RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013007
(451 letters)
>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding
protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*
Length = 397
Score = 816 bits (2110), Expect = 0.0
Identities = 227/389 (58%), Positives = 300/389 (77%), Gaps = 2/389 (0%)
Query: 63 KLHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVE 122
K HVNVGTIGHVDHGKTTLTAAITK+LAE G AK ++EID APEE+ RGITI AHVE
Sbjct: 1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVE 60
Query: 123 YETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVP 182
Y TA RHYAH DCPGHADYVKNMITG A +DG ILVV+A DGPMPQT+EH+LLARQ+GV
Sbjct: 61 YSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVE 120
Query: 183 SLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKK 242
+V ++NK D V+D E++ELVE+E+RELL+ + + G+E PII GSA AL+ ++ E+G K
Sbjct: 121 HVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLK 180
Query: 243 AILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLG 302
++ KL+DAVD YIP P R L+KPFL+P+E V+SI GRGTV TG +E+G +K G+E E LG
Sbjct: 181 SVQKLLDAVDTYIPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLG 240
Query: 303 LTQGPSLKTTVTGVEMFKKILDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGSVKTYKKF 362
+++T VTG+EMF K LDR EAGDN+G L+RGLKRED++RG V+AKPGS++ ++K
Sbjct: 241 H--SKNIRTVVTGIEMFHKSLDRAEAGDNLGALVRGLKREDLRRGLVMAKPGSIQPHQKV 298
Query: 363 EAEIYVLTKDEGGRHTAFFSNYRPQIYLRTADVTGKVELLGDVKMVMPGDNVNAAFELIS 422
EA++Y+LTK+EGGRH F S++ P ++ T D+ ++ L ++ MPG+++ L
Sbjct: 299 EAQVYILTKEEGGRHKPFVSHFMPVMFSLTWDMACRIILPPGKELAMPGEDLKLTLILRQ 358
Query: 423 PLPLQQGQRFALREGGRTVGAGVVSKVIS 451
P+ L++GQRF LR+G RT+G G+V+ +
Sbjct: 359 PMILEKGQRFTLRDGNRTIGTGLVTDTPA 387
>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation
factor, protein synthesis, antibiotic, GTP-binding,
nucleotide-binding; HET: GNP PUL; 1.4A {Thermus
thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB:
2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z*
2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A*
2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...
Length = 405
Score = 815 bits (2108), Expect = 0.0
Identities = 270/403 (66%), Positives = 322/403 (79%), Gaps = 10/403 (2%)
Query: 57 ATFTRTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEG-KAKAIAFDEIDKAPEEKKRGIT 115
F RTK HVNVGTIGHVDHGKTTLTAA+T V A E + + +IDKAPEE+ RGIT
Sbjct: 3 GEFVRTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGIT 62
Query: 116 IATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILL 175
I TAHVEYETAKRHY+HVDCPGHADY+KNMITGAAQMDG ILVVSA DGPMPQT+EHILL
Sbjct: 63 INTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILL 122
Query: 176 ARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGK 235
ARQVGVP +V F+NKVD+V+D ELL+LVEME+R+LL+ Y+FPGDE+P+IRGSA AL+
Sbjct: 123 ARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALEQM 182
Query: 236 N--------EEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRV 287
+ E I +L+DA+DEYIP P R +DKPFLMP+EDVF+I GRGTVATGR+
Sbjct: 183 HRNPKTRRGENEWVDKIWELLDAIDEYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRI 242
Query: 288 EQGTIKVGEEVEVLGLTQGPSLKTTVTGVEMFKKILDRGEAGDNVGLLLRGLKREDVQRG 347
E+G +KVG+EVE++GL KT VTGVEM +K L G AGDNVG+LLRG+ RE+V+RG
