAKKLNLNSGKP 158
+ ++N + P
Sbjct: 185 VNLEPTEVNYDYHSP 199
>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 = 198 bits (507), Expect = 4e-66
Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 8/124 (6%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
++T+ + +WDTAGQERFR++ SY R + +VVYD T+ +F+ +W+++
Sbjct: 52 LSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDD 111
Query: 69 IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
+ +V +LVGNK D + K+ V + + A L + F+ETSAK G NV+Q F +
Sbjct: 112 VRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 171
Query: 129 ATEI 132
A +
Sbjct: 172 AAAL 175
>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 = 198 bits (507), Expect = 4e-66
Identities = 49/131 (37%), Positives = 77/131 (58%), Gaps = 13/131 (9%)
Query: 17 RTRTLIV--------IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
R R + + +WDTAGQERFR ++ YYR H ++ VYD T+ +F++L W+E
Sbjct: 58 RERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIE 117
Query: 68 EIDRYACDN-VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK---NGANVEQ 123
E ++ N + ++LVGNK D S V +A+++AD +P ETSAK + +VE
Sbjct: 118 ECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEA 177
Query: 124 AFLTMATEIKK 134
F+T+A ++K
Sbjct: 178 IFMTLAHKLKS 188
>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 = 192 bits (490), Expect = 1e-63
Identities = 33/134 (24%), Positives = 53/134 (39%), Gaps = 12/134 (8%)
Query: 17 RTRTLIV---------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
R + + IWD GQ + Y GA G+++VYD T+ ++F NL+ W
Sbjct: 44 FLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYT 103
Query: 68 EIDRYACD---NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA 124
+ + + + LVGNK D + + + + SAK G +V
Sbjct: 104 VVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLC 163
Query: 125 FLTMATEIKKRVTK 138
F +A EI
Sbjct: 164 FQKVAAEILGIKLN 177
>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 = 191 bits (487), Expect = 4e-63
Identities = 41/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
+ L V IWDTAGQERFR++ + +YRG+ ++ + D ++F NL W +E
Sbjct: 45 LNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKE 104
Query: 69 IDRYA----CDNVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQ 123
YA ++ +++GNK D S++ V + A+ + + P+ ETSAK+ NV
Sbjct: 105 FIYYADVKEPESFPFVILGNKID-ISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAA 163
Query: 124 AFLTMATEIKKR 135
AF +
Sbjct: 164 AFEEAVRRVLAT 175
>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 = 190 bits (485), Expect = 9e-63
Identities = 48/134 (35%), Positives = 74/134 (55%), Gaps = 15/134 (11%)
Query: 17 RTRTLIV---------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
T+ + V +WDTAGQERF+++ ++YRGA ++VYD T+ +F N+K W +
Sbjct: 46 LTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRD 105
Query: 68 EIDRYA----CDNVNKLLVGNKND-QTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANV 121
E +A + +++GNK D + SKK V + A+E A IP TSAKN NV
Sbjct: 106 EFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINV 165
Query: 122 EQAFLTMATEIKKR 135
+ AF +A ++
Sbjct: 166 DTAFEEIARSALQQ 179
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 187 bits (477), Expect = 2e-61
Identities = 45/113 (39%), Positives = 67/113 (59%), Gaps = 3/113 (2%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
IWDTAGQER+ +I YYRGA IVV+D ++ T + K W+ ++ + N +LV
Sbjct: 97 IWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVA 154
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
NK D+ +K VD ++YA + F++TSAK G N++ F +A EI K +
Sbjct: 155 NKIDK-NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI 206
>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 = 184 bits (470), Expect = 1e-60
Identities = 39/121 (32%), Positives = 63/121 (52%), Gaps = 1/121 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAGQE F + Y R HG ++V+ D+++FN + + +I R D+ +LV
Sbjct: 61 ILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLV 120
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK D S++ V A + + + E SAK NV++AF + ++K ++ P
Sbjct: 121 GNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPP 180
Query: 143 S 143
S
Sbjct: 181 S 181
>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 = 185 bits (471), Expect = 2e-60
Identities = 49/146 (33%), Positives = 74/146 (50%), Gaps = 8/146 (5%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAGQE + I +Y+R G + V+ T+ E+F + E+I R +NV LLV
Sbjct: 66 ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 125
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK+D K+ V + AK A+ + ++ETSAK ANV++ F + EI+ R +D K
Sbjct: 126 GNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKE 185
Query: 143 SSESDAKKLNLNSGKPVDAPRSGGCC 168
+ +K + CC
Sbjct: 186 KNGKKKRKSLAKRIR-------ERCC 204
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 185 bits (471), Expect = 2e-60
Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 15/146 (10%)
Query: 17 RTRTLIV--------IW--DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
+ + ++ DTAG + ++ S Y+ G + I+V+D + E+F + K W
Sbjct: 60 VVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWF 119
Query: 67 EEIDRY---ACDNVNKLLVGNKND-QTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANV 121
E + + +LV NK D + V +A+++A + F + SA G +
Sbjct: 120 ELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDA 179
Query: 122 EQAFLTMATEIKKRVTKDEKPSSESD 147
+ FL++AT + ++
Sbjct: 180 DAPFLSIATTFYRNYEDKVAAFQDAC 205
>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 = 182 bits (464), Expect = 4e-59
Identities = 34/131 (25%), Positives = 64/131 (48%), Gaps = 3/131 (2%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
+WDTAGQE+F + YY A I+++D T + T+ N+ W ++ R C+N+ +L G
Sbjct: 68 VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCG 126
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
NK D +K + + + + + SAK+ N E+ FL +A ++ +
Sbjct: 127 NKVDIKDRKVKAK--SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAM 184
Query: 144 SESDAKKLNLN 154
++ ++
Sbjct: 185 PALAPPEVVMD 195
>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 = 180 bits (460), Expect = 4e-59
Identities = 45/113 (39%), Positives = 65/113 (57%), Gaps = 1/113 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAGQE + I +Y+R G + V+ T+ E+F + E+I R +NV LLV
