RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1169
(218 letters)
>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 = 311 bits (800), Expect = e-110
Identities = 109/180 (60%), Positives = 143/180 (79%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
+Y ++FK+++IG+ G GKSCLLHQF E+KF D HTIGVEFG++II V G+ +KLQIWD
Sbjct: 6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 65
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKM 130
TAGQERFR+VTRSYYRGAAGAL+VYDIT R TYN L++WLTD + L + N VI L GNK
Sbjct: 66 TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKK 125
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMT 190
DL+ R+V + EA +FA+EN+L+F+E SA+TGENVE+AF++ A+KI I+ G+L+
Sbjct: 126 DLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPERM 185
>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 = 311 bits (799), Expect = e-109
Identities = 108/183 (59%), Positives = 140/183 (76%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ G ++FK+++IG G GKSCLLHQF E KF D HTIGVEFG+R++ V G+
Sbjct: 14 LVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKT 73
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
+KLQIWDTAGQERFR+VTRSYYRGAAGAL+VYDIT R TYN L++WLTD + L +PN V+
Sbjct: 74 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVV 133
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDG 183
L GNK DL+ R+V + EA +FA+EN+L+F+E SA+TGENVE+AFL+ A+ I I G
Sbjct: 134 ILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSG 193
Query: 184 KLN 186
+L+
Sbjct: 194 ELD 196
>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 = 309 bits (794), Expect = e-109
Identities = 112/181 (61%), Positives = 139/181 (76%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
SS SY+FKYIIIGD GVGKSCLL QFT+++F P TIGVEFG R++ + G++I
Sbjct: 11 SSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI 70
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
KLQIWDTAGQE FR++TRSYYRGAAGAL+VYDITRR T+NHL+SWL D + ++ N VI
Sbjct: 71 KLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIM 130
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
LIGNK DLE RDV+ +E + FA E+ LIF+E SA T NVE+AF+ TAK+IY+ I+ G
Sbjct: 131 LIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190
Query: 185 L 185
Sbjct: 191 F 191
>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 = 308 bits (792), Expect = e-108
Identities = 151/176 (85%), Positives = 161/176 (91%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
S++ Y+YSYIFKYIIIGDMGVGKSCLLHQFTE+KFM DCPHTIGVEFGTRIIEV G+K
Sbjct: 4 GSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK 63
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD +NLTNPNTVI
Sbjct: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVI 123
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
LIGNK DLE RDV Y+EAK+FAEEN L+F+EASA TGENVE AFLE AKKIYQN
Sbjct: 124 ILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQN 179
>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 = 306 bits (785), Expect = e-107
Identities = 94/222 (42%), Positives = 135/222 (60%), Gaps = 7/222 (3%)
Query: 4 MSSSGQ-YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
MSS Y Y +FK ++IGD GVGKS LL +FT+ +F D TIGVEF TR +E+ G+
Sbjct: 1 MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGK 60
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV 122
+IK QIWDTAGQER+RA+T +YYRGA GAL+VYDI++ S+Y + + WL++ + + N
Sbjct: 61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVA 120
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
+ LIGNK DL R V +E+K FA+EN L+F E SA+ ENV++AF E IYQ +
Sbjct: 121 VGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSK 180
Query: 183 GKLNANMTESGVQHKERGGPA------SLGDSSSSDKPNCSC 218
+++ + + P + + + +C
Sbjct: 181 HQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNC 222
>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 = 304 bits (780), Expect = e-106
Identities = 85/208 (40%), Positives = 126/208 (60%), Gaps = 5/208 (2%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
Y Y+FK ++IG+ GVGKSCLL +F++ + D TIGV+F + +E+ G+ +KLQIWD
Sbjct: 4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWD 63
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKM 130
TAGQERFR +T SYYRG+ G ++VYD+T + ++N + WL + + L+GNK
Sbjct: 64 TAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKC 123
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMT 190
DL+ R V YD AK+FA+ N + F+E SA+ NVE AFL A++I +++ LN
Sbjct: 124 DLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQ 183
Query: 191 ESGVQHKERGGPASLGDSSSSDKPNCSC 218
+ G +L S ++ C C
Sbjct: 184 KKE-----DKGNVNLKGQSLTNTGGCCC 206
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 301 bits (774), Expect = e-106
Identities = 85/195 (43%), Positives = 120/195 (61%), Gaps = 1/195 (0%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
+ +MSS Y Y+FK ++IGD GVGKSCLL +F + + TIGV+F R IE+
Sbjct: 3 LGSMSSMNP-EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD 61
Query: 61 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPN 120
G+ IKLQIWDTAGQERFR +T SYYRGA G ++VYD+T + ++N++ WL + + N
Sbjct: 62 GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASEN 121
Query: 121 TVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
L+GNK DL + V Y AK+FA+ + F+E SA NVEQ+F+ A +I + +
Sbjct: 122 VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181
Query: 181 KDGKLNANMTESGVQ 195
G +S V+
Sbjct: 182 GPGATAGGAEKSNVK 196
>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 = 301 bits (774), Expect = e-106
Identities = 79/178 (44%), Positives = 114/178 (64%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ G Y+++FK ++IG+ GVGK+ LL +FT +F D TIGVEF TR + +
Sbjct: 14 LVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAA 73
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
+K QIWDTAG ER+RA+T +YYRGA GAL+V+D+T+ TY + WL + + V+
Sbjct: 74 VKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVV 133
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
L+GNK DL +R+V +EA+ FAE N L+F+E SA+ NVE AF K+I+ +
Sbjct: 134 MLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVS 191
>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 = 301 bits (773), Expect = e-105
Identities = 88/181 (48%), Positives = 119/181 (65%)
Query: 12 YSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDT 71
Y Y+FK ++IGD GVGKS LL +FT +F + TIGVEF TR I+V G+ IK QIWDT
Sbjct: 2 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 72 AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMD 131
AGQER+R +T +YYRGA GAL+VYDI + TY ++ WL + ++ + N VI L+GNK D
Sbjct: 62 AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121
Query: 132 LEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTE 191
L R V DEA+ FAE+N+L F+E SA+ NVE+AF +IY+ + ++
Sbjct: 122 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAH 181
Query: 192 S 192
Sbjct: 182 D 182
>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 = 300 bits (770), Expect = e-105
Identities = 88/172 (51%), Positives = 114/172 (66%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK 65
+ Y Y+FK ++IGD GVGKS LL +FT +F + TIGVEF TR I+V G+ IK
Sbjct: 20 GTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIK 79
Query: 66 LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFL 125
QIWDTAG ER+RA+T +YYRGA GAL+VYDI + TY ++ WL + ++ + N VI L
Sbjct: 80 AQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIML 139
Query: 126 IGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIY 177
+GNK DL R V DEA+ FAE+N L F+E SA+ NVE AF +IY
Sbjct: 140 VGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191
>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural
genomics, structural genomics consortium, SGC, signaling
protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 201
Score = 298 bits (765), Expect = e-104
Identities = 74/187 (39%), Positives = 118/187 (63%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ Y ++FK ++IG+ GVGK+CL+ +FT+ F P TIGV+F + +E++GEK
Sbjct: 15 VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEK 74
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
+KLQIWDTAGQERFR++T+SYYR A ++ YDIT ++ L WL + + + +
Sbjct: 75 VKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVIT 134
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDG 183
L+GNK+DL R+V A++F+E D+ ++E SA +NVE+ FL+ A ++ +
Sbjct: 135 VLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQN 194
Query: 184 KLNANMT 190
L N++
Sbjct: 195 TLVNNVS 201
>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 = 296 bits (761), Expect = e-103
Identities = 67/192 (34%), Positives = 108/192 (56%)
Query: 8 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQ 67
G + + Y+FK +IIG+ VGK+ L ++ + F P T+G++F + I + ++IKLQ
Sbjct: 1 GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQ 60
Query: 68 IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIG 127
IWDTAG ER+R +T +YYRGA G +++YDIT ++N + W T K + N + L+G
Sbjct: 61 IWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVG 120
Query: 128 NKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNA 187
NK D+E R V + ++ A+ F EASA NV+Q F I + + + A
Sbjct: 121 NKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTA 180
Query: 188 NMTESGVQHKER 199
+ +G + +
Sbjct: 181 DPAVTGAKQGPQ 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 = 293 bits (752), Expect = e-102
Identities = 81/209 (38%), Positives = 118/209 (56%), Gaps = 1/209 (0%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
+ SS SY I K ++IGD GVGKSCLL +F E KF P TIG++F + ++++
Sbjct: 6 TVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN 65
Query: 61 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPN 120
G+K+KLQ+WDTAGQERFR +T +YYRGA G ++VYD+T T+ ++ W N
Sbjct: 66 GKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDE 125
Query: 121 TVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
+ L+GNK D+E +R V D+ + A+E + F+E+SA +NV + F AK I + I
Sbjct: 126 AQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 184
Query: 181 KDGKLNANMTESGVQHKERGGPASLGDSS 209
KL G + S+
Sbjct: 185 DSNKLVGVGNGKEGNISINSGSGNSSKSN 213
>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 = 292 bits (749), Expect = e-102
Identities = 65/177 (36%), Positives = 110/177 (62%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S + + S K +++GD+G GKS L+ +F + +F+ TIG F ++ + V+ +
Sbjct: 2 SMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATV 61
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
K +IWDTAGQER+ ++ YYRGAA A++V+D+T ++++ W+ + + NPN V+
Sbjct: 62 KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMA 121
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
L GNK DL +R V ++A+ +A+EN L F+E SA T NV++ F E A+++ +
Sbjct: 122 LAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQP 178
>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 = 289 bits (741), Expect = e-101
Identities = 71/177 (40%), Positives = 109/177 (61%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
+Y Y+FK ++IGD GVGK+C+L +F+E F TIG++F R IE+ G++IKLQIWD
Sbjct: 4 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 63
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKM 130
TAGQERFR +T +YYRGA G ++VYDIT +++++ +W+ + + + + ++GNK
Sbjct: 64 TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKC 123
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNA 187
D+ R V + +K A + + F+E SA NVE AF A+ I +
Sbjct: 124 DVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKAT 180
>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 = 288 bits (739), Expect = e-100
Identities = 71/177 (40%), Positives = 115/177 (64%), Gaps = 1/177 (0%)
Query: 7 SGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDC-PHTIGVEFGTRIIEVHGEKIK 65
SG Y FK +++GD GVGK+CLL +F + F+ T+G++F ++++V G K+K
Sbjct: 2 SGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVK 61
Query: 66 LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFL 125
LQ+WDTAGQERFR+VT +YYR A L++YD+T +++++++ +WLT+ + + L
Sbjct: 62 LQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALML 121
Query: 126 IGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
+GNK+D R V+ ++ +K A+E L F+E SA TG NV+ AF AK++ +
Sbjct: 122 LGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMK 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 = 288 bits (739), Expect = e-100
Identities = 81/175 (46%), Positives = 112/175 (64%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK 65
SS Y Y+FK ++IGD GVGKSCLL +F + + TIGV+F R IE+ G+ IK
Sbjct: 24 SSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIK 83
Query: 66 LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFL 125
LQIWDTAGQERFR +T SYYRGA G ++VYD+T + ++N++ WL + + N L
Sbjct: 84 LQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLL 143
Query: 126 IGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
+GNK DL + V Y AK+FA+ + F+E SA NVEQ+F+ A +I + +
Sbjct: 144 VGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 198
>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 = 287 bits (737), Expect = e-100
Identities = 67/178 (37%), Positives = 108/178 (60%), Gaps = 1/178 (0%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ + + IIIG GVGK+ L+ +FT+ F C T+GV+F + +E+ G+K
Sbjct: 15 VPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKK 74
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
I+LQIWDTAGQERF ++T +YYR A G ++VYDIT++ T++ L W+ + + +
Sbjct: 75 IRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAEL 134
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
L+GNK+D E R++ + +KFA++ + F EASA NV++ FL+ I + +
Sbjct: 135 LLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192
>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 = 287 bits (737), Expect = e-100