Sbjct: 243 ERGKVKVGDEVEIVGLAPET-RKTVVTGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERG 301
Query: 348 QVIAKPGSVKTYKKFEAEIYVLTKDEGGRHTAFFSNYRPQIYLRTADVTGKVELLGDVKM 407
QV+AKPGS+ + KFEA +YVL K+EGGRHT FFS YRPQ Y RT DVTG V+L V+M
Sbjct: 302 QVLAKPGSITPHTKFEASVYVLKKEEGGRHTGFFSGYRPQFYFRTTDVTGVVQLPPGVEM 361
Query: 408 VMPGDNVNAAFELISPLPLQQGQRFALREGGRTVGAGVVSKVI 450
VMPGDNV ELI P+ L++G RFA+REGGRTVGAGVV+K++
Sbjct: 362 VMPGDNVTFTVELIKPVALEEGLRFAIREGGRTVGAGVVTKIL 404
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 840 bits (2171), Expect = 0.0
Identities = 276/441 (62%), Positives = 333/441 (75%), Gaps = 5/441 (1%)
Query: 11 SKRIVPFSSQIYSCCRGSLSISDAFSANETSATRCGPSVNPWWRSMATFTRTKLHVNVGT 70
+ + ++++ R + A S F RTK HVNVGT
Sbjct: 243 GQLLKEHNAEVTGFIRFEVG-EGIEKVETDFAAEVAAMSKQSHMSKEKFERTKPHVNVGT 301
Query: 71 IGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVEYETAKRHY 130
IGHVDHGKTTLTAAIT VLA+ A AFD+ID APEEK RGITI T+HVEY+T RHY
Sbjct: 302 IGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHY 361
Query: 131 AHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNK 190
AHVDCPGHADYVKNMITGAAQMDG ILVV+A DGPMPQT+EHILL RQVGVP ++ FLNK
Sbjct: 362 AHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 421
Query: 191 VDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDA 250
D+V+DEELLELVEME+RELLS Y FPGD+ PI+RGSA AL+G E + IL+L
Sbjct: 422 CDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAE--WEAKILELAGF 479
Query: 251 VDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPSLK 310
+D YIP+PER +DKPFL+PIEDVFSI GRGTV TGRVE+G IKVGEEVE++G+ + K
Sbjct: 480 LDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGI--KETQK 537
Query: 311 TTVTGVEMFKKILDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGSVKTYKKFEAEIYVLT 370
+T TGVEMF+K+LD G AG+NVG+LLRG+KRE+++RGQV+AKPG++K + KFE+E+Y+L+
Sbjct: 538 STCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILS 597
Query: 371 KDEGGRHTAFFSNYRPQIYLRTADVTGKVELLGDVKMVMPGDNVNAAFELISPLPLQQGQ 430
KDEGGRHT FF YRPQ Y RT DVTG +EL V+MVMPGDN+ LI P+ + G
Sbjct: 598 KDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGL 657
Query: 431 RFALREGGRTVGAGVVSKVIS 451
RFA+REGGRTVGAGVV+KV+S
Sbjct: 658 RFAIREGGRTVGAGVVAKVLS 678
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 573 bits (1479), Expect = 0.0
Identities = 74/395 (18%), Positives = 138/395 (34%), Gaps = 43/395 (10%)
Query: 57 ATFTRTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITI 116
R NV IG G+T+L A + K +G +
Sbjct: 13 GLVPRGSHMANVAIIGTEKSGRTSLAANLGK------------------------KGTSS 48
Query: 117 ATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLA 176
+ R+ VD + +K++IT D +L + G T E I+
Sbjct: 49 DITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIPP-QGLDAHTGECIIAL 107
Query: 177 RQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN 236
+G + L + D ++ ++ +L+ + S + I + + +
Sbjct: 108 DLLGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVL--QDWECISLNTNKSAKNPF 164
Query: 237 EEIGKKAILKLMDAVDEYIPDPERQLDK-PFLMPIEDVFSIQGRGTVATGRVEQGTIKVG 295
E G + ++ V E I +L+ P + I+ F++ G+G V G V+QG K
Sbjct: 165 E--GVDELKARINEVAEKIEAENAELNSLPARIFIDHAFNVTGKGCVVLGVVKQGISKDK 222
Query: 296 EEVEVLGLTQGPSLKTTVTGVEMFKKILDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGS 355
++ ++ L + + ++ +D AG VG+ L+ ++ +D++RG +I+