Sbjct: 56 ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 115
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
GNK+D K+ V + AK AD + ++ETSAK ANV++ F + EI+ R
Sbjct: 116 GNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168
>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL,
RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2a78_A*
Length = 187
Score = 180 bits (460), Expect = 6e-59
Identities = 45/117 (38%), Positives = 67/117 (57%), Gaps = 1/117 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAGQE + I +Y+R G + V+ T+ E+F + E+I R +NV LLV
Sbjct: 70 ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 129
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
GNK+D K+ V + AK A+ + ++ETSAK ANV++ F + EI+ R +D
Sbjct: 130 GNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186
>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 = 178 bits (454), Expect = 4e-58
Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 1/122 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
+ DTAGQ+ + +Y +G I+VY T ++F +K ++ + +LV
Sbjct: 58 LVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLV 117
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK D ++ + Y+ K A+ FLE+SAK F + E +K +
Sbjct: 118 GNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQG 177
Query: 143 SS 144
S
Sbjct: 178 KS 179
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 177 bits (451), Expect = 7e-58
Identities = 24/114 (21%), Positives = 48/114 (42%), Gaps = 2/114 (1%)
Query: 24 IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLL 81
++D Q + + ++V+ TD+ +F+ + + L + ++ +L
Sbjct: 55 VYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 114
Query: 82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
VGNK+D + V + + A L +ETSA N + F +I+ R
Sbjct: 115 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168
>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 = 176 bits (449), Expect = 1e-57
Identities = 29/113 (25%), Positives = 50/113 (44%), Gaps = 1/113 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
++D Q+ R + ++VY TD+ +F + ++ R D+V +LV
Sbjct: 53 VYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILV 112
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
GNK+D + V + A F+ETSA NV+ F + +I+ R
Sbjct: 113 GNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165
>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 = 177 bits (451), Expect = 2e-57
Identities = 24/119 (20%), Positives = 50/119 (42%), Gaps = 2/119 (1%)
Query: 24 IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLL 81
++D Q + + ++V+ TD+ +F+ + + L + ++ +L
Sbjct: 76 VYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 135
Query: 82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
VGNK+D + V + + A L +ETSA N + F +I+ R ++
Sbjct: 136 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRNH 194
>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 = 175 bits (447), Expect = 3e-57
Identities = 36/112 (32%), Positives = 61/112 (54%), Gaps = 1/112 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAG E+F ++ Y + G I+VY +Q++F ++K ++I R + V +LV
Sbjct: 55 ILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILV 114
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
GNK D S++ V + A+ PF+ETSAK+ V++ F + ++
Sbjct: 115 GNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 176 bits (449), Expect = 4e-57
Identities = 30/122 (24%), Positives = 57/122 (46%), Gaps = 1/122 (0%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
+ DTAGQ+ + + S+ G HG ++VY T +F ++ +++ + V +LV
Sbjct: 76 LVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLV 135
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK D + ++ V K+ A+ F+E+SA+ + F + EI + +
Sbjct: 136 GNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYGQE 195
Query: 143 SS 144
Sbjct: 196 RR 197
>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 = 175 bits (446), Expect = 6e-57
Identities = 35/114 (30%), Positives = 55/114 (48%), Gaps = 2/114 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVNKLL 81
I DT G +F + H I+VY T +++ LK E+I +++ +L
Sbjct: 55 ITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIML 114
Query: 82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
VGNK D++ + V A+ A K F+ETSAK NV++ F + K+R
Sbjct: 115 VGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 168
>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 = 175 bits (446), Expect = 1e-56
Identities = 38/147 (25%), Positives = 64/147 (43%), Gaps = 12/147 (8%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY--ACDNVNKLL 81
I DT G +F + H I+V+ T +++ L + I + + +++ +L
Sbjct: 60 ITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVML 119
Query: 82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK 141
VGNK D+ +++ VD + A+ A K F+ETSAK NV++ F + T +R
Sbjct: 120 VGNKCDE-TQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNI 178
Query: 142 PSSESDAKKLNLNSGKPVDAPRSGGCC 168
S +K R G C
Sbjct: 179 DGKRSGKQK---------RTDRVKGKC 196
>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 = 174 bits (444), Expect = 2e-56
Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
+ DTAGQE F + Y R G ++VY TD+ +F ++ ++ + I R ++ +LV
Sbjct: 70 VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG-ANVEQAFLTMATEIKKR 135
NK D + V KE A IP++ETSAK+ NV++ F + I+++
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183
>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 = 172 bits (439), Expect = 1e-55
Identities = 45/128 (35%), Positives = 68/128 (53%), Gaps = 2/128 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
I DTAGQE + + Y R G + V+ + ++F ++ + E+I R ++V +LV
Sbjct: 56 ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLV 115
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
GNK D S + VD + A++ A IPF+ETSAK V+ AF T+ EI+K K K
Sbjct: 116 GNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKD 174
Query: 143 SSESDAKK 150
+ K
Sbjct: 175 GKKKKKKS 182
>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 = 170 bits (434), Expect = 4e-55
Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 3/115 (2%)
Query: 24 IWDTAGQERFRTITS--SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKL 80