Identities = 67/179 (37%), Positives = 104/179 (58%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ Q ++ Y+FK +IIG+ VGK+ L ++ + F P T+G++F + + H ++
Sbjct: 12 ENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKR 71
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVI 123
+KLQIWDTAGQER+R +T +YYRGA G +++YDIT ++N + W T K + N +
Sbjct: 72 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQV 131
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
L+GNK D+E R V ++ + AE+ F EASA +V QAF I + D
Sbjct: 132 ILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMSD 190
>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 = 288 bits (739), Expect = e-100
Identities = 62/200 (31%), Positives = 114/200 (57%), Gaps = 11/200 (5%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE- 62
+ G Y Y+ K + +GD GVGK+ L+++T+ KF P T+G++F + + + +
Sbjct: 14 LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQG 73
Query: 63 ---------KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDT 113
K+ LQ+WDTAGQERFR++T +++R A G L+++D+T + ++ ++ +W++
Sbjct: 74 PNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQL 133
Query: 114 KNLTNP-NTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLET 172
+ N I LIGNK DL R+V +A++ A++ + + E SA TG+NVE+A
Sbjct: 134 QANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETL 193
Query: 173 AKKIYQNIKDGKLNANMTES 192
I + ++ + ++
Sbjct: 194 LDLIMKRMEQCVEKTQIPDT 213
>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 = 287 bits (737), Expect = e-100
Identities = 76/175 (43%), Positives = 108/175 (61%), Gaps = 1/175 (0%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S Y ++FK +++GD VGK+C++ +F F TIGV+F + +E+ G+++
Sbjct: 19 SGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRV 78
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
KLQIWDTAGQERFR +T+SYYR A GA++ YDIT+RS++ + W+ D + N V
Sbjct: 79 KLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQL 138
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEEND-LIFVEASAMTGENVEQAFLETAKKIYQ 178
LIGNK DL R+V EA+ AE D L +E SA NVE+AFL A ++
Sbjct: 139 LIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIM 193
>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 = 285 bits (732), Expect = 1e-99
Identities = 66/169 (39%), Positives = 103/169 (60%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
+ FK +++G+ VGKS L+ +F + +F TIG F T+ + + +K +IWD
Sbjct: 2 NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKM 130
TAGQER+ ++ YYRGA A++VYDIT ++ +W+ + + +PN VI L GNK
Sbjct: 62 TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
DL R V + EA+ +A++N L+F+E SA T NV + F+ AKK+ +N
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170
>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 = 286 bits (733), Expect = 1e-99
Identities = 65/178 (36%), Positives = 102/178 (57%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S Y+FK ++IG+ VGK+ L ++ + F P T+G++F + + H ++I
Sbjct: 12 SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRI 71
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
KLQIWDTAGQER+R +T +YYRGA G L++YDI + ++ + W T K + N +
Sbjct: 72 KLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVI 131
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
L+GNK DLE R V ++ ++ A++ F EASA NV+Q F I + + +
Sbjct: 132 LVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKMNE 189
>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 = 284 bits (729), Expect = 7e-99
Identities = 86/192 (44%), Positives = 116/192 (60%), Gaps = 4/192 (2%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
SS K +IIG+ GVGKS LL +FT+ F P+ TIGV+F + I V G K
Sbjct: 5 SSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKA 64
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-I 123
KL IWDTAGQERFR +T SYYRGA G ++VYD+TRR T+ L +WL + + N +
Sbjct: 65 KLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVN 124
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDG 183
L+GNK+D E +R+V +E KFA ++ ++F+EASA T + V+ AF E +KI Q G
Sbjct: 125 MLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP--G 181
Query: 184 KLNANMTESGVQ 195
+ SG
Sbjct: 182 LWESENQNSGPS 193
>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 = 283 bits (726), Expect = 9e-99
Identities = 58/168 (34%), Positives = 99/168 (58%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
S +Y FK +++G+ VGK+ L+ ++ E KF T+G F T+ + + G+++ L IWD
Sbjct: 2 SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKM 130
TAGQERF A+ YYR + GA++VYDIT ++ + +W+ + + + + ++GNK+
Sbjct: 62 TAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKI 121
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
DLE R V EA+ +AE SA + +E+ FL+ K++ +
Sbjct: 122 DLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169
>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 = 283 bits (726), Expect = 1e-98
Identities = 63/177 (35%), Positives = 103/177 (58%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
TMSS + FK + +G+ VGK+ L+ +F F TIG++F ++ + +
Sbjct: 2 TMSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDR 61
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV 122
++LQ+WDTAGQERFR++ SY R + A++VYDIT ++++ S W+ D + + +
Sbjct: 62 TVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVI 121
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
I L+GNK DL R V +E ++ A+E +++F+E SA G NV+Q F A +
Sbjct: 122 IMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 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 = 282 bits (725), Expect = 1e-98
Identities = 75/169 (44%), Positives = 107/169 (63%), Gaps = 1/169 (0%)
Query: 14 YIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAG 73
I K ++IGD GVGKSCLL +F E KF P TIG++F + ++++G+K+KLQIWDTAG
Sbjct: 2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG 61
Query: 74 QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLE 133
QERFR +T +YYRGA G ++VYDIT T+ ++ W N + L+GNK D+E
Sbjct: 62 QERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 121
Query: 134 GSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
+R V D+ + A+E + F+E+SA +NV + F AK I + I
Sbjct: 122 -TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 282 bits (725), Expect = 2e-98
Identities = 72/184 (39%), Positives = 105/184 (57%), Gaps = 5/184 (2%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
+M+ Y ++FK +IIGD GVGKS LL +F + F TIGV+F R +E++GE
Sbjct: 1 SMARD----YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGE 56
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV 122
K+KLQIWDTAGQERFR +T +YYRG G ++VYD+T ++ ++ WL + +
Sbjct: 57 KVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVC 115
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
L+GNK D + V ++A KFA + + E SA NVE+ F + + + KD
Sbjct: 116 RILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKD 175
Query: 183 GKLN 186
Sbjct: 176 NLAK 179
>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 = 283 bits (726), Expect = 2e-98
Identities = 62/196 (31%), Positives = 111/196 (56%), Gaps = 14/196 (7%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV--- 59
+MS Y Y+ K++ +GD GVGK+ +L+Q+T+ KF T+G++F + +
Sbjct: 2 SMSDG---DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRAN 58
Query: 60 -------HGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD 112
G++I LQ+WDTAG ERFR++T +++R A G L+++D+T ++ ++ +W++
Sbjct: 59 GPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQ 118
Query: 113 TK-NLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLE 171
+ + + N I L GNK DLE R V+ +EA++ AE+ + + E SA G N+ A
Sbjct: 119 LQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEM 178
Query: 172 TAKKIYQNIKDGKLNA 187
I + ++ +
Sbjct: 179 LLDLIMKRMERSVDKS 194
>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 = 282 bits (725), Expect = 2e-98
Identities = 69/180 (38%), Positives = 106/180 (58%), Gaps = 5/180 (2%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S + S S IFK I+IGD VGK+CL ++F +F TIGV+F R +++ GE+I
Sbjct: 10 SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERI 69
Query: 65 KLQIWDTAGQERFR-AVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV- 122
K+Q+WDTAGQERFR ++ + YYR + VYD+T ++++ L +W+ + K N +
Sbjct: 70 KIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP 129
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMT---GENVEQAFLETAKKIYQN 179
L+GNK DL + V D A+KFA+ + + E SA ++VE F+ A K+ +
Sbjct: 130 RILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKSH 189
>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 = 279 bits (717), Expect = 2e-97
Identities = 66/163 (40%), Positives = 99/163 (60%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K ++GD GVGKS ++ +F E F P+ TIG F T+ ++ E K IWDTAG E
Sbjct: 7 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGS 135
RFRA+ YYRG+A A++VYDIT+ T++ L +W+ + + P+ V+ + GNK DL
Sbjct: 67 RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126
Query: 136 RDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
R+V +AK +A+ IFVE SA N+ + F+E +++I
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 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 = 280 bits (718), Expect = 4e-97
Identities = 60/180 (33%), Positives = 101/180 (56%), Gaps = 6/180 (3%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S+ +S +K ++ GD VGKS L + + +F + T+GV+F + + V GE+
Sbjct: 18 GSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERT 77
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
LQ+WDTAGQERFR++ +SY+R A G L++YD+T ++ ++ W+ ++ + I
Sbjct: 78 VLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIM 137
Query: 125 LIGNKMDL------EGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
L+GNK D+ EG + V +K A +F E SA G N+ +A L A+++ +
Sbjct: 138 LVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK 197
>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 = 279 bits (715), Expect = 6e-97
Identities = 56/174 (32%), Positives = 88/174 (50%), Gaps = 4/174 (2%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE-KIKLQIW 69
S+ K +++GD GK+ L F ++ F TIG++F R I + G + LQIW
Sbjct: 2 SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61
Query: 70 DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT---NPNTVIFLI 126
D GQ + Y GA G L+VYDIT ++ +L W T K ++ ++ L+
Sbjct: 62 DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALV 121
Query: 127 GNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
GNK+DLE R ++ ++ +F +EN SA TG++V F + A +I
Sbjct: 122 GNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIK 175
>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 = 275 bits (707), Expect = 8e-96
Identities = 61/175 (34%), Positives = 98/175 (56%), Gaps = 6/175 (3%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
S +FK I++GD GVGKS L++++ KF HTIGVEF + +EV G + +QIWD
Sbjct: 3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNP----NTVIFLI 126
TAGQERFR++ +YRG+ L+ + + ++ +LS+W + + + ++
Sbjct: 63 TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 122
Query: 127 GNKMDLEGSRDVRYDEAKKFAEEN-DLIFVEASAMTGENVEQAFLETAKKIYQNI 180
GNK+D+ R V +EA+ + +N D + E SA NV AF E +++
Sbjct: 123 GNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE 176
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 276 bits (708), Expect = 1e-95
Identities = 51/197 (25%), Positives = 89/197 (45%), Gaps = 9/197 (4%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQ--KFMPDCPHTIGVEFGTRIIE 58
+K + + K ++G+ VGKS L+ FT + KF+ D T GVE +
Sbjct: 6 VKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVT 65
Query: 59 VHGEKIKLQIW--DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNL 116
+ + ++++ DTAG + ++ Y+ G A++V+D++ ++ +W K+
Sbjct: 66 IPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSA 125
Query: 117 ---TNPNTVIFLIGNKMDLEGSRD-VRYDEAKKFAEENDLIFVEASA-MTGENVEQAFLE 171
L+ NK DL R VR D A+ +A N L F + SA G++ + FL
Sbjct: 126 RPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLS 185
Query: 172 TAKKIYQNIKDGKLNAN 188
A Y+N +D
Sbjct: 186 IATTFYRNYEDKVAAFQ 202
>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 = 276 bits (707), Expect = 2e-95
Identities = 64/205 (31%), Positives = 108/205 (52%), Gaps = 1/205 (0%)
Query: 3 TMSSSGQY-SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 61
MS+ G + + FK + +G+ VGK+ L+ +F F TIG++F ++ + +
Sbjct: 3 GMSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED 62
Query: 62 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNT 121
++LQ+WDTAG ERFR++ SY R + A++VYDIT +++ + W+ D + +
Sbjct: 63 RTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDV 122
Query: 122 VIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
+I L+GNK DL R V +E ++ A+E +++F+E SA G NV+Q F A +
Sbjct: 123 IIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMES 182
Query: 182 DGKLNANMTESGVQHKERGGPASLG 206
+ K + P S G
Sbjct: 183 TQDRSREDMIDIKLEKPQEQPVSEG 207
>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 = 274 bits (702), Expect = 6e-95
Identities = 64/178 (35%), Positives = 96/178 (53%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
+ S K ++GD GVGKS ++ +F + F + TIG F T+ + E
Sbjct: 13 GLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH 72
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
K IWDTAGQERF ++ YYRG+A A++VYDIT++ ++ L W+ + K N V+
Sbjct: 73 KFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMA 132
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
+ GNK DL R+V +AK++AE I VE SA N+E+ F +++I
Sbjct: 133 IAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPH 190
>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 = 274 bits (702), Expect = 1e-94
Identities = 68/219 (31%), Positives = 110/219 (50%), Gaps = 16/219 (7%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