Sbjct: 223 DKTKIFPLDR----DIEIRSIQSHDVDIDSAPAGTRVGMRLKNVQAKDIERGFIISDKEI 278
Query: 356 VKTYKKFEAEIYVLTKD-EGGRHTAFFSNYRPQIYLRTADVTGKVELLGDVKMVMPGDNV 414
V T E + TK E F + + V + +V+ PG
Sbjct: 279 VTTDYTLECTVSKFTKKIEPASVLHLFVGLQSE----PVRVEKILVDGNEVEEAKPGSTC 334
Query: 415 NAAFELISPLPLQQGQRFALREGG---RTVGAGVV 446
L + RF L R G
Sbjct: 335 VLELSGNKKLAYSKQDRFLLANLDLTQRFAAYGFS 369
>1wb1_A Translation elongation factor SELB; selenocysteine, protein
synthesis, selenium, ribosome; HET: GDP DXC; 3.0A
{Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*
Length = 482
Score = 576 bits (1487), Expect = 0.0
Identities = 106/425 (24%), Positives = 185/425 (43%), Gaps = 63/425 (14%)
Query: 54 RSMATFTRTKLH-----VNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPE 108
+ H +N+G GH+DHGKTTL+ +T++ + DK PE
Sbjct: 3 HHHHHSIEGRPHMDFKNINLGIFGHIDHGKTTLSKVLTEIAS---------TSAHDKLPE 53
Query: 109 EKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQ 168
+KRGITI ++ VD PGHAD ++ +++ A +D ++VV A +GP Q
Sbjct: 54 SQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQ 113
Query: 169 TKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSA 228
T EH+L+ +P +V + K D EE ++ EM ++ +L II SA
Sbjct: 114 TGEHMLILDHFNIPIIV-VITKSDNAGTEE-IKRTEMIMKSILQST-HNLKNSSIIPISA 170
Query: 229 TSALQGKNEEIGKKAILKLMDAVDEYI--PDPERQLDKPFLMPIEDVFSIQGRGTVATGR 286
+ + +L + + + + R + F MP++ F I+G GTV TG
Sbjct: 171 KTGFG----------VDELKNLIITTLNNAEIIRNTESYFKMPLDHAFPIKGAGTVVTGT 220
Query: 287 VEQGTIKVGEEVEVLGLTQGPSLKTTVTGVEMFKKILDRGEAGDNVGLLLRGLKREDVQR 346
+ +G +KVG+E++VL + T V ++ FK+ + +AGD VG+ ++G+ + + R
Sbjct: 221 INKGIVKVGDELKVLPINM----STKVRSIQYFKESVMEAKAGDRVGMAIQGVDAKQIYR 276
Query: 347 GQVIAKPGS-VKTYKKFEAEIYVLTKDEGGRHTAFFSNYRPQIYLR----TADVTGKVEL 401
G ++ + ++T K A+I + F N P++ + V
Sbjct: 277 GXILTSKDTKLQTVDKIVAKIKISDI--------FKYNLTPKMKVHLNVGMLIVPAVAVP 328
Query: 402 LGD-----------VKMVMPGDNVNAAFELISPLPLQQGQRFALR------EGGRTVGAG 444
+ V+ G+ AFEL + + G R + R G G
Sbjct: 329 FKKVTFGKTEENIILNEVISGNEXYXAFELEEKVLAEVGDRVLITRLDLPPTTLRIXGHG 388
Query: 445 VVSKV 449
++ +
Sbjct: 389 LIEEF 393
>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger,
initiate translation, tRNA binding, mRNA bindin binding;
HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB:
3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A*
3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*
Length = 403
Score = 569 bits (1470), Expect = 0.0
Identities = 105/422 (24%), Positives = 171/422 (40%), Gaps = 56/422 (13%)
Query: 59 FTRTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKA---IAFDEIDKAPEEKKRGIT 115
+ + + VN+G +GHVDHGKTTL AIT + + A I E K PE +
Sbjct: 2 WPKVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPS 61
Query: 116 IATAHVEYETA-KRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG-PMPQTKEHI 173
+ + E R + +D PGH + M++GAA MDG ILVV+A + P PQT+EH
Sbjct: 62 CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHF 121
Query: 174 LLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQ 233
+ +GV +L+ NKVD+V EE L + + +PII SA +
Sbjct: 122 VALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFT---KGTWAENVPIIPVSALHKIN 178
Query: 234 GKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQG--------RGTVATG 285
I L++ ++EYI P R L + +M + F + +G V G