+ DT E+ S S +G ++VY D+ +F + + ++ R + D+V +
Sbjct: 56 VVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPII 115
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
LVGNK D + V + + A F+ETSA NV + F + +++ R
Sbjct: 116 LVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLR 170
>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 = 169 bits (431), Expect = 7e-55
Identities = 41/112 (36%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
I DTAGQE + + Y R G + V+ + ++F ++ Q+ E+I R D+V +LV
Sbjct: 55 ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLV 114
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
GNK+D + + V+ + A++ A IP++ETSAK VE AF T+ EI++
Sbjct: 115 GNKSD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165
>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 = 168 bits (427), Expect = 4e-54
Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 2/113 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAG E+F + Y + G +VY T Q TFN+L+ E+I R ++V +LV
Sbjct: 55 ILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILV 114
Query: 83 GNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKK 134
GNK D ++ V + + A FLE+SAK+ NV + F + +I +
Sbjct: 115 GNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167
>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 = 168 bits (427), Expect = 5e-54
Identities = 43/113 (38%), Positives = 63/113 (55%), Gaps = 2/113 (1%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
I DTAGQE + + Y R G + V+ + ++F ++ + E+I R D+V +LV
Sbjct: 73 ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLV 132
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
GNK D + + VD + A E A IPF+ETSAK VE AF T+ EI++
Sbjct: 133 GNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQY 184
>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 = 168 bits (428), Expect = 7e-54
Identities = 32/135 (23%), Positives = 61/135 (45%), Gaps = 3/135 (2%)
Query: 8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
+TL E T L+ +W+ G+ + + + ++VY TD+ +F +
Sbjct: 78 RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 135
Query: 68 EIDR-YACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
++ R +++ +LVGNK+D + V + A F+ETSA NV++ F
Sbjct: 136 QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFE 195
Query: 127 TMATEIKKRVTKDEK 141
+ +++ R EK
Sbjct: 196 GIVRQVRLRRDSKEK 210
>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 = 164 bits (418), Expect = 2e-52
Identities = 33/144 (22%), Positives = 63/144 (43%), Gaps = 3/144 (2%)
Query: 8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
+TL E T L+ +W+ G+ + + + ++VY TD+ +F +
Sbjct: 47 RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 104
Query: 68 EIDR-YACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
++ R +++ +LVGNK+D + V + A F+ETSA NV++ F
Sbjct: 105 QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFE 164
Query: 127 TMATEIKKRVTKDEKPSSESDAKK 150
+ +++ R EK +K
Sbjct: 165 GIVRQVRLRRDSKEKNERRLAYQK 188
>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 = 160 bits (407), Expect = 1e-50
Identities = 35/114 (30%), Positives = 53/114 (46%), Gaps = 3/114 (2%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
I DTAGQE + R G ++VYD TD+ +F + +D NV +LV
Sbjct: 80 ILDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILV 138
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANVEQAFLTMATEIKKR 135
GNK D + V + ++ A L F E SA N+ + F + E+++R
Sbjct: 139 GNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 192
>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 = 153 bits (388), Expect = 2e-48
Identities = 44/130 (33%), Positives = 69/130 (53%), Gaps = 11/130 (8%)
Query: 17 RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
T+ + + IWDTAGQERF ++ YYR A +VVYD T ++F + W++E
Sbjct: 41 LTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKE 100
Query: 69 IDRYACDNVNKLLVGNKND---QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
+ A ++ LVGNK D + ++ V + ++ A+ + F ETSAK G NV F
Sbjct: 101 LHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160
Query: 126 LTMATEIKKR 135
L + +I +
Sbjct: 161 LGIGEKIPLK 170
>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 = 153 bits (389), Expect = 3e-48
Identities = 23/116 (19%), Positives = 48/116 (41%), Gaps = 9/116 (7%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
I D G + + ++ V+ D+ +F + + + + V +LV
Sbjct: 71 IRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLV 125
Query: 83 GNKND--QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKR 135
G ++ + + +D A++ + LK + ET A G NVE+ F +A ++
Sbjct: 126 GTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL 181
>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 = 151 bits (384), Expect = 2e-47
Identities = 29/115 (25%), Positives = 50/115 (43%), Gaps = 5/115 (4%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD---NVNKL 80
+ DTA + R Y AH +VVY +++F++ +LE + +A + ++ L
Sbjct: 73 VMDTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPAL 131
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANVEQAFLTMATEIKK 134
L+GNK D + V A F E SA + +V+ F E ++
Sbjct: 132 LLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR 186
>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 = 150 bits (380), Expect = 6e-47
Identities = 26/126 (20%), Positives = 50/126 (39%), Gaps = 10/126 (7%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKLLV 82
+WD AG+E F + + + VYD + + + +K WL I A + +LV
Sbjct: 60 VWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILV 118
Query: 83 GNKNDQTSKK---AVDYQVAKEYADHLKIPFL-----ETSAKNGANVEQAFLTMATEIKK 134
G D + +K A ++ KE + P + + + + + T+ E
Sbjct: 119 GTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN 178
Query: 135 RVTKDE 140
+D+
Sbjct: 179 FKIRDQ 184
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 147 bits (371), Expect = 2e-42
Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 6/123 (4%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
WD GQE + + +++ D T +N WL I++Y ++V
Sbjct: 102 FWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYG-GKSPVIVVM 157
Query: 84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI--KKRVTKDEK 141
NK D+ ++ + E ++ F S KNG VE ++ + + +