M+S + K II+GD GVGK+ L++Q+ +KF TIG +F T+ + V
Sbjct: 1 MTSR----KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL 56
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNP---- 119
+ +QIWDTAGQERF+++ ++YRGA ++V+D+T +T+ L SW + +P
Sbjct: 57 VTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPE 116
Query: 120 NTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
N ++GNK+DLE + +N++ + E SA NVEQAF A+ +
Sbjct: 117 NFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQ 176
Query: 180 IKDGKLNANMTESGVQHKERGGPASLGDSSSSDKPNCSC 218
+ +L E K + + + +CSC
Sbjct: 177 ETEVELYNEFPEPIKLDKN--------ERAKASAESCSC 207
>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 = 270 bits (692), Expect = 1e-93
Identities = 56/167 (33%), Positives = 90/167 (53%), Gaps = 1/167 (0%)
Query: 12 YSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDT 71
K +++G+ VGKS ++ ++ + F D TIGV+F R I+V+ E ++L +WDT
Sbjct: 2 SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61
Query: 72 AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMD 131
AGQE F A+T++YYRGA ++V+ T R ++ +SSW + L+ NK+D
Sbjct: 62 AGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKID 120
Query: 132 LEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
L ++ +EA+ A+ L F S NV + F A+K Q
Sbjct: 121 LLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 266 bits (681), Expect = 2e-91
Identities = 60/209 (28%), Positives = 103/209 (49%), Gaps = 40/209 (19%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK----- 65
+K +++G+ VGKS ++ + T+ F + TIG F T ++ ++ IK
Sbjct: 3 EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62
Query: 66 --------------------------------LQIWDTAGQERFRAVTRSYYRGAAGALM 93
IWDTAGQER+ ++ YYRGA A++
Sbjct: 63 EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122
Query: 94 VYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLI 153
V+DI+ +T + +W+ K + N +I L+ NK+D V E +K+A++N+L+
Sbjct: 123 VFDISNSNTLDRAKTWVNQLK--ISSNYIIILVANKIDKN-KFQVDILEVQKYAQDNNLL 179
Query: 154 FVEASAMTGENVEQAFLETAKKIYQNIKD 182
F++ SA TG N++ F A++IY+NI +
Sbjct: 180 FIQTSAKTGTNIKNIFYMLAEEIYKNIIN 208
>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 = 265 bits (679), Expect = 6e-91
Identities = 45/172 (26%), Positives = 82/172 (47%), Gaps = 1/172 (0%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVE-FGTRIIEVHGEKIKLQIW 69
+K +IGD GVGK+ +++ + +F + T+G ++ G IK +W
Sbjct: 7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVW 66
Query: 70 DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNK 129
DTAGQE+ + YY GA+GA++ +D+T R T +L+ W+ + + + I + NK
Sbjct: 67 DTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANK 126
Query: 130 MDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
+D++ + + + + + + E SA T N FL A+
Sbjct: 127 IDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPD 178
>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 = 259 bits (664), Expect = 3e-89
Identities = 66/185 (35%), Positives = 103/185 (55%), Gaps = 11/185 (5%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
MSS I K II+GD GVGK+ L+H++ K+ TIG +F T+ + V G+K
Sbjct: 1 MSSR----KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDK 56
Query: 64 -IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNT- 121
+Q+WDTAGQERF+++ ++YRGA ++VYD+T S++ ++ SW + N N+
Sbjct: 57 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSP 116
Query: 122 ---VIFLIGNKMDLEGS-RDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAKKI 176
++GNK+D E S + V A++ A+ D+ SA NV+ AF E A+
Sbjct: 117 ETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 176
Query: 177 YQNIK 181
Q +
Sbjct: 177 LQQNQ 181
>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 = 256 bits (655), Expect = 3e-87
Identities = 53/179 (29%), Positives = 91/179 (50%), Gaps = 3/179 (1%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
M+S+ Q FK +++GD G GK+ + + +F T+GVE + +
Sbjct: 3 HMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRG 62
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV 122
IK +WDTAGQE+F + YY A A++++D+T R TY ++ +W D N
Sbjct: 63 PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIP 121
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
I L GNK+D++ + ++ F + +L + + SA + N E+ FL A+K+ +
Sbjct: 122 IVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPN 178
>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 = 233 bits (597), Expect = 3e-79
Identities = 63/166 (37%), Positives = 95/166 (57%), Gaps = 3/166 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K +++G+ VGKS ++ +F F + TIG F T+ + ++ +K +IWDTAGQE
Sbjct: 4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMD---L 132
RF ++ YYR A AL+VYD+T+ ++ W+ + + + +I L+GNK+D
Sbjct: 64 RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123
Query: 133 EGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
G R V +E +K AEE L+F E SA TGENV FL +KI
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169
>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 = 217 bits (555), Expect = 1e-72
Identities = 59/178 (33%), Positives = 88/178 (49%), Gaps = 6/178 (3%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
+M S K +++G GVGKS L QF + F+ D TI + T+I V G
Sbjct: 1 SMDPP----PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGI 55
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV 122
+L I DTAGQE F A+ Y R G L+V+ I R ++N + T + + +
Sbjct: 56 PARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDF 115
Query: 123 -IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
+ L+GNK DLE R V EA F + + + EASA NV++AF + + + +
Sbjct: 116 PVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKY 173
>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 = 216 bits (552), Expect = 5e-72
Identities = 42/177 (23%), Positives = 73/177 (41%), Gaps = 2/177 (1%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
+ Q IFK +++G+ GVGKS L F + + R I V E++
Sbjct: 13 NLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEV 72
Query: 65 KLQIWDTAGQERFRAVTRS-YYRGAAGALMVYDITRRSTYNHLSSWLTDTKNL-TNPNTV 122
L ++D Q R + L+V+ +T R +++ + L + + +
Sbjct: 73 TLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP 132
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
+ L+GNK DL SR+V +E + A +E SA N + F ++I
Sbjct: 133 VILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 189
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 212 bits (543), Expect = 5e-71
Identities = 39/166 (23%), Positives = 70/166 (42%), Gaps = 2/166 (1%)
Query: 15 IFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQ 74
+FK +++G+ GVGKS L F + + R I V E++ L ++D Q
Sbjct: 2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61
Query: 75 ERFRAVTRS-YYRGAAGALMVYDITRRSTYNHLSSWLTD-TKNLTNPNTVIFLIGNKMDL 132
+ + L+V+ +T R +++ + L + + + L+GNK DL
Sbjct: 62 GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121
Query: 133 EGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
SR+V +E + A +E SA N + F ++I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL 167
>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 = 211 bits (540), Expect = 3e-70
Identities = 56/179 (31%), Positives = 93/179 (51%), Gaps = 2/179 (1%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
G + + K I++G GVGKS L QF +F+ D T + + + + GE++
Sbjct: 8 GGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV 66
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPNTVI 123
++ I DTAGQE + A+ +Y+R G L V+ IT ++ + + + + N
Sbjct: 67 QIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF 126
Query: 124 FLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
L+GNK DLE R V +EAK AE+ ++ +VE SA T NV++ F + ++I +
Sbjct: 127 LLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKME 185
>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 = 207 bits (530), Expect = 2e-68
Identities = 57/188 (30%), Positives = 97/188 (51%), Gaps = 4/188 (2%)
Query: 4 MSSSGQ--YSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 61
M+++ + + K I++G GVGKS L QF +F+ D T + + + + G
Sbjct: 1 MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDG 59
Query: 62 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPN 120
E++++ I DTAGQE + A+ +Y+R G L V+ IT ++ + + + + N
Sbjct: 60 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDEN 119
Query: 121 TVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
L+GNK DLE R V +EAK AE+ ++ +VE SA T NV++ F + ++I
Sbjct: 120 VPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK 179
Query: 181 KDGKLNAN 188
+ N
Sbjct: 180 MEDSKEKN 187
>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 = 206 bits (526), Expect = 2e-68
Identities = 54/164 (32%), Positives = 88/164 (53%), Gaps = 2/164 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K I++G GVGKS L QF +F+ D T + + + + GE++++ I DTAGQE
Sbjct: 5 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQE 63
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+ A+ +Y+R G L V+ IT ++ + + + V L+GNK DLE
Sbjct: 64 DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123
Query: 135 SRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
R V +EAK A++ ++ +VE SA T NV++ F + ++I
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167
>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 = 201 bits (514), Expect = 2e-66
Identities = 36/180 (20%), Positives = 76/180 (42%), Gaps = 11/180 (6%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPH--TIGVEFGTRIIEVHGEK---IKLQIWD 70
K +I+G+ G GK+ LL Q + K T+G++ I++ ++ + L +WD
Sbjct: 3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRR-STYNHLSSWLTDTKNLTNPNTVIFLIGNK 129
AG+E F + + A L VYD+++ + + + WL + K ++ + L+G
Sbjct: 63 FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTH 121
Query: 130 MDLEGSRDVR---YDEAKKFAEENDLIFV-EASAMTGENVEQAFLETAKKIYQNIKDGKL 185
+D+ + + K+ + + + + A + K I + K+
Sbjct: 122 LDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKI 181
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 199 bits (508), Expect = 3e-65
Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 2/178 (1%)
Query: 2 KTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHG 61
+ K +I+G VGK+ L HQF E +F T+ + ++I+ +
Sbjct: 11 RENLYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGK 69
Query: 62 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPN 120
++ L + DTAGQ+ + + S+ G G ++VY +T ++ + S
Sbjct: 70 DEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTR 129
Query: 121 TVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
+ L+GNK DL R+V+ E KK AE F+E+SA + + F + ++I +
Sbjct: 130 VPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIAR 187
>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 = 197 bits (503), Expect = 8e-65
Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 4/170 (2%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
++ +++GD GVGK+ L F ++ +G + R + V GE L + DT E
Sbjct: 5 YRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAE 63
Query: 76 RFRAVT--RSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPNTVIFLIGNKMDL 132
+ S +G + ++VY I R ++ S + + I L+GNK DL
Sbjct: 64 KLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADL 123
Query: 133 EGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
R+V +E + A D F+E SA NV + F +++ +D
Sbjct: 124 ARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRRD 173
>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 = 196 bits (501), Expect = 2e-64
Identities = 53/181 (29%), Positives = 95/181 (52%), Gaps = 4/181 (2%)
Query: 1 MKTMSSSG-QYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV 59
+ +M++S +K +++GD GVGKS L QF ++ F+ D TI + + E+
Sbjct: 3 LGSMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEI 61
Query: 60 HGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNP 119
+ L + DTAGQE F A+ Y R G L+VY +T ++++ H+ + + +
Sbjct: 62 DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR 121
Query: 120 NTV-IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGE-NVEQAFLETAKKIY 177
+ + L+ NK+DL R V D+ K+ A + ++ ++E SA NV++ F + + I
Sbjct: 122 ESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR 181
Query: 178 Q 178
Q
Sbjct: 182 Q 182
>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 = 196 bits (500), Expect = 2e-64
Identities = 50/167 (29%), Positives = 79/167 (47%), Gaps = 2/167 (1%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
S K I+G VGKS L QF E +F+ TI F T++I V+G++ LQ+ D
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVD 60
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPNTVIFLIGNK 129
TAGQ+ + ++Y G ++VY +T ++ + ++ I L+GNK
Sbjct: 61 TAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNK 120
Query: 130 MDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKI 176
DL R + Y+E K AE + F+E+SA + F +
Sbjct: 121 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 167
>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 = 194 bits (496), Expect = 6e-64
Identities = 52/165 (31%), Positives = 85/165 (51%), Gaps = 3/165 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+K +++G GVGKS L Q + F+ +C TI + + + + GE L I DTAGQE
Sbjct: 4 YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 62
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+ A+ Y R G L V+ I ++ + + K + + + V + L+GNK DL
Sbjct: 63 EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA- 121
Query: 135 SRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
+R V +A+ A + ++E SA T + VE AF ++I Q+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166
>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 = 194 bits (495), Expect = 1e-63
Identities = 47/165 (28%), Positives = 75/165 (45%), Gaps = 3/165 (1%)
Query: 15 IFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQ 74