Sbjct: 179 ----------IDSLIEGIEEYIKTPYRDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGG 228
Query: 286 RVEQGTIKVGEEVEVL--------GLTQGPSLKTTVTGVEMFKKILDRGEAGDNVGL--- 334
+ QG KV +E++VL G + T ++ + + + G V +
Sbjct: 229 SIIQGLFKVDQEIKVLPGLRVEKQGKVSYEPIFTKISSIRFGDEEFKEAKPGGLVAIGTY 288
Query: 335 LLRGLKREDVQRGQVIAKPGS-VKTYKKFEAEIYVLTK----DEGGRHTAFFSNYRPQIY 389
L L + D G +I + V + +L + E + + +
Sbjct: 289 LDPSLTKADNLLGSIITLADAEVPVLWNIRIKYNLLERVVGAKEMLKVDPIRAKETLMLS 348
Query: 390 LRTADVTGKVELLGDVKMVMPGDNVNAAFELISPLPLQQGQ-RFAL--REGG--RTVGAG 444
+ ++ G +V EL P+ + R + + G R +G G
Sbjct: 349 VGSSTTLG---------IVTSVKKDEIEVELRRPVAVWSNNIRTVISRQIAGRWRMIGWG 399
Query: 445 VV 446
+V
Sbjct: 400 LV 401
>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus
abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A*
1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*
Length = 410
Score = 566 bits (1461), Expect = 0.0
Identities = 111/443 (25%), Positives = 184/443 (41%), Gaps = 87/443 (19%)
Query: 58 TFTRTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIA 117
+ VN+G +GHVDHGKTTLT A+T V D EE +RGITI
Sbjct: 3 KRKSRQAEVNIGMVGHVDHGKTTLTKALTGVWT-------------DTHSEELRRGITIK 49
Query: 118 TAHVEYETAK-----------------------RHYAHVDCPGHADYVKNMITGAAQMDG 154
+ E + R + +D PGH + M+ GA+ MDG
Sbjct: 50 IGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDG 109
Query: 155 GILVVSAPDG-PMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSF 213
ILV++A + P PQT+EH++ + +G +++ NK++LV+ E+ LE +
Sbjct: 110 AILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENYRQIKEFIEG- 168
Query: 214 YKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDV 273
+ PII SA I L+ A++++IP P+R +KP M +
Sbjct: 169 --TVAENAPIIPISALHGAN----------IDVLVKAIEDFIPTPKRDPNKPPKMLVLRS 216
Query: 274 FSIQGRGT--------VATGRVEQGTIKVGEEVEVLGL--------TQGPSLKTTVTGVE 317
F + GT V G + QG +KVG+E+E+ + + T + ++
Sbjct: 217 FDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPITTEIVSLQ 276
Query: 318 MFKKILDRGEAGDNVGL---LLRGLKREDVQRGQVIAKPGSVK-TYKKFEAEIYVLTKDE 373
+ ++ G VG+ L L + D+ G V+ KPG + + E+++L +
Sbjct: 277 AGGQFVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKLPPVWDSLRLEVHLLERVV 336
Query: 374 GGRHTA----FFSNYRPQIYLRTADVTGKVELLGDVKMVMPGDNVNAAFELISPLPLQQG 429
G + + TA G +V +L P+ + G
Sbjct: 337 GTEQELKVEPIKRKEVLLLNVGTARTMG---------LVTGLGKDEIEVKLQIPVCAEPG 387
Query: 430 QRFAL-REGG---RTVGAGVVSK 448
R A+ R+ G R +G G++ +
Sbjct: 388 DRVAISRQIGSRWRLIGYGIIKE 410
>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase,
EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP:
b.43.3.1 b.44.1.1 c.37.1.8
Length = 408
Score = 551 bits (1422), Expect = 0.0
Identities = 116/439 (26%), Positives = 181/439 (41%), Gaps = 87/439 (19%)
Query: 61 RTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAH 120
++ VN+G +GHVDHGKT+LT A+T V D+ EE +RGI+I +
Sbjct: 4 GSQAEVNIGMVGHVDHGKTSLTKALTGVWT-------------DRHSEELRRGISIRLGY 50
Query: 121 VEYETAK-----------------------RHYAHVDCPGHADYVKNMITGAAQMDGGIL 157
+ E K R + VD PGH + M++GA+ MDG IL
Sbjct: 51 ADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAIL 110
Query: 158 VVSAPDG-PMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKF 216
V++A + P PQTKEH++ +G+ ++ NK+DLV++++ E E +
Sbjct: 111 VIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENYEQIKEFVKG---T 167