Sbjct: 158 NKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDSIYGTPL 217
Query: 142 PSS 144
S
Sbjct: 218 APS 220
>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 = 138 bits (349), Expect = 3e-42
Identities = 24/123 (19%), Positives = 50/123 (40%), Gaps = 11/123 (8%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY---ACDNVNKL 80
I + AG + + A +I V+ D+ +F + + ++ +
Sbjct: 58 IREEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALA 112
Query: 81 LVGNKN--DQTSKKAVDYQVAKEY-ADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT 137
LVG ++ +S + V A+ AD + + ET A G NV++ F +A ++
Sbjct: 113 LVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRK 172
Query: 138 KDE 140
+ +
Sbjct: 173 QQQ 175
>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 = 106 bits (267), Expect = 6e-30
Identities = 30/118 (25%), Positives = 51/118 (43%), Gaps = 13/118 (11%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
+WDTAGQE + + YRGA I+ + + ++ N+ +W+ E+ Y V +LV
Sbjct: 60 LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY-APGVPIVLV 118
Query: 83 GNKND----------QTSKKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLTMA 129
G K D + +E + P ++E S+K+ NV+ F
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAI 176
>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding,
GTP-binding, signaling Pro lipoprotein, prenylation;
HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B*
Length = 194
Score = 105 bits (264), Expect = 2e-29
Identities = 26/106 (24%), Positives = 49/106 (46%), Gaps = 5/106 (4%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
+WDTAGQE + + Y + +++ + ++ +F+N+ +W EI Y D +LV
Sbjct: 75 LWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLV 133
Query: 83 GNKND--QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
G K D + V Q + L + ++E S+ + + F
Sbjct: 134 GLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179
>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 = 103 bits (259), Expect = 2e-28
Identities = 33/122 (27%), Positives = 58/122 (47%), Gaps = 15/122 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
+ IWDTAGQ+ + + +Y A +++ +D T +F+N+ +W E++ + C V +
Sbjct: 84 LHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF-CKKVPII 142
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
+VG K D + + V Y +E A + + +LE SA+ NV F
Sbjct: 143 VVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQE 202
Query: 128 MA 129
A
Sbjct: 203 AA 204
>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 = 101 bits (254), Expect = 8e-28
Identities = 30/122 (24%), Positives = 54/122 (44%), Gaps = 15/122 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
+ +WDTAGQE + + Y I++ + ++ N+ +W E+ + C NV +
Sbjct: 75 LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 133
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
LVGNK D + ++ V + ++ A+ + +LE SAK V + F
Sbjct: 134 LVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEM 193
Query: 128 MA 129
Sbjct: 194 AT 195
>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 = 101 bits (254), Expect = 1e-27
Identities = 37/155 (23%), Positives = 67/155 (43%), Gaps = 15/155 (9%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
+WDTAGQE + + YRGA ++ + + ++ N+ +W+ E+ R+ NV +LV
Sbjct: 61 LWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPIVLV 119
Query: 83 GNKND--------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK 133
G K D + +E + ++E S+K NV+ F T +
Sbjct: 120 GTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVL 179
Query: 134 KRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
+ + E P + ++ SG + + GGC
Sbjct: 180 QPPRRKEVPRRRKNHRR----SGCSIASIVCGGCT 210
>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 = 100 bits (251), Expect = 3e-27
Identities = 32/130 (24%), Positives = 56/130 (43%), Gaps = 16/130 (12%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
+WDTAGQE + + Y I++ + ++ N+ +W+ E+ + C NV +LV
Sbjct: 77 LWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHF-CPNVPIILV 135
Query: 83 GNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMA 129
NK D + ++ V + A ++ +LE SAK V + F T
Sbjct: 136 ANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETAT 195
Query: 130 -TEIKKRVTK 138
++KR
Sbjct: 196 RAALQKRYGS 205
>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 = 98.5 bits (245), Expect = 4e-26
Identities = 23/151 (15%), Positives = 46/151 (30%), Gaps = 41/151 (27%)
Query: 24 IWDTAGQERFRTITSSYYRGA-------------------------------------HG 46
I D Q T Y + A G
Sbjct: 106 IDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDG 165
Query: 47 IIVVYDCT--DQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
++ D + F++ +++ + ++V K D+ ++ + +
Sbjct: 166 FLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFALS 225
Query: 104 DHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
+ +ETSA++ NV+ AF T+ I K
Sbjct: 226 KK-NLQVVETSARSNVNVDLAFSTLVQLIDK 255
>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 = 96.0 bits (239), Expect = 2e-25
Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 16/119 (13%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
+ +WDT+G + + Y + +++ +D + ET +++ +W EI + C N L
Sbjct: 78 LSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKML 136
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGAN-VEQAF 125
LVG K+D + V Y A + ++E SA N V F
Sbjct: 137 LVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195
>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 = 94.8 bits (236), Expect = 5e-25
Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
+ +WDTAGQE + + Y ++ + +F N +W E+ + C N +
Sbjct: 80 LGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPII 138
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
LVG K D + + Y A + + +LE SA ++ F
Sbjct: 139 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196
>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 = 93.2 bits (232), Expect = 1e-24
Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 16/119 (13%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
+ +WDT+G + + Y + +++ +D + ET +++ +W EI + C N L
Sbjct: 57 LSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKML 115
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGAN-VEQAF 125