++K +++G GVGKS L F + P+ G + R I V GE+ L ++D Q
Sbjct: 2 VYKVLLLGAPGVGKSALARIFGGVEDGPEAE-AAGHTY-DRSIVVDGEEASLMVYDIWEQ 59
Query: 75 ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLE 133
+ R + ++VY +T + ++ S + + V I L+GNK DL
Sbjct: 60 DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119
Query: 134 GSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
SR+V DE + A D F+E SA NV+ F ++I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL 164
>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 = 192 bits (490), Expect = 7e-63
Identities = 50/162 (30%), Positives = 82/162 (50%), Gaps = 2/162 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+K +++G GVGKS L QF F+ TI +F + IEV L+I DTAG E
Sbjct: 4 YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+F ++ Y + G ++VY + + ++ + + V + L+GNK+DLE
Sbjct: 63 QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122
Query: 135 SRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKI 176
R+V E + AEE F+E SA + V++ F E +++
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164
>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 = 191 bits (488), Expect = 3e-62
Identities = 54/175 (30%), Positives = 85/175 (48%), Gaps = 4/175 (2%)
Query: 6 SSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIK 65
+ S K I G GVGKS L+ +F ++F+ + T+ + + E +
Sbjct: 19 YFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVS 77
Query: 66 LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IF 124
++I DTAGQE + R G ++VYDIT R ++ + + P V +
Sbjct: 78 MEILDTAGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLI 136
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGE-NVEQAFLETAKKIYQ 178
L+GNK DL+ SR V +E +K A E F E SA TGE N+ + F E +++ +
Sbjct: 137 LVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 191
>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 = 190 bits (484), Expect = 5e-62
Identities = 47/168 (27%), Positives = 72/168 (42%), Gaps = 3/168 (1%)
Query: 13 SYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 72
S ++ + G GVGKS L+ +F + F T+ + ++I LQI DT
Sbjct: 1 SNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTT 59
Query: 73 GQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTN--PNTVIFLIGNKM 130
G +F A+ R ++VY IT R + L + + I L+GNK
Sbjct: 60 GSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKC 119
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
D SR+V+ EA+ A F+E SA NV++ F E +
Sbjct: 120 DESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKR 167
>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 = 188 bits (479), Expect = 6e-61
Identities = 45/194 (23%), Positives = 79/194 (40%), Gaps = 4/194 (2%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
S ++ ++ G GVGKS L+ +F + F TI + ++I LQI D
Sbjct: 4 EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITD 62
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNL--TNPNTVIFLIGN 128
T G +F A+ R ++V+ +T + + L + + + + L+GN
Sbjct: 63 TTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGN 122
Query: 129 KMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNAN 188
K D R+V EA+ A+E F+E SA NV++ F E + ++
Sbjct: 123 KCDET-QREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDGK 181
Query: 189 MTESGVQHKERGGP 202
+ + G
Sbjct: 182 RSGKQKRTDRVKGK 195
>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 = 186 bits (476), Expect = 7e-61
Identities = 53/165 (32%), Positives = 87/165 (52%), Gaps = 3/165 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+K +++G GVGKS L QF + F+ TI + + +EV ++ L+I DTAG E
Sbjct: 4 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTE 62
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+F A+ Y + G +VY IT +ST+N L + + V + L+GNK DLE
Sbjct: 63 QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 135 SRDVRYDEAKKFAEENDLI-FVEASAMTGENVEQAFLETAKKIYQ 178
R V ++ + A + F+E+SA + NV + F + ++I +
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167
>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 = 186 bits (475), Expect = 3e-60
Identities = 50/191 (26%), Positives = 82/191 (42%), Gaps = 7/191 (3%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPH-TIGVEFGTRIIEV 59
M T S S + ++ ++IG+ GVGKS L + F D +G + R + V
Sbjct: 23 MSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV 82
Query: 60 HGEK---IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNL 116
GE I L +W+ G+ + + + L+VY IT R+++ S +
Sbjct: 83 DGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRA 140
Query: 117 TNPNTV-IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKK 175
+ I L+GNK DL R+V E + A D F+E SA NV++ F ++
Sbjct: 141 RQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQ 200
Query: 176 IYQNIKDGKLN 186
+ + N
Sbjct: 201 VRLRRDSKEKN 211
>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 = 185 bits (471), Expect = 8e-60
Identities = 55/172 (31%), Positives = 89/172 (51%), Gaps = 4/172 (2%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+K +++G GVGKS L Q + F+ + TI + + + + GE L I DTAGQE
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 80
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+ A+ Y R G L V+ I ++ ++ + K + + + V + L+GNK DL
Sbjct: 81 EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP- 139
Query: 135 SRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLN 186
+R V +A + A+ + F+E SA T + VE AF ++I Q + KLN
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQY-RMKKLN 190
>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 = 185 bits (471), Expect = 9e-60
Identities = 52/183 (28%), Positives = 88/183 (48%), Gaps = 3/183 (1%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+K +++G GVGKS L Q + F+ + TI + + + + GE L I DTAGQE
Sbjct: 5 YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQE 63
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEG 134
+ A+ Y R G L V+ I ++ + + K + + V + L+GNK DL
Sbjct: 64 EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 122
Query: 135 SRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTESGV 194
SR V +A+ A + F+E SA T + V+ AF ++I ++ + + +
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKS 182
Query: 195 QHK 197
+ K
Sbjct: 183 KTK 185
>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 = 178 bits (455), Expect = 2e-57
Identities = 44/179 (24%), Positives = 75/179 (41%), Gaps = 8/179 (4%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ Q I+G G GKS L +F ++F+ + + + + V +
Sbjct: 12 ENLYFQGPLEV--NLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQP 68
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSW---LTDTKNLTNPN 120
+ L++ DTA + R R Y A L+VY + R +++ SS+ L T +
Sbjct: 69 VHLRVMDTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRS 127
Query: 121 TVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMT-GENVEQAFLETAKKIYQ 178
L+GNK+D+ R V E A +F E SA E+V+ F E ++ +
Sbjct: 128 IPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR 186
>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding,
nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum
tepidum}
Length = 535
Score = 187 bits (475), Expect = 1e-56
Identities = 34/186 (18%), Positives = 65/186 (34%), Gaps = 12/186 (6%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
+ S + K +IGD GK+ LL Q + F P T G+ T+
Sbjct: 27 EEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNI 86
Query: 61 --------GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD 112
++ WD GQE A + + ++ +++ D T ++ WL
Sbjct: 87 KGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRH 143
Query: 113 TKNLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLET 172
+ + + ++ NK+D S ++ + + + F S G+ VE
Sbjct: 144 IEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSL 202
Query: 173 AKKIYQ 178
+
Sbjct: 203 KSAVLH 208
>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 = 175 bits (447), Expect = 3e-56
Identities = 45/168 (26%), Positives = 75/168 (44%), Gaps = 7/168 (4%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPD-CPHTIGVEFGTRIIEVHGEK---IKLQIWDT 71
++ ++IG+ GVGKS L + F D +G + R + V GE I L +W+
Sbjct: 7 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 72 AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT-NPNTVIFLIGNKM 130
G+ + + + L+VY IT R+++ S + + I L+GNK
Sbjct: 67 KGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 124
Query: 131 DLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
DL R+V E + A D F+E SA NV++ F +++
Sbjct: 125 DLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRL 172
>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 = 175 bits (445), Expect = 6e-56
Identities = 33/178 (18%), Positives = 68/178 (38%), Gaps = 13/178 (7%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+ ++GD GKS L+H+F + T ++ + + V G+ + I + AG
Sbjct: 8 LRLGVLGDARSGKSSLIHRFLTGSYQVLEK-TESEQY-KKEMLVDGQTHLVLIREEAGAP 65
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD-----TKNLTNPNTVIFLIGNKM 130
+ + A + V+ + +++ +S + + +++
Sbjct: 66 DAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120
Query: 131 DLEGSRDVRYDEAKKF-AEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNA 187
R V A+ A+ + E A G NV++ F E A+K+ K +L A
Sbjct: 121 SASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQLLA 178
>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 = 170 bits (434), Expect = 3e-54
Identities = 35/170 (20%), Positives = 71/170 (41%), Gaps = 11/170 (6%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K I+G++ GKS L+H++ ++ + G F + I V G+ L I D G
Sbjct: 21 LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRF-KKEIVVDGQSYLLLIRDEGGPP 78
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDL-- 132
+ + + V+ + ++ + ++ + N + V + L+G + +
Sbjct: 79 ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133
Query: 133 EGSRDVRYDEAKKFAEENDLI-FVEASAMTGENVEQAFLETAKKIYQNIK 181
R + A+K + + + E A G NVE+ F + A+K+ K
Sbjct: 134 ANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRK 183
>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 = 143 bits (363), Expect = 2e-43
Identities = 44/184 (23%), Positives = 89/184 (48%), Gaps = 6/184 (3%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
+ + K +++GD VGK+CLL F++ + T+ F +++ E+
Sbjct: 13 GAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEF 71
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTVI 123
L +WDTAGQE + + Y + L+ + + R++++++S+ W + K+
Sbjct: 72 ILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKH-YIDTAKT 130
Query: 124 FLIGNKMDL--EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
L+G K+DL +GS DV E ++ + ++EAS++ + + F ++ I+ N
Sbjct: 131 VLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNK 190
Query: 181 KDGK 184
K
Sbjct: 191 PVPK 194
>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 = 133 bits (336), Expect = 1e-39
Identities = 48/179 (26%), Positives = 86/179 (48%), Gaps = 14/179 (7%)
Query: 8 GQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQ 67
G S S K + +GD VGK+CLL +T F D T+ F + + V+G + L
Sbjct: 1 GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLG 59
Query: 68 IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTVIFLI 126
+WDTAGQE + + YRGA ++ + + +++Y ++S W+ + K+ P I L+
Sbjct: 60 LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY-APGVPIVLV 118
Query: 127 GNKMDLEGSRD----------VRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAK 174
G K+DL + + + ++ + ++E S+ + ENV+ F +
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIR 177
>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 = 129 bits (325), Expect = 2e-37
Identities = 44/188 (23%), Positives = 85/188 (45%), Gaps = 16/188 (8%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
++M+ K +++GD G GK+ LL F + F T+ + ++V
Sbjct: 20 FQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVK 78
Query: 61 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNP 119
G+ + L IWDTAGQ+ + + +Y A+ L+ +D+T ++++++ + W + +
Sbjct: 79 GKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF-CK 137
Query: 120 NTVIFLIGNKMDLEGSRD------------VRYDEAKKFAEE-NDLIFVEASAMTGENVE 166
I ++G K DL + V Y ++ A + ++E SA +NV
Sbjct: 138 KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVH 197
Query: 167 QAFLETAK 174
F E A+
Sbjct: 198 AVFQEAAE 205
>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 = 128 bits (323), Expect = 2e-37
Identities = 52/184 (28%), Positives = 84/184 (45%), Gaps = 17/184 (9%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 76
K +++GD GK+CLL F++ +F T+ + I EV G++++L +WDTAGQE
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQED 85
Query: 77 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTVIFLIGNKMDLEGS 135
+ + Y LM + + + ++ W+ + K+ PN I L+ NK DL
Sbjct: 86 YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKH-FCPNVPIILVANKKDLRSD 144
Query: 136 RD------------VRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
VR D+ + A ++E SA T E V + F ETA + +
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF-ETATRAALQKRY 203
Query: 183 GKLN 186
G N
Sbjct: 204 GSQN 207
>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 = 127 bits (320), Expect = 5e-37
Identities = 52/185 (28%), Positives = 83/185 (44%), Gaps = 16/185 (8%)
Query: 4 MSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK 63
+ G + + K +I+GD GK+CLL F++ +F T+ E IEV G++
Sbjct: 14 LVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQ 72
Query: 64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTV 122
++L +WDTAGQE + + Y LM + I + ++ W + K+ PN
Sbjct: 73 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVP 131
Query: 123 IFLIGNKMDL------------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAF 169
I L+GNK DL VR +E + A + ++E SA T E V + F
Sbjct: 132 IILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191