Query: 217 PGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSI 276
+ PII SA N I L+ A+ ++IP P+R D M + F I
Sbjct: 168 IAENAPIIPI---SAHHEAN-------IDVLLKAIQDFIPTPKRDPDATPRMYVARSFDI 217
Query: 277 QGRGT--------VATGRVEQGTIKVGEEVEVL--------GLTQGPSLKTTVTGVEMFK 320
GT V G + QG KVG+E+E+ T L T + +
Sbjct: 218 NKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWKPLTTKIVSLAAGN 277
Query: 321 KILDRGEAGDNVG---LLLRGLKREDVQRGQVIAKPGSVK-TYKKFEAEIYVLTKDEGGR 376
IL + G +G L L + D G V+ PG++ +K +L + G +
Sbjct: 278 TILRKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGTLPPIREKITIRANLLDRVVGTK 337
Query: 377 H----TAFFSNYRPQIYLRTADVTGKVELLGDVKMVMPGDNVNAAFELISPLPLQQGQRF 432
+ + + TA G + GD + +L P+ + G R
Sbjct: 338 EELKIEPLRTGEVLMLNIGTATTAGVI-------TSARGDIAD--IKLKLPICAEIGDRV 388
Query: 433 AL--REGG--RTVGAGVVS 447
A+ R G R +G G +
Sbjct: 389 AISRRVGSRWRLIGYGTIE 407
>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 = 260 bits (666), Expect = 2e-82
Identities = 121/445 (27%), Positives = 187/445 (42%), Gaps = 76/445 (17%)
Query: 63 KLHVNVGTIGHVDHGKTTLT---------------AAITKVLAEEGKAKAIAFDEIDKAP 107
K HVN+ IGHVD GK+TL I + E GK +D
Sbjct: 41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTS 100
Query: 108 EEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG--- 164
EE+++G T+ +ET R ++ +D PGH YV NMI GA+Q D G+LV+SA G
Sbjct: 101 EEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFE 160
Query: 165 ----PMPQTKEHILLARQVGVPSLVCFLNKVDLVE---DEELLELVEMELRELL---SFY 214
QT+EH +LAR G+ LV +NK+D EE + +L L + Y
Sbjct: 161 AGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGY 220
Query: 215 KFPGDEIPIIRGSATSALQGKN-EEIGKKAILK------LMDAVDEYIPDPERQLDKPFL 267
++ + SA G+N ++ ++ L++ +D ER+++ PF+
Sbjct: 221 N-SKTDVKYM---PVSAYTGQNVKDRVDSSVCPWYQGPSLLEYLDSMTH-LERKVNAPFI 275
Query: 268 MPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGV-EMFKKILDR 325
MPI + GT+ G++E G+IK V V+ P VT + + + +
Sbjct: 276 MPIASKYK--DLGTILEGKIEAGSIKKNSNVLVM-----PINQTLEVTAIYDEADEEISS 328
Query: 326 GEAGDNVGLLLRGLKREDVQRGQVIAKPG-SVKTYKKFEAEIYVLTKDEGGRHTAFFSN- 383
GD V L +RG DVQ G V+ V +F A+I +L + +
Sbjct: 329 SICGDQVRLRVRGDD-SDVQTGYVLTSTKNPVHATTRFIAQIAILE------LPSILTTG 381
Query: 384 YRPQIYLRTADVTGKVELL-------GDV-----KMVMPGDNVNAAFELISPLPLQ---- 427
Y +++ TA L G + A E +P+ ++
Sbjct: 382 YSCVMHIHTAVEEVSFAKLLHKLDKTNRKSKKPPMFATKGMKIIAELETQTPVCMERFED 441
Query: 428 --QGQRFALREGGRTVGAGVVSKVI 450
RF LR+ G TV G V K++
Sbjct: 442 YQYMGRFTLRDQGTTVAVGKVVKIL 466
>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase,
alpha/beta structure, protein biosynthesis, translation;
HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*
Length = 435
Score = 258 bits (661), Expect = 6e-82
Identities = 138/441 (31%), Positives = 217/441 (49%), Gaps = 69/441 (15%)
Query: 63 KLHVNVGTIGHVDHGKTTLT---------------AAITKVLAEEGKAKAIAFDEIDKAP 107
K H+N+ IGHVDHGK+TL + + GK +D+
Sbjct: 4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLK 63
Query: 108 EEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG--- 164
EE++RG+TI + +ET K + +D PGH D+VKNMITGA+Q D ILVVSA G
Sbjct: 64 EERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYE 123
Query: 165 ----PMPQTKEHILLARQVGVPSLVCFLNKVDLVE---DEELLELVEMELRELLSFYKFP 217
QT+EHI+LA+ +G+ L+ +NK+DL E DE+ + + ++ + + Y F