LVG K+D + V Y A + ++E SA N V F
Sbjct: 116 LVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 174
>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 = 91.7 bits (228), Expect = 5e-24
Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
+ +WDTAGQE + + Y ++ + +F N +W E+ + C N +
Sbjct: 55 LGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPII 113
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
LVG K D + + Y A + + +LE SA ++ F
Sbjct: 114 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 89.4 bits (222), Expect = 5e-23
Identities = 28/118 (23%), Positives = 53/118 (44%), Gaps = 15/118 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
+ + DTAGQ+ F + Y ++ + +F N ++W+ EI + C +
Sbjct: 70 LQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPII 128
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
LVG ++D + +K V + AK A+ +K ++E SA N+++ F
Sbjct: 129 LVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186
>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 = 86.9 bits (215), Expect = 6e-22
Identities = 29/137 (21%), Positives = 55/137 (40%), Gaps = 16/137 (11%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
+ +WDT+G + + Y + +++ +D + ET ++ K+W EI Y C + L
Sbjct: 77 LSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVL 135
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGA-NVEQAFL 126
L+G K D + + Y+ A L +LE SA ++ F
Sbjct: 136 LIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFR 195
Query: 127 TMATEIKKRVTKDEKPS 143
T + + + + S
Sbjct: 196 TASMLCLNKPSPLPQKS 212
>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 = 86.0 bits (213), Expect = 1e-21
Identities = 24/118 (20%), Positives = 50/118 (42%), Gaps = 15/118 (12%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
+ ++DTAGQE + + Y ++ + + +F N ++W+ E+ Y NV L
Sbjct: 68 LGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFL 126
Query: 81 LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
L+G + D +K + + ++ A + ++E SA ++ F
Sbjct: 127 LIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184
>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 = 81.3 bits (201), Expect = 6e-20
Identities = 26/137 (18%), Positives = 45/137 (32%), Gaps = 6/137 (4%)
Query: 7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
+ L + + +T ++ GQ + RG GI+ V D N +
Sbjct: 61 FLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMR 120
Query: 67 EEIDRYACDNVNK----LLVG-NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANV 121
+ A + +++ NK D V+ V K P LE A G V
Sbjct: 121 NMRENLAEYGLTLDDVPIVIQVNKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGV 179
Query: 122 EQAFLTMATEIKKRVTK 138
+ ++ + RV
Sbjct: 180 FETLKEVSRLVLARVAG 196
>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 = 77.0 bits (189), Expect = 2e-17
Identities = 24/116 (20%), Positives = 45/116 (38%), Gaps = 15/116 (12%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKLLV 82
+WDTAG E + + Y ++ + +F++++ W E+ + C N +LV
Sbjct: 207 LWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHH-CPNTPIILV 265
Query: 83 GNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
G K D + + Y A + + +LE SA ++ F
Sbjct: 266 GTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321
>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 = 63.8 bits (156), Expect = 2e-13
Identities = 24/123 (19%), Positives = 47/123 (38%), Gaps = 16/123 (13%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVNKL 80
++D +GQ R+R + YY+ II V D +D+ K+ L+ + + L
Sbjct: 71 VFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPIL 130
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
NK D + AV + + + L + A G +++ + +I
Sbjct: 131 FFANKMDL--RDAVT---SVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQI 185
Query: 133 KKR 135
+
Sbjct: 186 QTV 188
>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 = 61.9 bits (151), Expect = 1e-12
Identities = 30/125 (24%), Positives = 47/125 (37%), Gaps = 18/125 (14%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
+WD GQ++ R + Y++ G+I V D D+E L+++ D +
Sbjct: 75 FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKM--LQEDELRDAV 132
Query: 80 LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
LLV NK D A+ E D L T A G + ++
Sbjct: 133 LLVFANKQDM--PNAMP---VSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSH 187
Query: 131 EIKKR 135
E+ KR
Sbjct: 188 ELSKR 192
>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 = 61.0 bits (149), Expect = 2e-12
Identities = 33/123 (26%), Positives = 51/123 (41%), Gaps = 14/123 (11%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKL 80
I +WD GQ RFR++ Y RG I+ + D DQE K L + D+ + L
Sbjct: 69 IKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVL 128
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFL--------ETSAKNGANVEQAFLTMATEI 132
++GNK D A+D KE + + + + S K N++ +
Sbjct: 129 VLGNKRDL--PGALD---EKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 183
Query: 133 KKR 135
K R
Sbjct: 184 KSR 186
>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 = 60.3 bits (147), Expect = 4e-12
Identities = 33/128 (25%), Positives = 57/128 (44%), Gaps = 18/128 (14%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
++WD GQE R+ ++YY +IVV D TD+E + ++ L ++ A +++ K
Sbjct: 62 FLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAG 119
Query: 80 LLV-GNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMAT 130
LL+ NK D K+ + E + LK+ A G + Q M +
Sbjct: 120 LLIFANKQDV--KECMT---VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS 174
Query: 131 EIKKRVTK 138
+K R+
Sbjct: 175 RLKIRLEH 182
>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 = 59.9 bits (146), Expect = 4e-12
Identities = 30/125 (24%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
+WD GQ++ R + Y++ G+I V D D+E N ++ L + A D +
Sbjct: 46 FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRM--LAEDELRDAV 103
Query: 80 LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
LLV NK D A++ A E D L T A +G + + ++
Sbjct: 104 LLVFANKQDL--PNAMN---AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSN 158
Query: 131 EIKKR 135
+++ +
Sbjct: 159 QLRNQ 163
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 60.0 bits (146), Expect = 6e-12