Query: 170 LETAK 174
+
Sbjct: 192 EMATR 196
>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 = 125 bits (316), Expect = 3e-36
Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 16/173 (9%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K +++GD VGK+CLL +T F + T+ + + + V G+ + L +WDTAGQE
Sbjct: 31 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDTKNLTNPNTVIFLIGNKMDL-- 132
+ + Y L+ + + +++ N + W + ++ PNT I L+G K+DL
Sbjct: 90 DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRH-HCPNTPIILVGTKLDLRD 148
Query: 133 ----------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAK 174
+ + Y + A+E + ++E SA+T ++ F E +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 201
>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 = 124 bits (314), Expect = 7e-36
Identities = 48/181 (26%), Positives = 90/181 (49%), Gaps = 12/181 (6%)
Query: 11 SYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWD 70
S S K + +GD VGK+C+L +T KF D T+ F + + V G+ + L +WD
Sbjct: 5 SVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWD 63
Query: 71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTVIFLIGNK 129
TAGQE + + YRGA ++ + + +++Y ++ W+ + + PN I L+G K
Sbjct: 64 TAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRR-FAPNVPIVLVGTK 122
Query: 130 MDL--------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAKKIYQNI 180
+DL + + + + ++ ++ ++E S+ T +NV+ F K + Q
Sbjct: 123 LDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPP 182
Query: 181 K 181
+
Sbjct: 183 R 183
>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super
family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8
PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D*
2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A*
3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...
Length = 186
Score = 122 bits (308), Expect = 2e-35
Identities = 42/171 (24%), Positives = 80/171 (46%), Gaps = 14/171 (8%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 76
K +++GD VGK+CLL +T F + T+ + + + V G+ + L +WDTAGQE
Sbjct: 7 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 77 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDL---- 132
+ + Y +L+ + + +++ ++ + PNT I L+G K+DL
Sbjct: 66 YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 125
Query: 133 --------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAK 174
+ + Y + A+E + ++E SA+T ++ F E +
Sbjct: 126 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 176
>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 = 119 bits (299), Expect = 4e-34
Identities = 46/172 (26%), Positives = 77/172 (44%), Gaps = 18/172 (10%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 76
K +++GD GK+ LLH F + F + T+ + E+ ++I+L +WDT+G
Sbjct: 9 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67
Query: 77 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNTVIFLIGNKMDL--- 132
+ V Y + L+ +DI+R T + + W + + PNT + L+G K DL
Sbjct: 68 YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQE-FCPNTKMLLVGCKSDLRTD 126
Query: 133 ---------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGEN-VEQAFLETA 173
V YD+ A++ ++E SA+ EN V F A
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF-HVA 177
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 119 bits (300), Expect = 7e-34
Identities = 42/171 (24%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 76
K +++GD VGK+ L+ +T + + T + + ++ V G ++LQ+ DTAGQ+
Sbjct: 22 KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDE 80
Query: 77 FRAVTRSYYRGAAGALMVYDITRRSTYNH-LSSWLTDTKNLTNPNTVIFLIGNKMDLEGS 135
F + Y L+ + + S++ + W+ + + P I L+G + DL
Sbjct: 81 FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRC-HCPKAPIILVGTQSDLRED 139
Query: 136 RD------------VRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETA 173
V + AK AEE ++E SA+T +N+++ F + A
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF-DAA 189
>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 = 118 bits (297), Expect = 2e-33
Identities = 47/186 (25%), Positives = 80/186 (43%), Gaps = 18/186 (9%)
Query: 3 TMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
S + + K +++GD GK+ LLH F + F + T+ + E+ +
Sbjct: 16 PRGSHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQ 74
Query: 63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNPNT 121
+I+L +WDT+G + V Y + L+ +DI+R T + + W + + PNT
Sbjct: 75 RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQE-FCPNT 133
Query: 122 VIFLIGNKMDL------------EGSRDVRYDEAKKFAEE-NDLIFVEASAMTGEN-VEQ 167
+ L+G K DL V YD+ A++ ++E SA+ EN V
Sbjct: 134 KMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRD 193
Query: 168 AFLETA 173
F A
Sbjct: 194 IF-HVA 198
>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 = 116 bits (291), Expect = 9e-33
Identities = 41/173 (23%), Positives = 77/173 (44%), Gaps = 16/173 (9%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K +++GD VGK+CLL + F + T+ + + V G++ L ++DTAGQE
Sbjct: 19 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 77
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTYNH-LSSWLTDTKNLTNPNTVIFLIGNKMDLEG 134
+ + Y L+ + + +++ + W+ + K PN LIG ++DL
Sbjct: 78 DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKE-YAPNVPFLLIGTQIDLRD 136
Query: 135 SRD------------VRYDEAKKFAEE-NDLIFVEASAMTGENVEQAFLETAK 174
+ ++ +K A+E +VE SA+T + ++ F E
Sbjct: 137 DPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII 189
>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 = 116 bits (291), Expect = 2e-32
Identities = 39/174 (22%), Positives = 77/174 (44%), Gaps = 17/174 (9%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K +++GD+ GK+ +L + + T+ + +E ++++L +WDT+G
Sbjct: 28 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSP 86
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDTKNLTNPNTVIFLIGNKMDL-- 132
+ V Y + L+ +DI+R T + L W T+ + P+T + LIG K DL
Sbjct: 87 YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILD-YCPSTRVLLIGCKTDLRT 145
Query: 133 ----------EGSRDVRYDEAKKFAEENDLI-FVEASAMTGE-NVEQAFLETAK 174
+ + Y++ A++ ++E SA T E ++ F +
Sbjct: 146 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASM 199
>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 = 102 bits (254), Expect = 1e-26
Identities = 41/222 (18%), Positives = 71/222 (31%), Gaps = 66/222 (29%)
Query: 22 GDMGVGKSCLLHQFTEQK---FMPDCPHTIG-VEFGTRIIEVH--------------GEK 63
G G+GKSCL ++F F D + +FG R++ +
Sbjct: 35 GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94
Query: 64 IKLQIW-------DTAGQERFRAVTRSYYRGAA--------------------------- 89
K+ I D Q + Y + AA
Sbjct: 95 CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154
Query: 90 ----------GALMVYDITR--RSTYNHLSSWLTDTKNLTNPNTV-IFLIGNKMDLEGSR 136
G L+ D++R ++ ++++ N I ++ K D R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214
Query: 137 DVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
+R +++N L VE SA + NV+ AF + I +
Sbjct: 215 YIRDAHTFALSKKN-LQVVETSARSNVNVDLAFSTLVQLIDK 255
>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 = 92.9 bits (231), Expect = 1e-23
Identities = 39/184 (21%), Positives = 62/184 (33%), Gaps = 17/184 (9%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPH----------TIGVEFGT-RIIEVHGEKI 64
FK + G GK+ L + T+ +F I EV G K
Sbjct: 15 FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNL----TNPN 120
+ ++ GQ + A + RG G + V D + S +NL +
Sbjct: 75 RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134
Query: 121 TVIFLIG-NKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQN 179
V +I NK DL + V E +EA A G+ V + E ++ +
Sbjct: 135 DVPIVIQVNKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLAR 193
Query: 180 IKDG 183
+ G
Sbjct: 194 VAGG 197
>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 = 87.0 bits (215), Expect = 2e-20
Identities = 44/187 (23%), Positives = 89/187 (47%), Gaps = 17/187 (9%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
+K + + + + K +++GD VGK+CLL +T F + T+ + + + V
Sbjct: 141 IKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVD 199
Query: 61 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDTKNLTNP 119
G+ + L +WDTAG E + + Y L+ + + ++++H+ + W + ++ P
Sbjct: 200 GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRH-HCP 258
Query: 120 NTVIFLIGNKMDL------------EGSRDVRYDEAKKFAEENDLI-FVEASAMTGENVE 166
NT I L+G K+DL + + Y + A+E + ++E SA+T ++
Sbjct: 259 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLK 318
Query: 167 QAFLETA 173
F + A
Sbjct: 319 TVF-DEA 324
>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 = 68.8 bits (169), Expect = 7e-15
Identities = 44/180 (24%), Positives = 71/180 (39%), Gaps = 25/180 (13%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
+ +I+G G GK+ +L++ + + P TIG F + +KL +WD GQ
Sbjct: 19 LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIG--FNVETLSYKN--LKLNVWDLGGQT 73
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKM 130
R R YY A + V D T + L L + + L + L+ NK
Sbjct: 74 SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQE-EELQD---AALLVFANKQ 129
Query: 131 DLEGSRDVRYDEAKKFAEENDL-----IFVEASAMTGENVEQAFLETAKKIYQNIKDGKL 185
D G+ E K +L V +SA+ GE + + + IK+ +L
Sbjct: 130 DQPGALSA--SEVSKELNLVELKDRSWSIVASSAIKGEGITEGL----DWLIDVIKEEQL 183
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 68.0 bits (167), Expect = 2e-14
Identities = 36/179 (20%), Positives = 69/179 (38%), Gaps = 25/179 (13%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+++G GK+ +L++ + P T+G ++ I ++WD GQ R
Sbjct: 26 LMLGLDNAGKTSILYRLHLGDVVTTVP-TVG--VNLETLQYKN--ISFEVWDLGGQTGVR 80
Query: 79 AVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLE 133
R Y+ + V D T R + L + L + L + LI NK DL
Sbjct: 81 PYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDE-DELRK---SLLLIFANKQDLP 136
Query: 134 GSRDVRYDE-AKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNA 187
+ E A++ V++S+ TG+ + + + + +++ L A
Sbjct: 137 DAASE--AEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGM----DWLVERLREQGLGA 189
>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 = 66.8 bits (164), Expect = 3e-14
Identities = 38/176 (21%), Positives = 70/176 (39%), Gaps = 25/176 (14%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+I+G G GK+ +L++ + + P TIG F + +K Q+WD G R
Sbjct: 11 LILGLDGAGKTTILYRLQVGEVVTTIP-TIG--FNVETVTYKN--LKFQVWDLGGLTSIR 65
Query: 79 AVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLE 133
R YY + V D R + + L + L + + L I ++ NK D+E
Sbjct: 66 PYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE-EELRK---AILVVFANKQDME 121
Query: 134 GSRDVRYDE-AKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
+ E A ++ + SA G +++A + + + +K +
Sbjct: 122 QAMTS--SEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM----EWLVETLKSRQ 171
>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 = 66.4 bits (163), Expect = 3e-14
Identities = 35/176 (19%), Positives = 67/176 (38%), Gaps = 25/176 (14%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+++G GK+ +L++ + + P TIG F +E I +WD GQ++ R
Sbjct: 4 LMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYKN--ISFTVWDVGGQDKIR 58
Query: 79 AVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLE 133
+ R Y++ G + V D R L L + L + + L+ NK DL
Sbjct: 59 PLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAE-DELRD---AVLLVFANKQDLP 114
Query: 134 GSRDVRYDE-AKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
+ + E K + A +G+ + + + +++ K
Sbjct: 115 NAMNA--AEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL----DWLSNQLRNQK 164
>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 = 66.9 bits (164), Expect = 5e-14
Identities = 41/160 (25%), Positives = 64/160 (40%), Gaps = 19/160 (11%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+++G GK+ +L +F + P T+G F + +E G KL IWD GQ+ R
Sbjct: 22 LMLGLDNAGKTTILKKFNGEDVDTISP-TLG--FNIKTLEHRG--FKLNIWDVGGQKSLR 76
Query: 79 AVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLE 133
+ R+Y+ G + V D R L S L + + L LI NK DL
Sbjct: 77 SYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVE-ERLAG---ATLLIFANKQDLP 132
Query: 134 GSRDVRYDEAKKFA----EENDLIFVEASAMTGENVEQAF 169
G+ + + SA+TGE++
Sbjct: 133 GALSCN-AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGI 171
>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 = 65.4 bits (160), Expect = 2e-13
Identities = 41/175 (23%), Positives = 72/175 (41%), Gaps = 19/175 (10%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K II+G GK+ +L+QF+ + + P TIG I ++ + +WD GQE
Sbjct: 17 HKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--SNVEEIVINN--TRFLMWDIGGQE 71
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKM 130
R+ +YY ++V D T R T L L ++L LI NK
Sbjct: 72 SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAH-EDLRK---AGLLIFANKQ 127
Query: 131 DLEGSRDVRYDEAKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIK 181
D++ V + ++ +++ A+TGE + Q ++ ++
Sbjct: 128 DVKECMTVA-EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLE 181
>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 = 64.6 bits (158), Expect = 3e-13
Identities = 41/163 (25%), Positives = 68/163 (41%), Gaps = 19/163 (11%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQE 75
K II+G GK+ +L+QF+ + + P TIG I ++ + +WD GQE
Sbjct: 22 HKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--SNVEEIVINN--TRFLMWDIGGQE 76
Query: 76 RFRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKM 130
R+ +YY ++V D T R T L L ++L LI NK
Sbjct: 77 SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAH-EDLRK---AGLLIFANKQ 132
Query: 131 DLEGSRDVRYDEAKKFA----EENDLIFVEASAMTGENVEQAF 169
D++ V + ++ +++ A+TGE + Q
Sbjct: 133 DVKECMTVA-EISQFLKLTSIKDHQWHIQACCALTGEGLCQGL 174