Sbjct: 124 AGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFN 183
Query: 218 GDEIPIIRGSATSALQGKN--EEIGKKAILK---LMDAVDEYIPDPERQLDKPFLMPIED 272
+++ + A G N + L + +D+ + P + +DKP +PI+D
Sbjct: 184 TNKVRFV---PVVAPSGDNITHKSENMKWYNGPTLEEYLDQ-LELPPKPVDKPLRIPIQD 239
Query: 273 VFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMFKKILDRGEAGDN 331
V+SI G GTV GRVE G +KVG+++ + P+ V +E +D+ E GDN
Sbjct: 240 VYSISGVGTVPVGRVESGVLKVGDKIVFM-----PAGKVGEVRSIETHHTKMDKAEPGDN 294
Query: 332 VGLLLRGLKREDVQRGQVI-AKPGSVKTYKKFEAEIYVLTKDEGGRHTAFFSN-YRPQIY 389
+G +RG++++D++RG V+ +F A I V+ H +N Y P ++
Sbjct: 295 IGFNVRGVEKKDIKRGDVVGHPNNPPTVADEFTARIIVVW------HPTALANGYTPVLH 348
Query: 390 LRTADVTGKVELL--------GDV-----KMVMPGDNVNAAFELISPLPL-------QQG 429
+ TA V +V L G + + GD F+ I PL + G
Sbjct: 349 VHTASVACRVSELVSKLDPRTGQEAEKNPQFLKQGDVAIVKFKPIKPLCVEKYNEFPPLG 408
Query: 430 QRFALREGGRTVGAGVVSKVI 450
RFA+R+ G+TVG G++ V
Sbjct: 409 -RFAMRDMGKTVGVGIIVDVK 428
>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 = 257 bits (658), Expect = 8e-81
Identities = 99/464 (21%), Positives = 176/464 (37%), Gaps = 92/464 (19%)
Query: 62 TKLHVNVGTIGHVDHGKTTLT---------------AAITKVLAEEGKAK-AIAFDEIDK 105
H++ +GHVD GK+TL + + GK+ A+ +D+
Sbjct: 30 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAW-IMDQ 88
Query: 106 APEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGP 165
EE++RG+T++ + T + ++ VD PGH D+V N I G +Q D IL V
Sbjct: 89 TNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNA 148
Query: 166 M-------PQTKEHILLARQVGVPSLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFP 217
QTKEH+LLA +G+ +L+ +NK+D V+ ++ E ++ +L L F
Sbjct: 149 FESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFF 208
Query: 218 GDEIPIIRGSATSALQGKN--EEIGKKAILK------LMDAVD-----EYIPDPERQLDK 264
D I + S G+ + + + LM ++ + D
Sbjct: 209 EDNINWV---PISGFSGEGVYKIEYTDEVRQWYNGPNLMSTLENAAFKISKENEGINKDD 265
Query: 265 PFLMPIEDVFS---IQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMFK 320
PFL + ++ + +G++E G+I+ GE + + PS V +++
Sbjct: 266 PFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIY-----PSEQSCIVDKIQVGS 320
Query: 321 KI--------LDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGS--VKTYKKFEAEIYVLT 370
+ D GD V L LR ED+Q G + A + + + F E+
Sbjct: 321 QQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFVLELTTFD 380
Query: 371 KDEGGRHTAFFSN-YRPQIYLRTADV--------------TGKVELLGDVKMVMPGDNVN 415
+++ + + ++ +
Sbjct: 381 ------MNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNTASK--KKIRHLGSKQRAF 432
Query: 416 AAFELIS---PLPLQQGQ------RFALREGGRTVGAGVVSKVI 450
ELI +PL R LR+ GRT+ AG +S++
Sbjct: 433 VEIELIEVKRWIPLLTAHENDRLGRVVLRKDGRTIAAGKISEIT 476
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 258 bits (661), Expect = 4e-80
Identities = 104/436 (23%), Positives = 177/436 (40%), Gaps = 64/436 (14%)
Query: 61 RTKLHVNVGTIGHVDHGKTTLTAAI---------------TKVLAEEGKAK-AIAFDEID 104
K V++ GHVD GK+T+ I A GK + A+ +D
Sbjct: 173 NPKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAW-LLD 231
Query: 105 KAPEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG 164
EE+ RG+T+ A +E+ K+ Y D PGH D++ MI GA+ D +LVV +
Sbjct: 232 TTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQN 291
Query: 165 PM-------PQTKEHILLARQVGVPSLVCFLNKVDLVE-DEELLELVEMELRE-LLSFYK 215