Identities = 27/123 (21%), Positives = 47/123 (38%), Gaps = 18/123 (14%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
+WD GQ R Y+ +I V D TD++ K L + D + K LL
Sbjct: 70 VWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYAL--LDEDELRKSLLL 127
Query: 82 V-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
+ NK D A E A+ L +++S+K G + + + +
Sbjct: 128 IFANKQDL--PDAAS---EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERL 182
Query: 133 KKR 135
+++
Sbjct: 183 REQ 185
>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 = 59.5 bits (145), Expect = 7e-12
Identities = 30/125 (24%), Positives = 49/125 (39%), Gaps = 18/125 (14%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
+WD G R YY +I V D D++ K L + + + K
Sbjct: 53 FQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAM--LEEEELRKAI 110
Query: 80 LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
L+V NK D ++A+ + E A+ L K +TSA G +++A +
Sbjct: 111 LVVFANKQDM--EQAMT---SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVE 165
Query: 131 EIKKR 135
+K R
Sbjct: 166 TLKSR 170
>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 = 59.5 bits (145), Expect = 8e-12
Identities = 26/123 (21%), Positives = 44/123 (35%), Gaps = 18/123 (14%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
+WD GQ + R SY+ +I V D D++ F Q L E+ + ++ +L
Sbjct: 64 VWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTEL--LEEEKLSCVPVL 121
Query: 82 V-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
+ NK D + E A+ L SA G V+ + +
Sbjct: 122 IFANKQDLLTAAPAS-----EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176
Query: 133 KKR 135
+
Sbjct: 177 NAK 179
>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 = 59.2 bits (144), Expect = 9e-12
Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 18/123 (14%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
+WD GQ R YY +I V D TD++ + + L + + + LL
Sbjct: 66 VWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLM--LQEEELQDAALL 123
Query: 82 V-GNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMATEI 132
V NK DQ + E + L + + +SA G + + + I
Sbjct: 124 VFANKQDQPGALSAS-----EVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 178
Query: 133 KKR 135
K+
Sbjct: 179 KEE 181
>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 = 58.8 bits (143), Expect = 2e-11
Identities = 26/126 (20%), Positives = 50/126 (39%), Gaps = 18/126 (14%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
+ IWD GQ+ R+ +Y+ G+I V D D++ + ++ L+ + +R A
Sbjct: 64 LNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLA--GAT 121
Query: 79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMAT 130
L+ NK D + + + L++ SA G ++ +
Sbjct: 122 LLIFANKQDLPGALSCN-----AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLD 176
Query: 131 EIKKRV 136
+I RV
Sbjct: 177 DISSRV 182
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 54.2 bits (131), Expect = 7e-10
Identities = 27/115 (23%), Positives = 46/115 (40%), Gaps = 18/115 (15%)
Query: 22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
++WD GQE R+ ++YY +IVV D TD+E + ++ L ++ +
Sbjct: 67 FLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLR--KAG 124
Query: 79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAF 125
L+ NK D K+ + E + LK+ A G + Q
Sbjct: 125 LLIFANKQDV--KECMT---VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGL 174
>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 = 1e-09
Identities = 27/123 (21%), Positives = 51/123 (41%), Gaps = 18/123 (14%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVNKL 80
+WD GQ++ R + Y++ G+I V D D+E N ++ L + D + L
Sbjct: 213 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELR--DAVLL 270
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
+ NK D A++ A E D L T A +G + + ++ ++
Sbjct: 271 VFANKQDL--PNAMN---AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 325
Query: 133 KKR 135
+ +
Sbjct: 326 RNQ 328
>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 = 52.6 bits (126), Expect = 7e-09
Identities = 27/125 (21%), Positives = 50/125 (40%), Gaps = 18/125 (14%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVNKL 80
+WD GQ++ R + YY G G+I V DC D++ + +Q L I + L
Sbjct: 370 VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMR--DAIIL 427
Query: 81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFL--------ETSAKNGANVEQAFLTMATEI 132
+ NK D A+ E + L + + + A +G + + + +
Sbjct: 428 IFANKQDL--PDAMK---PHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 482
Query: 133 KKRVT 137
K ++
Sbjct: 483 KSKLA 487
>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 = 50.3 bits (121), Expect = 2e-08
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 7/68 (10%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD----NVNK 79
+D G + R + Y+ +GI+ + D D E F+ + E+D +V
Sbjct: 71 TFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEAR---VELDALFNIAELKDVPF 127
Query: 80 LLVGNKND 87
+++GNK D
Sbjct: 128 VILGNKID 135
>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 = 50.4 bits (121), Expect = 2e-08
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 7/68 (10%)
Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD----NVNK 79
+D G + R + +Y +GI+ + DC D E K EE+D D NV
Sbjct: 73 TFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESK---EELDSLMTDETIANVPI 129
Query: 80 LLVGNKND 87
L++GNK D
Sbjct: 130 LILGNKID 137
>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 = 48.8 bits (116), Expect = 7e-08
Identities = 26/120 (21%), Positives = 46/120 (38%), Gaps = 18/120 (15%)
Query: 22 IVIWDTAGQERFRTITS---SYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDN 76
IWD GQ F T +RG +I V D D E L + + + +
Sbjct: 71 FQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PD 129
Query: 77 VNKLLVGNKND-------QTSKKAVDYQVAKEYADH----LKIPFLETSAKNGANVEQAF 125
+N + +K D +++ + + + AD L + F TS + ++ +AF
Sbjct: 130 MNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDH-SIFEAF 188
>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 = 45.5 bits (108), Expect = 1e-06
Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 9/85 (10%)
Query: 12 NKKEERTRTLIVIWDTAGQERFRTITSSYYR----GAHGIIVVYDC-TDQETFNNLKQWL 66
+ + + + D G + R S Y + G+I + D D + ++L
Sbjct: 83 LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFL 142