>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 = 64.6 bits (158), Expect = 3e-13
Identities = 31/176 (17%), Positives = 66/176 (37%), Gaps = 21/176 (11%)
Query: 19 IIIGDMGVGKSCLLHQF--TEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQER 76
+ +G GK+ ++++ + + P TIG F + + ++D +GQ R
Sbjct: 25 LCLGLDNSGKTTIINKLKPSNAQSQNILP-TIG--FSIEKFKSSS--LSFTVFDMSGQGR 79
Query: 77 FRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLIGNKMDL 132
+R + YY+ + V D + R L + L ++ + I NKMDL
Sbjct: 80 YRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNH-PDIKHRRIPILFFANKMDL 138
Query: 133 EGSRDVRYDEAKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
+ ++ ++ + A+ GE +++ + I+ K
Sbjct: 139 RDAVTSV-KVSQLLCLENIKDKPWHICASDAIKGEGLQEGV----DWLQDQIQTVK 189
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 66.2 bits (161), Expect = 3e-13
Identities = 30/182 (16%), Positives = 66/182 (36%), Gaps = 17/182 (9%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV-HGEKIKLQIWDTAGQE 75
K +++G G GKS + + +G + + L +WD GQ+
Sbjct: 5 KLLLMGRSGSGKSSMR-SIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQD 63
Query: 76 RFRAVT-----RSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLT--NPNTVIFLIGN 128
F ++ + V+D+ + + K L +P+ IF++ +
Sbjct: 64 VFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLH 123
Query: 129 KMDL--EGSRDVRYDEAKKFAEEN------DLIFVEASAMTGENVEQAFLETAKKIYQNI 180
KMDL R+ + K E + +++ E++ +A+ + + N+
Sbjct: 124 KMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAWSQIVCSLIPNM 183
Query: 181 KD 182
+
Sbjct: 184 SN 185
>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 = 64.2 bits (156), Expect = 5e-13
Identities = 30/178 (16%), Positives = 61/178 (34%), Gaps = 22/178 (12%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDCPH---TIGVEFGTRIIEVHGEKIKLQIWDTAG 73
+ +++G GKS + + + T + + + QIWD G
Sbjct: 22 RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDIS---NSSFVNFQIWDFPG 78
Query: 74 QERFRAVT---RSYYRGAAGALMVYDITRRST--YNHLSSWLTDTKNLTNPNTVIFLIGN 128
Q F T +RG + V D L ++ + NP+ + +
Sbjct: 79 QMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIH 137
Query: 129 KMDL-------EGSRDVRY---DEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKI 176
K+D E RD+ D+ E + +++ ++ +AF + +K+
Sbjct: 138 KVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVVQKL 195
>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 = 63.9 bits (156), Expect = 6e-13
Identities = 40/193 (20%), Positives = 69/193 (35%), Gaps = 38/193 (19%)
Query: 4 MSSSGQYS------------YSYIF-----KYIIIGDMGVGKSCLLHQFTEQKFMPDCPH 46
M SS + +S IF + +++G GK+ +L++ + + P
Sbjct: 1 MGSSHHHHHHSSGLVPRGSLFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIP- 59
Query: 47 TIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRS----T 102
TIG F +E I +WD GQ++ R + R Y++ G + V D R +
Sbjct: 60 TIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQES 115
Query: 103 YNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLEGSRDVRYDEAKKFAEENDL-----IFVE 156
+ L L + L + + L+ NK D+ + V E L
Sbjct: 116 ADELQKMLQE-DELRD---AVLLVFANKQDMPNAMPV--SELTDKLGLQHLRSRTWYVQA 169
Query: 157 ASAMTGENVEQAF 169
A G +
Sbjct: 170 TCATQGTGLYDGL 182
>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 = 62.6 bits (153), Expect = 1e-12
Identities = 44/175 (25%), Positives = 69/175 (39%), Gaps = 23/175 (13%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+++G GK+ LL Q + P T G F + ++ G KL +WD GQ + R
Sbjct: 20 LLLGLDNAGKTTLLKQLASEDISHITP-TQG--FNIKSVQSQG--FKLNVWDIGGQRKIR 74
Query: 79 AVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLE 133
RSY+ + V D R T L+ L + + L+ V LI NK DL
Sbjct: 75 PYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEE-EKLSC---VPVLIFANKQDLL 130
Query: 134 GSRDVRYDEAKKFA----EENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
+ + A+ + SA+TGE V+ + +N+ K
Sbjct: 131 TAAPAS-EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGM----NWVCKNVNAKK 180
>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 = 60.3 bits (147), Expect = 1e-11
Identities = 35/168 (20%), Positives = 68/168 (40%), Gaps = 24/168 (14%)
Query: 27 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 86
GK+ ++ +F D T+G F R I + +++WD GQ RFR++ Y R
Sbjct: 34 GKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQPRFRSMWERYCR 89
Query: 87 GAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRDVRYDE 142
G + + + D + + N L + L + + ++GNK DL G+ D E
Sbjct: 90 GVSAIVYMVDAADQEKIEASKNELHNLLDKPQ---LQGIPVLVLGNKRDLPGALDE--KE 144
Query: 143 AKKFAEENDL------IFVEASAMTGENVEQAFLETAKKIYQNIKDGK 184
+ + + + S +N++ + + Q+ K +
Sbjct: 145 LIEKMNLSAIQDREICCY-SISCKEKDNIDITL----QWLIQHSKSRR 187
>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 = 60.9 bits (148), Expect = 1e-11
Identities = 31/165 (18%), Positives = 56/165 (33%), Gaps = 20/165 (12%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEK-IKLQIWDTAGQERF 77
+ +G GK+ L + ++ +I + I +V+ + L + D G E
Sbjct: 11 LFVGLCDSGKTLLFVRLLTGQYRDTQT-SIT--DSSAIYKVNNNRGNSLTLIDLPGHESL 67
Query: 78 RA-VTRSYYRGAAGALMVYDIT-----RRSTYNHLSSWLTDTKNLTNPNTVIFLI-GNKM 130
R + + A + V D + L L D+ L N+ LI NK
Sbjct: 68 RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMAL--KNSPSLLIACNKQ 125
Query: 131 DLEGSRDVRYDEAKKF--AEENDLIFVE---ASAMTGENVEQAFL 170
D+ ++ ++ E N L S + + A L
Sbjct: 126 DIAMAKSA--KLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQL 168
>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 = 59.1 bits (144), Expect = 3e-11
Identities = 30/160 (18%), Positives = 51/160 (31%), Gaps = 28/160 (17%)
Query: 27 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 86
GK+ LLH + P T + + + IK +D G + R + + Y+
Sbjct: 35 GKTTLLHMLKNDRLATLQP-TWH--PTSEELAIGN--IKFTTFDLGGHIQARRLWKDYFP 89
Query: 87 GAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLEGSRDVRYD 141
G + + D L + L + V F+I GNK+D +
Sbjct: 90 EVNGIVFLVDAADPERFDEARVELDALFNI-AELKD---VPFVILGNKIDAPNAVSE--A 143
Query: 142 E-----------AKKFAEENDLIFVEA-SAMTGENVEQAF 169
E + E + V S + +AF
Sbjct: 144 ELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 183
>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 = 59.4 bits (144), Expect = 4e-11
Identities = 27/143 (18%), Positives = 48/143 (33%), Gaps = 15/143 (10%)
Query: 5 SSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKI 64
S G SY II G GK+ LL T P + + +
Sbjct: 2 SHMGIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQE-----PLSAADYDGS 55
Query: 65 KLQIWDTAGQERFRAVTRSYYRGAAGAL--MVY-----DITRR--STYNHLSSWLTDTKN 115
+ + D G + R Y + A + +++ ++ +T L L+ T++
Sbjct: 56 GVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITES 115
Query: 116 LTNPNTVIFLIGNKMDLEGSRDV 138
I + NK +L +R
Sbjct: 116 SCENGIDILIACNKSELFTARPP 138
>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 = 58.8 bits (143), Expect = 5e-11
Identities = 32/163 (19%), Positives = 57/163 (34%), Gaps = 29/163 (17%)
Query: 27 GKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYR 86
GK+ LLH + + P T+ + + + G + +D G + R V ++Y
Sbjct: 37 GKTTLLHMLKDDRLGQHVP-TLH--PTSEELTIAG--MTFTTFDLGGHIQARRVWKNYLP 91
Query: 87 GAAGALMVYDITRRS----TYNHLSSWLTDTKNLTNPNTVIFLI-GNKMDLEGSRDV--- 138
G + + D + L S +TD + + N V LI GNK+D +
Sbjct: 92 AINGIVFLVDCADHERLLESKEELDSLMTD-ETIAN---VPILILGNKIDRPEAISEERL 147
Query: 139 -------RYDEAKKFAEENDL----IFVEA-SAMTGENVEQAF 169
K +L + V S + + + F
Sbjct: 148 REMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGF 190
>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 = 59.5 bits (144), Expect = 9e-11
Identities = 37/192 (19%), Positives = 73/192 (38%), Gaps = 27/192 (14%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIG--VEFGTRIIE 58
+ S + + + +++G GK+ +L++ + + P T+G VE
Sbjct: 308 TASNSPGIEGLSNKEMRILMLGLDAAGKTTILYKLKLGQSVTTIP-TVGFNVE------T 360
Query: 59 VHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTK 114
V + +K +WD GQ++ R + R YY G G + V D R L + D +
Sbjct: 361 VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDRE 420
Query: 115 NLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDL-----IFVEASAMTGENVEQAF 169
+ +I + NK DL + E ++ + + A +G+ + +
Sbjct: 421 ---MRDAIILIFANKQDLPDAMKP--HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGL 475
Query: 170 LETAKKIYQNIK 181
+ N K
Sbjct: 476 ----TWLTSNYK 483
>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 = 57.8 bits (140), Expect = 1e-10
Identities = 26/130 (20%), Positives = 46/130 (35%), Gaps = 17/130 (13%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
II G GK+ LL T P + + + + + D G + R
Sbjct: 52 IIAGPQNSGKTSLLTLLTTDSVRPTVV-SQE-----PLSAADYDGSGVTLVDFPGHVKLR 105
Query: 79 AVTRSYYRGAAGAL--MVY------DITR-RSTYNHLSSWLTDTKNLTNPNTVIFLI-GN 128
Y + A + +++ D + +T L L+ T+ + N + LI N
Sbjct: 106 YKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITE-SSCENGIDILIACN 164
Query: 129 KMDLEGSRDV 138
K +L +R
Sbjct: 165 KSELFTARPP 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 = 57.2 bits (138), Expect = 5e-10
Identities = 36/194 (18%), Positives = 69/194 (35%), Gaps = 25/194 (12%)
Query: 1 MKTMSSSGQYSYSYIFKYIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVH 60
T + +++G GK+ +L++ + + P TIG F +E
Sbjct: 151 NWTPPQPRGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYK 207
Query: 61 GEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRS----TYNHLSSWLTDTKNL 116
I +WD GQ++ R + R Y++ G + V D R L L + L
Sbjct: 208 N--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAE-DEL 264
Query: 117 TNPNTVIFLI-GNKMDLEGSRDVRYDE-AKKFA----EENDLIFVEASAMTGENVEQAFL 170
+ + L+ NK DL + + E K + A +G+ + +
Sbjct: 265 RD---AVLLVFANKQDLPNAMNA--AEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL- 318
Query: 171 ETAKKIYQNIKDGK 184
+ +++ K
Sbjct: 319 ---DWLSNQLRNQK 329
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 53.1 bits (127), Expect = 1e-08
Identities = 23/178 (12%), Positives = 60/178 (33%), Gaps = 18/178 (10%)
Query: 20 IIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRA 79
++G GKS + P + + I L + + GQ +
Sbjct: 4 LMGVRRCGKSSICKVVF-HNMQPLDTLYLESTSNPSLEHFSTL-IDLAVMELPGQLNYFE 61
Query: 80 VT---RSYYRGAAGALMVYDITR--RSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDL-- 132
+ ++ + V D + +L+ + + NP+ I ++ +K+D
Sbjct: 62 PSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLS 120
Query: 133 -----EGSRDV---RYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
+ RD+ +E + + + +++ ++ +AF +K+ +
Sbjct: 121 EDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDHSIYEAFSRIVQKLIPELSF 178
>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 = 46.4 bits (111), Expect = 9e-07
Identities = 31/135 (22%), Positives = 45/135 (33%), Gaps = 29/135 (21%)
Query: 54 TR-IIE--VHGEKIKLQIWDTAGQ------------ERFRAVTRSYYRGAAGALMVYDIT 98
TR ++ +H + + L I DTAG ER A L + D T
Sbjct: 39 TRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIER----AWQEIEQADRVLFMVDGT 94
Query: 99 RRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEAS 158
+ W L + ++ NK D+ G E +E N + S
Sbjct: 95 TTDAVDPAEIWPEFIARLPAKLPIT-VVRNKADITG-------ETLGMSEVNGHALIRLS 146
Query: 159 AMTGENVEQAFLETA 173
A TGE V+ L
Sbjct: 147 ARTGEGVDV--LRNH 159
>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 = 46.0 bits (110), Expect = 3e-06
Identities = 25/150 (16%), Positives = 45/150 (30%), Gaps = 28/150 (18%)
Query: 54 TR-IIE--VHGEKIKLQIWDTAGQ------------ERFRAVTRSYYRGAAGALMVYDIT 98
TR IE +K ++ DTAG R +R A L + D+
Sbjct: 268 TRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRR----SRMKMAEADLILYLLDLG 323
Query: 99 RRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEAS 158
+ L+ P + NK+D + D + S
Sbjct: 324 TERLDDELTEIRELKAAH--PAAKFLTVANKLDRAANADALIRAIADGTGTE---VIGIS 378
Query: 159 AMTGENVEQAFLETAKKIYQNIKDGKLNAN 188
A+ G+ ++ L+ + +K+
Sbjct: 379 ALNGDGIDT--LKQH--MGDLVKNLDKLHE 404
>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 = 44.8 bits (105), Expect = 9e-06
Identities = 30/196 (15%), Positives = 58/196 (29%), Gaps = 55/196 (28%)
Query: 17 KYIII-GDMGVGKSCL----LHQFTEQKFMPDCPH--TIGVEFGTR-IIEV--------- 59
K ++I G +G GK+ + + Q M + ++E+
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 60 --------HGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLT 111
H IKL+I + R ++ Y L+V
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN----CLLVLL--------------- 251
Query: 112 DTKNLTNPNTV-IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEAS-AMTGENVEQAF 169
N+ N F + K+ L +R + + A + S +T + V+
Sbjct: 252 ---NVQNAKAWNAFNLSCKI-LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Query: 170 LETAKKIYQNIKDGKL 185
K + + + L
Sbjct: 308 ---LKYL--DCRPQDL 318
Score = 29.1 bits (64), Expect = 1.2
Identities = 12/69 (17%), Positives = 20/69 (28%), Gaps = 6/69 (8%)
Query: 62 EKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNT 121
IK + + R R Y+++R Y L L L P
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL---LEL-RPAK 151
Query: 122 VIFLIGNKM 130
+ + G +
Sbjct: 152 NVLIDG--V 158
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 44.3 bits (104), Expect = 2e-05
Identities = 26/153 (16%), Positives = 53/153 (34%), Gaps = 34/153 (22%)
Query: 31 LLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAG 90
L +F E ++ G ++H KL + + + + ++Y
Sbjct: 87 CLTEF-ENCYL----------EGN---DIHALAAKLLQENDTTLVKTKELIKNYITARI- 131
Query: 91 ALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLI----GNKMD-LEGSRDVRYDEAKK 145
+ +R +S L + + N + I GN D E RD+ Y
Sbjct: 132 ------MAKRPFDKKSNSAL--FRAVGEGNAQLVAIFGGQGNTDDYFEELRDL-YQTYHV 182
Query: 146 FAEENDLIFVEASAMTGENVEQAFLETAKKIYQ 178
+ ++ SA T + + L+ A+K++
Sbjct: 183 LVGD----LIKFSAETLSELIRTTLD-AEKVFT 210
Score = 43.5 bits (102), Expect = 3e-05
Identities = 41/256 (16%), Positives = 70/256 (27%), Gaps = 113/256 (44%)