QT+EH L R +G+ +V +NK+DL+ E+ + ++ + + L+
Sbjct: 292 NFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVG 351
Query: 216 FPGDEIPIIRGSATSALQGKN-EEIGKKAILK------LMDAVDEYIPDPERQLDKPFLM 268
F + + SA+ G N + + K L+ A+D+ + PE+ KP +
Sbjct: 352 FKTSNVHFV---PISAISGTNLIQKDSSDLYKWYKGPTLLSALDQ-LVPPEKPYRKPLRL 407
Query: 269 PIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMF-KKILDRG 326
I+DV+ TV TGRVE G ++V + + + S V V
Sbjct: 408 SIDDVYRSPRSVTV-TGRVEAGNVQVNQVLYDV-----SSQEDAYVKNVIRNSDPSSTWA 461
Query: 327 EAGDNVGLLLRGLKREDVQRGQVIAKPG-SVKTYKKFEAEIYVLTKDEGGRHTAFFSN-Y 384
AGD V L L ++ ++ G +++ V+ + F AEI +
Sbjct: 462 VAGDTVTLQLADIEVNQLRPGDILSNYENPVRRVRSFVAEIQTFD------IHGPILSGS 515
Query: 385 RPQIYLRTADVTGKVELLGDV----KMVMPGDNVNAAFELISP-LPL------QQGQRFA 433
++L + ++++ + + + PL RF
Sbjct: 516 TLVLHLGRTVTSVSLKIVTVNNKRSRHIASRKRALVRISFLDGLFPLCLAEECPALGRFI 575
Query: 434 LREGGRTVGAGVVSKV 449
LR G TV AG+V ++
Sbjct: 576 LRRSGDTVAAGIVKEL 591
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 257 bits (658), Expect = 2e-79
Identities = 99/463 (21%), Positives = 176/463 (38%), Gaps = 92/463 (19%)
Query: 63 KLHVNVGTIGHVDHGKTTLT---------------AAITKVLAEEGKAK-AIAFDEIDKA 106
H++ +GHVD GK+TL + + GK+ A+ +D+
Sbjct: 165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAW-IMDQT 223
Query: 107 PEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPM 166
EE++RG+T++ + T + ++ VD PGH D+V N I G +Q D IL V
Sbjct: 224 NEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAF 283
Query: 167 -------PQTKEHILLARQVGVPSLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFPG 218
QTKEH+LLA +G+ +L+ +NK+D V+ ++ E ++ +L L F
Sbjct: 284 ESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFE 343
Query: 219 DEIPIIRGSATSALQGKN--EEIGKKAILK------LMDAVD-----EYIPDPERQLDKP 265
D I + S G+ + + + LM ++ + D P
Sbjct: 344 DNINWV---PISGFSGEGVYKIEYTDEVRQWYNGPNLMSTLENAAFKISKENEGINKDDP 400
Query: 266 FLMPIEDVFS---IQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMFKK 321
FL + ++ + +G++E G+I+ GE + + PS V +++ +
Sbjct: 401 FLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIY-----PSEQSCIVDKIQVGSQ 455
Query: 322 I--------LDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGS--VKTYKKFEAEIYVLTK 371
D GD V L LR ED+Q G + A + + + F E+
Sbjct: 456 QGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFVLELTTFD- 514
Query: 372 DEGGRHTAFFSN-YRPQIYLRTADV--------------TGKVELLGDVKMVMPGDNVNA 416
+++ + + ++ +
Sbjct: 515 -----MNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNTASK--KKIRHLGSKQRAFV 567
Query: 417 AFELIS---PLPLQQGQ------RFALREGGRTVGAGVVSKVI 450
ELI +PL R LR+ GRT+ AG +S++
Sbjct: 568 EIELIEVKRWIPLLTAHENDRLGRVVLRKDGRTIAAGKISEIT 610
>1f60_A Elongation factor EEF1A; protein-protein complex, translation;
1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1
c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A
Length = 458
Score = 243 bits (622), Expect = 6e-76
Identities = 141/453 (31%), Positives = 199/453 (43%), Gaps = 80/453 (17%)
Query: 61 RTKLHVNVGTIGHVDHGKTTLT---------------AAITKVLAEEGKAKAIAFDEIDK 105
+ K H+NV IGHVD GK+T T K AE GK +DK
Sbjct: 3 KEKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDK 62
Query: 106 APEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG- 164
E++RGITI A ++ET K +D PGH D++KNMITG +Q D IL+++ G