Query: 67 EEI----DRYACDNVNKLLVGNKND 87
+I + + ++ L+ NK++
Sbjct: 143 VDILSITESSCENGIDILIACNKSE 167
>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 = 45.9 bits (109), Expect = 1e-06
Identities = 14/86 (16%), Positives = 33/86 (38%), Gaps = 9/86 (10%)
Query: 12 NKKEERTRTLIVIWDTAGQERFRTITSSYY----RGAHGIIVVYDC-TDQETFNNLKQWL 66
+ + + + D G + R S Y + G+I + D D + ++L
Sbjct: 47 LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFL 106
Query: 67 EEI----DRYACDNVNKLLVGNKNDQ 88
+I + + ++ L+ NK++
Sbjct: 107 VDILSITESSCENGIDILIACNKSEL 132
>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP-
binding, hydrolase, magnesium, metal-binding,
nucleotide- binding, potassium; HET: GDP FON; 2.95A
{Chlorobium tepidum} PDB: 3gei_A*
Length = 476
Score = 45.2 bits (108), Expect = 2e-06
Identities = 17/103 (16%), Positives = 32/103 (31%), Gaps = 9/103 (8%)
Query: 44 AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
A I+ + D + + L + E L V NK D+ + + +
Sbjct: 313 ADLILYLLDLGTERLDDELTEIRELKAA--HPAAKFLTVANKLDRAANADALIRAIADGT 370
Query: 104 DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSES 146
+ SA NG ++ + + V +K S
Sbjct: 371 GT---EVIGISALNGDGIDT----LKQHMGDLVKNLDKLHEAS 406
>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain,
acetylation, ADP- ribosylation, alternative splicing,
cell cycle, cell division; 2.40A {Homo sapiens}
Length = 227
Score = 43.1 bits (101), Expect = 1e-05
Identities = 15/124 (12%), Positives = 29/124 (23%), Gaps = 13/124 (10%)
Query: 25 WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN---NLKQWLEEIDRYACDNVNKLL 81
+ G I V + + + D + LL
Sbjct: 107 DQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLL 166
Query: 82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLE-------TSAKNGANVEQAFLTMATEIKK 134
V + Q K + A L + L T A+ + E++
Sbjct: 167 VLSCISQGDVKRMP---CFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES 223
Query: 135 RVTK 138
+ +
Sbjct: 224 KRAR 227
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 43.1 bits (101), Expect = 1e-05
Identities = 22/114 (19%), Positives = 47/114 (41%), Gaps = 18/114 (15%)
Query: 24 IWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQETFNNLKQW---LEEIDRYACD 75
+WD GQ+ F ++ +I V+D E +++ + L+++ +Y+
Sbjct: 56 LWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-P 114
Query: 76 NVNKLLVGNKND--QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLT 127
+ ++ +K D Q K+ +Q+ + ETS++ G F T
Sbjct: 115 DAKIFVLLHKMDLVQLDKREELFQIMMKNL-------SETSSEFGFPNLIGFPT 161
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 42.7 bits (100), Expect = 2e-05
Identities = 18/130 (13%), Positives = 51/130 (39%), Gaps = 18/130 (13%)
Query: 12 NKKEERTRTLIVIWDTAGQERFR---TITSSYYRGAHGIIVVYDCTDQ--ETFNNLKQWL 66
+ + T + + + GQ + + ++ ++ V D D+ NL +
Sbjct: 38 SLEHFSTLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMII 97
Query: 67 EEIDRYACDNVNKLLVGNKND-------QTSKKAVDYQVAKEYAD----HLKIPFLETSA 115
E + ++N ++ +K D +++ + + +E + +++ F TS
Sbjct: 98 EYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSI 156
Query: 116 KNGANVEQAF 125
+ ++ +AF
Sbjct: 157 FDH-SIYEAF 165
>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 = 42.0 bits (99), Expect = 2e-05
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 5/69 (7%)
Query: 24 IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTD-QETFNNLKQWLEEI--DRYACDNVNK 79
+ D G E R + + A ++ V D Q ++ ++L ++ D A N
Sbjct: 58 LIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS 117
Query: 80 LLV-GNKND 87
LL+ NK D
Sbjct: 118 LLIACNKQD 126
>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer,
alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A
{Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A*
2gja_A* 1rfl_A
Length = 172
Score = 40.2 bits (95), Expect = 7e-05
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 8/80 (10%)
Query: 44 AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
A ++ + D T + + + W E I R + +V NK D T + +V
Sbjct: 84 ADRVLFMVDGTTTDAVDPAEIWPEFIARL-PAKLPITVVRNKADITGETLGMSEVNGH-- 140
Query: 104 DHLKIPFLETSAKNGANVEQ 123
+ SA+ G V+
Sbjct: 141 -----ALIRLSARTGEGVDV 155
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 38.1 bits (89), Expect = 6e-04
Identities = 22/133 (16%), Positives = 43/133 (32%), Gaps = 19/133 (14%)
Query: 22 IVIWDTAG-------QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
+ + DT G + A I+V D +++ +E+
Sbjct: 85 VTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEM----- 139
Query: 75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
+ ++V NK D +KA + + Y + L SA + + I +
Sbjct: 140 -EIPFVVVVNKIDVLGEKAEE--LKGLYESRYEAKVLLVSALQKKGFD----DIGKTISE 192
Query: 135 RVTKDEKPSSESD 147
+ DE+ D
Sbjct: 193 ILPGDEEIPYLGD 205
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 35.9 bits (84), Expect = 0.003
Identities = 16/103 (15%), Positives = 37/103 (35%), Gaps = 14/103 (13%)
Query: 44 AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
A +++ D T ++ E++ + +LV NK D K+ + E
Sbjct: 304 ADLVLLTIDAATGWT-TGDQEIYEQVK-----HRPLILVMNKIDLVEKQLITSLEYPENI 357
Query: 104 DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSES 146
+ T+A ++ + T I + V + +++
Sbjct: 358 T----QIVHTAAAQKQGIDS----LETAILEIVQTGKVQAADM 392
>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation
pathway, ubiquitin Pro ligase, protein binding-cell
cycle complex; 2.80A {Homo sapiens}
Length = 312
Score = 35.9 bits (82), Expect = 0.003
Identities = 15/123 (12%), Positives = 29/123 (23%), Gaps = 13/123 (10%)
Query: 26 DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN---NLKQWLEEIDRYACDNVNKLLV 82
+ G I V + + + D + LLV
Sbjct: 193 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLV 252
Query: 83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLE-------TSAKNGANVEQAFLTMATEIKKR 135
+ Q K + A L + L T A+ + E++ +
Sbjct: 253 LSCISQGDVKRM---PCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK 309
Query: 136 VTK 138
+
Sbjct: 310 RAR 312
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 36.0 bits (84), Expect = 0.004
Identities = 21/100 (21%), Positives = 37/100 (37%), Gaps = 13/100 (13%)
Query: 47 IIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL 106
++ V D + ++ LE I N L+V NK D K + K D