Query: 35 FTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVT-RSYYRGAAGALM 93
F+ + + P + + FG G++I+ E + A+ + G
Sbjct: 1659 FSILDIVINNPVNLTIHFGGE----KGKRIR---------ENYSAMIFETIVDGKLKTEK 1705
Query: 94 VY-DITRRS---TYNHLSSWLTDTKNLTNPNTVIFLI-----------GNK--------- 129
++ +I S T+ L+ T+ T P + L+ G
Sbjct: 1706 IFKEINEHSTSYTFRSEKGLLSATQF-TQP--ALTLMEKAAFEDLKSKGLIPADATFAGH 1762
Query: 130 --------------MDLEGSRD----VRY-----------DE----------------AK 144
M +E V Y DE A
Sbjct: 1763 SLGEYAALASLADVMSIE---SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAA 1819
Query: 145 KFAEENDLIFVE-ASAMTGENVE---------Q--------AFLETAKKI-----YQNIK 181
F++E VE TG VE Q A L+T + Q I
Sbjct: 1820 SFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA-LDTVTNVLNFIKLQKID 1878
Query: 182 DGKLNANMTESGVQHK 197
+L +++ V+
Sbjct: 1879 IIELQKSLSLEEVEGH 1894
Score = 35.0 bits (80), Expect = 0.015
Identities = 28/145 (19%), Positives = 49/145 (33%), Gaps = 51/145 (35%)
Query: 35 FTEQK------FMP-DCP-HT---------IGVEFGTRIIEVHGEKIKLQIWDTAGQERF 77
F+E+K F+P P H+ I + + + + I++ ++DT
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Query: 78 RAVTRSYYRGAAGALMVYDITR---------RSTYNHL-------SSWLTDTKNLTNPNT 121
R G+ +V I R + H+ +S L LT+ N
Sbjct: 469 RV-----LSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGV---LTHRNK 520
Query: 122 ------VIFLIGNKMDLEGSRDVRY 140
VI + G L+ + D Y
Sbjct: 521 DGTGVRVI-VAG---TLDINPDDDY 541
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 43.9 bits (104), Expect = 2e-05
Identities = 26/162 (16%), Positives = 53/162 (32%), Gaps = 29/162 (17%)
Query: 20 IIGDMGVGKSCLLHQFTEQKF--MPDCPHTIGVEFGTR-----IIEVHGEKIKLQIWDTA 72
+ G VGKS ++ Q + D T T +E+H + + DT
Sbjct: 39 VAGRRNVGKSSFMNALVGQNVSIVSDYAGT------TTDPVYKSMELHPIG-PVTLVDTP 91
Query: 73 G-------QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFL 125
G R + A ++V D + + + + + +
Sbjct: 92 GLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEME------IPFVV 145
Query: 126 IGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQ 167
+ NK+D+ G + + E ++ V SA+ + +
Sbjct: 146 VVNKIDVLGEKAEELKGLYESRYEAKVLLV--SALQKKGFDD 185
>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 = 43.3 bits (103), Expect = 3e-05
Identities = 31/152 (20%), Positives = 57/152 (37%), Gaps = 37/152 (24%)
Query: 54 TR-IIE--VHGEKIKLQIWDTAGQ------------ERFRAVTRSYYRGAAGALMVYDIT 98
TR ++E + I +Q+ DTAG ER +R A L+ D
Sbjct: 259 TRDVVESQLVVGGIPVQVLDTAGIRETSDQVEKIGVER----SRQAANTADLVLLTIDAA 314
Query: 99 RRSTYNHLSSWLTDTKNLTN--PNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVE 156
W T + + + + L+ NK+DL + + + ++
Sbjct: 315 T--------GWTTGDQEIYEQVKHRPLILVMNKIDLVEKQLI--TSLEYPENITQIVHT- 363
Query: 157 ASAMTGENVEQAFLETAKKIYQNIKDGKLNAN 188
+A + ++ LETA I + ++ GK+ A
Sbjct: 364 -AAAQKQGIDS--LETA--ILEIVQTGKVQAA 390
>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 = 41.8 bits (99), Expect = 7e-05
Identities = 33/155 (21%), Positives = 56/155 (36%), Gaps = 37/155 (23%)
Query: 54 TR-IIE--VHGEKIKLQIWDTAGQ-------------ERFRAVTRSYYRGAAGALMVYDI 97
TR +I + I +I DTAG ER T A L V D
Sbjct: 278 TRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIER----TLQEIEKADIVLFVLDA 333
Query: 98 TRRSTYNHLSSWLTDTKNLTN--PNTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFV 155
+ + + + N ++ NK+D+ + +E K D V
Sbjct: 334 SS--------PLDEEDRKILERIKNKRYLVVINKVDVVEKIN---EEEIKNKLGTDRHMV 382
Query: 156 EASAMTGENVEQAFLETAKKIYQNIKDGKLNANMT 190
+ SA+ GE +E+ LE + IY+ ++ + +
Sbjct: 383 KISALKGEGLEK--LE--ESIYRETQEIFERGSDS 413
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 40.2 bits (94), Expect = 2e-04
Identities = 39/165 (23%), Positives = 65/165 (39%), Gaps = 24/165 (14%)
Query: 18 YIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV-HGE--KIKLQIWDTAG- 73
+I G VGKS LL T K P F TR I V E + QI DT G
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAK-----PEIASYPFTTRGINVGQFEDGYFRYQIIDTPGL 224
Query: 74 -----QER----FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTN--PNTV 122
ER +A+ Y G + ++D + + L + + + +
Sbjct: 225 LDRPISERNEIEKQAILALRYLGNL-IIYIFDPSEHCGFP-LEEQIHLFEEVHGEFKDLP 282
Query: 123 IFLIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQ 167
++ NK+D+ + + +KF +E L ++ SA+ G ++
Sbjct: 283 FLVVINKIDV--ADEENIKRLEKFVKEKGLNPIKISALKGTGIDL 325
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 38.5 bits (89), Expect = 0.001
Identities = 22/138 (15%), Positives = 40/138 (28%), Gaps = 10/138 (7%)
Query: 20 IIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEV--HGEKIKLQIWDTAGQERF 77
+ G+ G GKS ++ + GV T H + WD G
Sbjct: 74 VTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGST 133
Query: 78 RAVTRSYYRGAA---GALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEG 134
+Y + R N + K ++ + + K+D +
Sbjct: 134 NFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIA----KAISMMKKEFYFVRTKVDSD- 188
Query: 135 SRDVRYDEAKKFAEENDL 152
+ E + F +E L
Sbjct: 189 ITNEADGEPQTFDKEKVL 206
>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 = 37.8 bits (87), Expect = 0.002
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC----PHTIGVEFGTRIIEVHGEKIKLQIWDT 71
F + +G+ G+GKS L+ KF + + ++ T ++ ++KL I T
Sbjct: 43 FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVST 102
Query: 72 AG 73
G
Sbjct: 103 VG 104
>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase;
beta barrel, switch domain, heterodimer, pyrophosphate,
G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV}
SCOP: b.43.3.1 b.44.1.1 c.37.1.8
Length = 434
Score = 34.9 bits (81), Expect = 0.013
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 20/58 (34%)
Query: 122 VIFLIGNKMDLEGSRDVRYDEA---------KKFAEE-----NDLIFVEASAMTGENV 165
++ I NKMDL +DE KFAE + FV SA+ G+NV
Sbjct: 160 IVVAI-NKMDL-----NGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNV 211
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 34.0 bits (77), Expect = 0.030
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQ 67
F +++G+ G+GKS L++ T+ VE +I+ G ++ L
Sbjct: 32 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLT 91
Query: 68 IWDTAG 73
I DT G
Sbjct: 92 IVDTPG 97
>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent
factor, stress response, sporulation, large G-protein,
structural genomics, PSI; HET: G4P; 2.60A {Bacillus
subtilis} SCOP: b.117.1.1 c.37.1.8
Length = 342
Score = 33.3 bits (77), Expect = 0.039
Identities = 12/52 (23%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKI 176
++ NKMD+ + + + K+ ++ +F SA+T E + + E A ++
Sbjct: 279 IVANKMDMPEAAE-NLEAFKEKLTDDYPVF-PISAVTREGLRELLFEVANQL 328
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 32.7 bits (75), Expect = 0.051
Identities = 40/173 (23%), Positives = 63/173 (36%), Gaps = 42/173 (24%)
Query: 26 VGKSCLLHQFTEQKF----MPDCPHTIGVEFGTR-IIEVHGEKIKLQIWDTAG------- 73
VGKS L+++ T +K P GV TR IIE+ + K+ D G
Sbjct: 12 VGKSTLIYRLTGKKVRRGKRP------GV---TRKIIEIEWKNHKII--DMPGFGFMMGL 60
Query: 74 ----QERFRAVTRSYYRGAA----GALMVYDITRRSTYNHLSSWLTDTKN-------LTN 118
QER + + A A++V D + L
Sbjct: 61 PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE 120
Query: 119 PNTVIFLIGNKMDLEGSRDVRYDE-AKKFAE---ENDLIFVEASAMTGENVEQ 167
+ + NK+D + + A+KF E D +F+ SA G+N+E+
Sbjct: 121 LDIPTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIER 173
>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 = 32.8 bits (76), Expect = 0.058
Identities = 31/163 (19%), Positives = 49/163 (30%), Gaps = 27/163 (16%)
Query: 20 IIGDMGVGKSCLLHQFTEQKF--MPDCPHTIGVEFGTR-----IIEVHGEKIKLQIWDTA 72
I+G VGKS LL+ K + P T TR I + + ++ DT
Sbjct: 12 IVGKPNVGKSTLLNNLLGVKVAPISPRPQT------TRKRLRGI--LTEGRRQIVFVDTP 63
Query: 73 G--------QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIF 124
G E + V D+ T + I
Sbjct: 64 GLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPED--ELVARALKPLVGKVPIL 121
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQ 167
L+GNK+D + + E + + SA+ V +
Sbjct: 122 LVGNKLDAAKYPEEAMKAYHELLPEAEPRML--SALDERQVAE 162
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 32.8 bits (74), Expect = 0.060
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQ 67
F +++G+ G+GKS L++ T+ VE +I+ G ++ L
Sbjct: 9 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLT 68
Query: 68 IWDTAG 73
I DT G
Sbjct: 69 IVDTPG 74
>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 = 32.9 bits (74), Expect = 0.065
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 9/78 (11%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPDC---------PHTIGVEFGTRIIEVHGEKIKL 66
F +++G+ G+GKS L++ P+ T+ +E T IE G K++L
Sbjct: 19 FTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRL 78
Query: 67 QIWDTAGQERFRAVTRSY 84
+ DT G +
Sbjct: 79 TVVDTPGYGDAINCRDCF 96
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 32.1 bits (72), Expect = 0.10
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 9/78 (11%)
Query: 16 FKYIIIGDMGVGKSCLLHQFTEQKFMPD---------CPHTIGVEFGTRIIEVHGEKIKL 66
F +++G+ G+GKS L++ P+ T+ +E T IE G K++L
Sbjct: 38 FTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRL 97
Query: 67 QIWDTAGQERFRAVTRSY 84
+ DT G +
Sbjct: 98 TVVDTPGYGDAINCRDCF 115
>1udx_A The GTP-binding protein OBG; TGS domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1
c.37.1.8 d.242.1.1
Length = 416
Score = 31.8 bits (73), Expect = 0.18
Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 2/52 (3%)
Query: 125 LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKI 176
+ NK+DL V L + SA+TG + +
Sbjct: 274 VALNKVDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALV 323
>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit;
translation termination, peptide release, GTPase,
translatio; 2.35A {Schizosaccharomyces pombe} SCOP:
b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A
Length = 467
Score = 31.6 bits (72), Expect = 0.20
Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 15/52 (28%)
Query: 128 NKMDLEG---SRDVRYDEAKK-----------FAEENDLIFVEASAMTGENV 165
NKMD S + RY E + + D+ ++ SA TG+NV
Sbjct: 189 NKMDEPSVQWSEE-RYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNV 239
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 30.8 bits (70), Expect = 0.34
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 11/48 (22%)
Query: 128 NKMDLEGSRDVRYDEAKK----------FAEENDLIFVEASAMTGENV 165
NKMD R++E K F E+ ++ +V S +GE V
Sbjct: 313 NKMDNVDWSQQRFEEIKSKLLPYLVDIGFFED-NINWVPISGFSGEGV 359
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 30.4 bits (69), Expect = 0.35
Identities = 21/124 (16%), Positives = 39/124 (31%), Gaps = 14/124 (11%)
Query: 18 YIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERF 77
++ G G GK+ QF G++ G I V E+ +Q+ +F
Sbjct: 26 VLLSGGPGTGKTIFSQQFLWN----------GLKMGEPGIYVALEEHPVQVRQNM--AQF 73
Query: 78 RAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRD 137
+ Y G + D +LT+ I ++ + ++
Sbjct: 74 GWDVKPYEE--KGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKR 131
Query: 138 VRYD 141
V D
Sbjct: 132 VVVD 135
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 30.7 bits (69), Expect = 0.35
Identities = 24/131 (18%), Positives = 46/131 (35%), Gaps = 19/131 (14%)
Query: 60 HGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNP 119
H +++ D + F ++ A + + DI + S++
Sbjct: 47 HYNEVQDVPLD---DDDFLSMLHRIGESKALVVNIVDIF-----DFNGSFIPGLPRFAAD 98
Query: 120 NTVIFLIGNKMDL---EGSRDVRYDEAKKFAEENDLIFVEA---SAMTGENVEQAFLETA 173
N ++ L+GNK DL ++ AEE L V+ SA G + +
Sbjct: 99 NPIL-LVGNKADLLPRSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVM---- 153
Query: 174 KKIYQNIKDGK 184
+ I + + G
Sbjct: 154 EAINRYREGGD 164
>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain,
beta-barrel, translational GTPase, D structural
genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*
Length = 483
Score = 30.3 bits (69), Expect = 0.44
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 11/48 (22%)
Query: 128 NKMDLEGSRDVRYDEAKK----------FAEENDLIFVEASAMTGENV 165
NKMD R++E K F E+ ++ +V S +GE V
Sbjct: 179 NKMDNVDWSQQRFEEIKSKLLPYLVDIGFFED-NINWVPISGFSGEGV 225
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 29.7 bits (68), Expect = 0.59
Identities = 13/60 (21%), Positives = 18/60 (30%), Gaps = 11/60 (18%)
Query: 114 KNLTNPNTVIFLIGNKMDLEGSRDV------RYDEAKKFAEENDLIFVEASAMTGENVEQ 167
L + L NK+D + F + V SA TG NV+
Sbjct: 110 NKLREGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLD-----IVPISAETGLNVDT 164
>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 = 29.7 bits (67), Expect = 0.60
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 5/53 (9%)
Query: 120 NTVIFLIGNKMDLEGSRDVRYDEAKKFAEENDLI-----FVEASAMTGENVEQ 167
N I + NK+D + D + D + F S +TG VEQ
Sbjct: 142 NKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQ 194
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.5 bits (66), Expect = 0.70
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
++ G G GK+ QF
Sbjct: 33 VLLTGGTGTGKTTFAAQF 50
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 29.3 bits (66), Expect = 1.0
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 12/49 (24%)
Query: 128 NKMDLEGSRDVRYDEAKK-----------FAEENDLIFVEASAMTGENV 165
NK+DL + R+ E K F ++ FV SA++G N+
Sbjct: 323 NKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTS-NVHFVPISAISGTNL 370
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 29.0 bits (66), Expect = 1.1
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 12/61 (19%)
Query: 114 KNLTNPNTVIFLIGNKMDLEGSRDV-------RYDEAKKFAEENDLIFVEASAMTGENVE 166
+ N + ++ NK+D G + + + E V SA+ G N++
Sbjct: 116 NFIKPLNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTE-----IVPISALKGANLD 170
Query: 167 Q 167
+
Sbjct: 171 E 171
>3fa4_A 2,3-dimethylmalate lyase; alpha/beta barrel, helix swapping; 2.18A