Sbjct: 327 VLFVLDASSPLD-EEDRKILERIK-----NKRYLVVINKVDVVEKINEEEIKNKLGTDR- 379
Query: 107 KIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSES 146
++ SA G +E+ + I + + + S+S
Sbjct: 380 --HMVKISALKGEGLEK----LEESIYRETQEIFERGSDS 413
>3cwq_A Para family chromosome partitioning protein; alpha-beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: ADP; 2.47A {Synechocystis SP}
Length = 209
Score = 29.7 bits (67), Expect = 0.39
Identities = 22/161 (13%), Positives = 44/161 (27%), Gaps = 30/161 (18%)
Query: 7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT-DQETFNNLKQW 65
Q K IVI DT + + + G +++ T D + L
Sbjct: 56 VDERQAAKYAPKYQNIVI-DTQARPEDEDL-EALADGCDLLVI--PSTPDALALDALMLT 111
Query: 66 LEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLET----------SA 115
+E + + N ++ + D A++ +P + ++
Sbjct: 112 IETLQKLG--NNRFRILLTIIP--PYPSKDGDEARQLLTTAGLPLFKRGIKRYSAFQKAS 167
Query: 116 KNGANV-----------EQAFLTMATEIKKRVTKDEKPSSE 145
NG V + EI + + E
Sbjct: 168 LNGVVVSEVSDSKAGIAWSDYKATGKEIVEEILTLEHHHHH 208
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 29.7 bits (68), Expect = 0.40
Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 8/63 (12%)
Query: 64 QWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLET---SAKNGAN 120
+ + + V LLVGNK D + K Y + +P E SA +
Sbjct: 105 ELVARALKPLVGKVPILLVGNKLDAAKYPE---EAMKAYHE--LLPEAEPRMLSALDERQ 159
Query: 121 VEQ 123
V +
Sbjct: 160 VAE 162
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 29.1 bits (66), Expect = 0.57
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 80 LLVGNKNDQTSKKAVDYQVAKEYADHL--KIPFLETSAKNGANVEQ 123
L+V NK D D + + A + + S K ++
Sbjct: 168 LIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDK 213
>3ty2_A 5'-nucleotidase SURE; surviVal protein, phosphatase, hydrolase;
HET: MSE; 1.89A {Coxiella burnetii}
Length = 261
Score = 29.0 bits (66), Expect = 0.57
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 51 YDCTDQETFNNLKQWLEEID 70
D T E F+ L W++ ++
Sbjct: 241 VDLTHYEAFDQLASWVKRLE 260
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 28.7 bits (65), Expect = 0.71
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 2/46 (4%)
Query: 80 LLVGNKNDQTSKKAVDYQVAKEYADHL--KIPFLETSAKNGANVEQ 123
L+V NK D + K A + + +E K G E+
Sbjct: 158 LIVINKVALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGKGFEE 203
>2v4n_A Multifunctional protein SUR E; hydrolase, surviVal protein,
stationary phase, phosph mononucleotidase, divalent
metal ION; 1.7A {Salmonella typhimurium} PDB: 2v4o_A
Length = 254
Score = 28.2 bits (64), Expect = 1.2
Identities = 4/19 (21%), Positives = 8/19 (42%)
Query: 51 YDCTDQETFNNLKQWLEEI 69
D T + + WL+ +
Sbjct: 230 VDLTAHSAHDVVSDWLDSV 248
>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 = 28.7 bits (63), Expect = 1.2
Identities = 34/160 (21%), Positives = 61/160 (38%), Gaps = 27/160 (16%)
Query: 3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL 62
L+ P +T Q + TR I ++R R Y + Y+ + + + L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYI-------EQRDRL-----YNDNQ-VFAKYNVSRLQPYLKL 140
Query: 63 KQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPF----LETSAKNG 118
+Q L E+ N L+ G + K V V Y K+ F L + KN
Sbjct: 141 RQALLELR----PAKNVLIDGVLG--SGKTWVALDVCLSYKVQCKMDFKIFWL--NLKN- 191
Query: 119 ANVEQAFLTMATEIKKRVTKDEKPSSESDAK-KLNLNSGK 157
N + L M ++ ++ + S+ + KL ++S +
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1
c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A*
Length = 768
Score = 27.7 bits (60), Expect = 2.4
Identities = 16/97 (16%), Positives = 28/97 (28%), Gaps = 14/97 (14%)
Query: 8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETF-------- 59
+ T+ + ++G R R T + G + DQE
Sbjct: 477 GSADRPHLAYTQFITTYQHSSGTNRIRVTTVANQLLPFGTPAIAASFDQEAAAVLMARIA 536
Query: 60 ------NNLKQWLEEIDRYACDNVNKLLVGNKNDQTS 90
++ + +DR K NK+D S
Sbjct: 537 VHKAETDDGADVIRWLDRTLIKLCQKYADYNKDDPQS 573
>1j9j_A Stationary phase surviVal protein; SURE protein, unknown function;
1.90A {Thermotoga maritima} SCOP: c.106.1.1 PDB: 1ilv_A
1j9k_A* 1j9l_A*
Length = 247
Score = 26.6 bits (60), Expect = 3.6
Identities = 2/17 (11%), Positives = 8/17 (47%)
Query: 51 YDCTDQETFNNLKQWLE 67
T+++ L++ +
Sbjct: 231 PFLTNEQCLKKLREVYD 247
>2hy7_A Glucuronosyltransferase GUMK; glycosyltransferases, xanthan,
membrane-associated proteins; 1.90A {Xanthomonas
campestris} PDB: 2q6v_A* 3cv3_A* 3cuy_A*
Length = 406
Score = 26.6 bits (58), Expect = 4.2
Identities = 5/45 (11%), Positives = 17/45 (37%)
Query: 49 VVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA 93
+VY +D + N+ ++E ++ + + + +
Sbjct: 151 LVYRASDGLSTINVASYIEREFDRVAPTLDVIALVSPAMAAEVVS 195
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 26.7 bits (59), Expect = 5.3
Identities = 8/20 (40%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 99 AKEYADHLKIPFLETSAKNG 118
AK+YA+ L + F ++ NG
Sbjct: 107 AKDYAEILGLKFAYST--NG 124
>1fo8_A Alpha-1,3-mannosyl-glycoprotein beta-1,2-N-
acetylglucosaminyltransferase; methylmercury derivative,
N- acetylglucosaminyltransferase I; 1.40A {Oryctolagus
cuniculus} SCOP: c.68.1.10 PDB: 1fo9_A 1foa_A* 2apc_A*
2am3_A* 2am4_A* 2am5_A*
Length = 343
Score = 26.2 bits (57), Expect = 6.5
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 3/76 (3%)
Query: 47 IIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL 106
IIV DC +ET + + + +++ + V + K Y++A+ Y L
Sbjct: 35 IIVSQDCGHEETAQVIASYGSAVTHIRQPDLSNIAVQPDH---RKFQGYYKIARHYRWAL 91
Query: 107 KIPFLETSAKNGANVE 122
F + VE
Sbjct: 92 GQIFHNFNYPAAVVVE 107
>3dhu_A Alpha-amylase; structural genomics, hydrolase, glycosidase, PSI-2,
protein structure initiative; 2.00A {Lactobacillus
plantarum}
Length = 449
Score = 25.8 bits (57), Expect = 7.8
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 56 QETFNNLKQWLEEIDRYACDNVN 78
Q + L W + +D Y CD
Sbjct: 153 QYQIDTLLYWSQFVDGYRCDVAP 175
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.314 0.130 0.376
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,439,125
Number of extensions: 135226
Number of successful extensions: 500
Number of sequences better than 10.0: 1
Number of HSP's gapped: 379
Number of HSP's successfully gapped: 135
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (24.5 bits)