{Aspergillus niger} PDB: 3fa3_A
Length = 302
Score = 28.8 bits (65), Expect = 1.1
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 10/52 (19%)
Query: 143 AKKFAEEN-DLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTESG 193
+ + D+ F+E +T E A+++ Q++ L NM E G
Sbjct: 176 LRAARDAGADVGFLEG--ITSR-------EMARQVIQDLAGWPLLLNMVEHG 218
>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET:
GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP:
b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*
Length = 594
Score = 28.8 bits (65), Expect = 1.6
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 139 RYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNAN 188
R+D FA + + SA+TGE + + L + Q +L
Sbjct: 181 RFDRVTDFAS--QVSIIPISAITGEGIPE-LLTMLMGLAQQYLREQLKIE 227
>1lwd_A Isocitrate dehydrogenase; tricarboxylic acid cycle, oxidoreductase,
NADP; HET: ICT; 1.85A {Sus scrofa} SCOP: c.77.1.1 PDB:
1t0l_A* 1t09_A* 3mas_B* 3map_A* 3mar_A* 3mas_A* 3inm_A*
2cmj_A* 2cmv_A*
Length = 413
Score = 28.5 bits (63), Expect = 1.7
Identities = 18/88 (20%), Positives = 30/88 (34%), Gaps = 4/88 (4%)
Query: 79 AVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKNLTNPNTVIFLIGNKMDLEGSRDV 138
+ S G + + + H TNP IF ++ G D
Sbjct: 289 GLMTSVLVCPDGKTIEAEAAHGTVTRHYREHQKGRPTSTNPIASIFAWTRGLEHRGKLD- 347
Query: 139 RYDEAKKFAE--ENDLI-FVEASAMTGE 163
+ +FA+ E + VE+ AMT +
Sbjct: 348 GNQDLIRFAQTLEKVCVETVESGAMTKD 375
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 28.7 bits (65), Expect = 1.7
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 128 NKMDLEGSR--DVRYDEAKK--FAEE--NDLIFVEASAMTGENVEQAFLET 172
NK D + V+ + E+ D+ V SA+TGEN+ E
Sbjct: 112 NKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMA-LAEA 161
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 28.0 bits (63), Expect = 2.0
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 7/51 (13%)
Query: 128 NKMDLEGSR--DVRYDEAKK--FAEE--NDLIFVEASAMTGENVEQAFLET 172
NKMD + V + + EE D IF + SA T E ++ LE
Sbjct: 115 NKMDKPEANPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDH-LLEM 164
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 28.4 bits (63), Expect = 2.0
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 18 YIIIGDMGVGKSCLLHQF 35
++ G G GK+ QF
Sbjct: 42 TLVSGTSGTGKTLFSIQF 59
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus
solfataricus} SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 28.1 bits (62), Expect = 2.2
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 18 YIIIGDMGVGKSCLLHQFTEQK 39
+++G GKS ++ +
Sbjct: 33 TLVLGLRRTGKSSIIKIGINEL 54
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 28.0 bits (63), Expect = 2.4
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 22 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR 55
G VG+SCL Q + + DC GV
Sbjct: 187 GFREVGRSCLYLQTPNSRVLLDC----GVNVAGG 216
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 27.7 bits (62), Expect = 2.6
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 18 YIIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGE 62
+ G+ G GK+ F + G+ G I V E
Sbjct: 26 IALTGEPGTGKTIFSLHFIAK----------GLRDGDPCIYVTTE 60
>2hjp_A Phosphonopyruvate hydrolase; phosporus-Ca cleavage, PEP
mutase/isocitrate lyase superfamily; HET: XYS PPR; 1.90A
{Variovorax SP} PDB: 2dua_A* 2hrw_A
Length = 290
Score = 28.0 bits (63), Expect = 2.6
Identities = 7/52 (13%), Positives = 14/52 (26%), Gaps = 8/52 (15%)
Query: 143 AKKFAEEN-DLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTESG 193
+ + E D I + + T + + K+ L T
Sbjct: 172 GQAYEEAGADAILIHSRQKTPDEILAFVKSWPGKVP-------LVLVPTAYP 216
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 27.6 bits (62), Expect = 2.9
Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 29/72 (40%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIG--------VEFG---TRIIEVHGEKIKLQ 67
+++G G GKS TIG V I + G I
Sbjct: 6 VLVGLPGSGKS-----------------TIGRRLAKALGVGLLDTDVAIEQRTGRSIA-D 47
Query: 68 IWDTAGQERFRA 79
I+ T G++ FR
Sbjct: 48 IFATDGEQEFRR 59
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 3.1
Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 9/32 (28%)
Query: 166 EQAF--LETAKKIYQNIKDG----KLNANMTE 191
+QA L+ + K+Y D + A M E
Sbjct: 19 KQALKKLQASLKLYA--DDSAPALAIKATM-E 47
>3lye_A Oxaloacetate acetyl hydrolase; (alpha/beta)8 barrel; 1.30A
{Cryphonectria parasitica} PDB: 3m0j_A* 3m0k_A
Length = 307
Score = 27.7 bits (62), Expect = 3.1
Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 10/52 (19%)
Query: 143 AKKFAEEN-DLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTESG 193
+ +E D+ +E + EQA + L N E+G
Sbjct: 184 LRAARDEGADVGLLEGF----RSKEQA-----AAAVAALAPWPLLLNSVENG 226
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon;
HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB:
3bb1_A*
Length = 270
Score = 27.2 bits (60), Expect = 3.8
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 13/61 (21%)
Query: 19 IIIGDMGVGKSCLLH------QFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 72
+++G GVGKS ++ + F + P + V G L I DT
Sbjct: 43 LVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVS-----RSRAG--FTLNIIDTP 95
Query: 73 G 73
G
Sbjct: 96 G 96
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 27.4 bits (60), Expect = 3.9
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 19 IIIGDMGVGKSCLLHQFTEQK 39
+++G VGKS LL F ++
Sbjct: 35 LLLGIRRVGKSSLLRAFLNER 55
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit;
metallo-B-lactamase, PRE-mRNA processing, artemis,
V(D)J recombination; 2.10A {Homo sapiens} SCOP:
d.157.1.10 PDB: 2i7v_A
Length = 459
Score = 27.6 bits (62), Expect = 4.0
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 22 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIE 58
VG+SC++ +F +K M DC G+ G ++
Sbjct: 19 AGQEVGRSCIILEFKGRKIMLDC----GIHPGLEGMD 51
>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation
of protein synthesis, cryo-eletron microscopy,
translation/RNA complex; 13.80A {Escherichia coli}
Length = 501
Score = 27.1 bits (61), Expect = 4.5
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 122 VIFLIGNKMDLEGSR--DVRYDEAKK--FAEE--NDLIFVEASAMTGENVEQ 167
V+ + NK+D + V+ + ++ EE + FV SA G +++
Sbjct: 106 VVVAV-NKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDE 156
>3eoo_A Methylisocitrate lyase; seattle structural genomics center for
infectious disease, ssgcid; 2.90A {Burkholderia
pseudomallei 1655}
Length = 298
Score = 26.9 bits (60), Expect = 4.7
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 11/52 (21%)
Query: 143 AKKFAEEN-DLIFVEASAMTGENVEQAFLETAKKIYQNIKDGKLNANMTESG 193
A + E D+IF EA L+ ++ + + + AN+TE G
Sbjct: 177 AIAYVEAGADMIFPEAMKT---------LDDYRRFKEAV-KVPILANLTEFG 218
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 27.1 bits (61), Expect = 4.8
Identities = 6/32 (18%), Positives = 18/32 (56%)
Query: 143 AKKFAEENDLIFVEASAMTGENVEQAFLETAK 174
A++FA + I ++ ++ E ++Q +++
Sbjct: 309 AERFAPNANEIRLKTEELSVEGIKQLYMDCQS 340
>3db5_A PR domain zinc finger protein 4; methyltransferase, PRDM4,
structural genomics, structural GE consortium, SGC,
DNA-binding, metal-binding, nucleus; 2.15A {Homo
sapiens}
Length = 151
Score = 26.4 bits (58), Expect = 5.4
Identities = 14/90 (15%), Positives = 29/90 (32%), Gaps = 3/90 (3%)
Query: 53 GTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD 112
T + G++ + +AV + G L IT + ++
Sbjct: 47 RTCFGPLIGQQSH---SMEVAEWTDKAVNHIWKIYHNGVLEFCIITTDENECNWMMFVRK 103
Query: 113 TKNLTNPNTVIFLIGNKMDLEGSRDVRYDE 142
+N N V + K+ S+D+ +
Sbjct: 104 ARNREEQNLVAYPHDGKIFFCTSQDIPPEN 133
>2ao3_A 29-kDa galactose-binding lectin; earthworm lumbricus terrestris,
hemagglutinin, R-type lectin, beta-trefoil fold, sugar
complex; HET: MGC; 1.80A {Lumbricus terrestris} PDB:
2d12_A* 2zqo_A* 2zqn_A* 2dry_A* 2drz_A* 2ds0_A*
Length = 130
Score = 26.3 bits (58), Expect = 5.6
Identities = 13/69 (18%), Positives = 25/69 (36%)
Query: 36 TEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 95
Q + D I + I+ E+I+ Q +D +R V+ + + +V
Sbjct: 40 VNQLWYTDQQGVIRSKLNDFAIDASHEQIETQPFDPNNPKRAWIVSGNTIAQLSDRDIVL 99
Query: 96 DITRRSTYN 104
DI +
Sbjct: 100 DIIKSDKEA 108
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 26.9 bits (60), Expect = 5.6
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 22 GDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR 55
G VG+SC L E + + DC GV G+
Sbjct: 191 GCKEVGRSCFLLSTPESRILIDC----GVNVGSD 220
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 26.9 bits (59), Expect = 5.8
Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTI---GVEFGTRIIEVHGEKIKL 66
I+ G GKS +++M I E+ ++ G I
Sbjct: 39 TILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPEREYKEMCRKLGGVWINC 89
>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain,
acetylation, ADP- ribosylation, alternative splicing,
cell cycle, cell division; 2.40A {Homo sapiens}
Length = 227
Score = 26.6 bits (58), Expect = 6.7
Identities = 6/70 (8%), Positives = 20/70 (28%), Gaps = 7/70 (10%)
Query: 69 WDTAGQERFRAVTRSYYRGAAGALMVYD------ITRRSTYNHLSSWLTDTKNLTNPNTV 122
+ + G + V + + ++H+ + +TD ++ +
Sbjct: 107 DQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMA-MTDPAFGSSGRPL 165
Query: 123 IFLIGNKMDL 132
+ L
Sbjct: 166 LVLSCISQGD 175
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia
chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 26.0 bits (58), Expect = 6.9
Identities = 10/72 (13%), Positives = 17/72 (23%), Gaps = 29/72 (40%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 67
++G G G + T+G E + G +
Sbjct: 6 FMVGARGCGMT-----------------TVGRELARALGYEFVDTDIFMQHTSGMTVA-D 47
Query: 68 IWDTAGQERFRA 79
+ G FR
Sbjct: 48 VVAAEGWPGFRR 59
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 26.4 bits (59), Expect = 6.9
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 29/71 (40%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 67
+ IG MG GKS T+ I + +K+ +
Sbjct: 8 VFIGFMGSGKS-----------------TLARALAKDLDLVFLDSDFLIEQKFNQKVS-E 49
Query: 68 IWDTAGQERFR 78
I++ + FR
Sbjct: 50 IFEQKRENFFR 60
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 26.2 bits (57), Expect = 6.9
Identities = 24/187 (12%), Positives = 55/187 (29%), Gaps = 32/187 (17%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTAGQERFR 78
+I G G GK+ + + + + ++ I + ++R
Sbjct: 14 LITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTHIIEEKDEDRLL 73
Query: 79 AVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDTKN-----LTNPNTVIF--------- 124
++ Y H S + L V+F
Sbjct: 74 DFMEPIMVSRGNHVVDY---------HSSELFPERWFHMVVVLHTSTEVLFERLTKRQYS 124
Query: 125 --LIGNKMDLEGSRDVRYDEAKKFAEENDLIFVEASAMTGENVEQAFLETAKKIYQNIKD 182
M+ E + + +EA+ E++ I + T E + T ++I + ++
Sbjct: 125 EAKRAENMEAE-IQCICEEEARDAYEDD--IVLVRENDTLEQMA----ATVEEIRERVEV 177
Query: 183 GKLNANM 189
K+ +
Sbjct: 178 LKVERGL 184
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A*
3mrs_A 3n2e_A*
Length = 168
Score = 26.0 bits (58), Expect = 6.9
Identities = 16/71 (22%), Positives = 27/71 (38%), Gaps = 29/71 (40%)
Query: 19 IIIGDMGVGKSCLLHQFTEQKFMPDCPHTIGVEFGTR-----------IIEVHGEKIKLQ 67
++IG MG GKS ++ E G I E G ++ +
Sbjct: 11 VLIGFMGSGKS-----------------SLAQELGLALKLEVLDTDMIISERVGLSVR-E 52
Query: 68 IWDTAGQERFR 78
I++ G++ FR
Sbjct: 53 IFEELGEDNFR 63
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET:
GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 26.3 bits (58), Expect = 7.5
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 13/61 (21%)
Query: 19 IIIGDMGVGKSCLLH------QFTEQKFMPDCPHTIGVEFGTRIIEVHGEKIKLQIWDTA 72
+++G GVGKS ++ F + + V + G + I DT
Sbjct: 40 LVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVS-----RTMGG--FTINIIDTP 92
Query: 73 G 73
G
Sbjct: 93 G 93
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
protein, P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 26.5 bits (59), Expect = 7.7
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 148 EENDLIFVEASAMTGE 163
++ + V+ SA+TGE
Sbjct: 218 TDDAFLQVDQSALTGE 233
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 26.1 bits (57), Expect = 8.1
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 8/68 (11%)
Query: 17 KYIIIGDMGVGKSCLLHQFTEQKFMPDC--------PHTIGVEFGTRIIEVHGEKIKLQI 68
K II G+ GVGK+ L+ + E+ G RII G+K
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSS 61
Query: 69 WDTAGQER 76
++
Sbjct: 62 KFFTSKKL 69
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 26.1 bits (58), Expect = 9.8
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 22 GDMGVGKSCLLHQFTEQKFMPDC 44
G VG+S LL Q E + D
Sbjct: 196 GFREVGRSALLVQTDESFVLVDF 218
>3rrx_A EXO-1,3/1,4-beta-glucanase; (alpha/beta)8 barrel,(alpha/beta)6
sheet, hydrolase; 1.90A {Pseudoalteromonas SP} PDB:
3usz_A 3f93_A 3f94_A 3ut0_A
Length = 822
Score = 26.2 bits (58), Expect = 9.9
Identities = 14/77 (18%), Positives = 25/77 (32%), Gaps = 6/77 (7%)
Query: 111 TDTKNLTNPNTVIFLIGNKMDLEGSR-DVRYDEAKKFAEENDLIFV---EASA--MTGEN 164
TD N PN G + + + + E+ ++ + D+ V E G+
Sbjct: 440 TDNTNSDFPNATSIFSGLQSQVTKAGGKITLSESGEYTSKPDVAIVVIGEEPYAEWFGDI 499
Query: 165 VEQAFLETAKKIYQNIK 181
F K +K
Sbjct: 500 ELLEFQHETKHALALLK 516
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.132 0.386
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: 3,241,212
Number of extensions: 185581
Number of successful extensions: 884
Number of sequences better than 10.0: 1
Number of HSP's gapped: 695
Number of HSP's successfully gapped: 187
Length of query: 218
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 128
Effective length of database: 4,188,903
Effective search space: 536179584
Effective search space used: 536179584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.9 bits)