Sbjct: 63 LKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE 122
Query: 165 ------PMPQTKEHILLARQVGVPSLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFP 217
QT+EH LLA +GV L+ +NK+D V+ DE + + E + +
Sbjct: 123 FEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYN 182
Query: 218 GDEIPIIRGSATSALQGKN----------------EEIGKKAILK-LMDAVDEYIPDPER 260
+P + S G N E K L++A+D P R
Sbjct: 183 PKTVPFV---PISGWNGDNMIEATTNAPWYKGWEKETKAGVVKGKTLLEAIDAIEQ-PSR 238
Query: 261 QLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMF 319
DKP +P++DV+ I G GTV GRVE G IK G V T P+ + T V VEM
Sbjct: 239 PTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVV-----TFAPAGVTTEVKSVEMH 293
Query: 320 KKILDRGEAGDNVGLLLRGLKREDVQRGQVI--AKPGSVKTYKKFEAEIYVLTKDEGGRH 377
+ L++G GDNVG ++ + ++++RG V AK K F A + VL H
Sbjct: 294 HEQLEQGVPGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGCASFNATVIVLN------H 347
Query: 378 TAFFSN-YRPQIYLRTADV--------------TGKVELLGDVKMVMPGDNVNAAFELIS 422
S Y P + TA + +GK L K + GD F
Sbjct: 348 PGQISAGYSPVLDCHTAHIACRFDELLEKNDRRSGKK-LEDHPKFLKSGDAALVKFVPSK 406
Query: 423 PLPLQQGQ------RFALREGGRTVGAGVVSKV 449
P+ ++ RFA+R+ +TV GV+ V
Sbjct: 407 PMCVEAFSEYPPLGRFAVRDMRQTVAVGVIKSV 439
>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 = 179 bits (456), Expect = 1e-51
Identities = 86/344 (25%), Positives = 155/344 (45%), Gaps = 52/344 (15%)
Query: 63 KLHVNVGTIGHVDHGKTTL-------TAAIT----KVLAEEGKAKAIAFDEIDKA----- 106
K + T G+VD GK+TL + I + + + K D++D A
Sbjct: 22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDG 81
Query: 107 -PEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGP 165
E+++GITI A+ + TAKR + D PGH Y +NM TGA+ D I++V A G
Sbjct: 82 LQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGV 141
Query: 166 MPQTKEHILLARQVGVPSLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFPGDEIPII 224
QT+ H +A +G+ +V +NK+DL DE + E ++ + + F + +
Sbjct: 142 QTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFV 201
Query: 225 RGSATSALQGKNEEIGKK----------AILKLMDAVDEYIPDPERQLDKPFLMPIEDV- 273
SAL+G N + K +++++++ V+ +R P++ V
Sbjct: 202 ---PMSALKGDN--VVNKSERSPWYAGQSLMEILETVE---IASDRN-YTDLRFPVQYVN 252
Query: 274 -FSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMFKKILDRGEAGDN 331
++ RG A G + G + G+E+ VL PS + V + F+ L++ G
Sbjct: 253 RPNLNFRG-FA-GTLASGIVHKGDEIVVL-----PSGKSSRVKSIVTFEGELEQAGPGQA 305
Query: 332 VGLLLRGLKRE-DVQRGQVIAKPGS-VKTYKKFEAEIYVLTKDE 373
V L ++ E D+ RG ++ + + F+A + + ++
Sbjct: 306 VTLT---MEDEIDISRGDLLVHADNVPQVSDAFDAMLVWMAEEP 346
>1xe1_A Hypothetical protein PF0907; structural genomics, unknown function,
protein structure INI secsg, conserved hypothetical
protein; HET: MSE; 2.00A {Pyrococcus furiosus} SCOP:
b.43.3.1
Length = 116
Score = 113 bits (284), Expect = 1e-30
Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 9/100 (9%)
Query: 257 DPERQLDKPFL-MPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPSLKTTVTG 315
E KP + +E+V +I G+ + G VE G I VG +V+ GPS +
Sbjct: 25 KIEILSKKPAGKVVVEEVVNIMGKDVII-GTVESGMIGVGFKVK------GPSGIGGIVR 77
Query: 316 VEMFKKILDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGS 355
+E ++ ++ AGD +G+ + G K V++G V+ +
Sbjct: 78 IERNREKVEFAIAGDRIGISIEG-KIGKVKKGDVLEIYQT 116
>3e1y_E Eukaryotic peptide chain release factor GTP-bindi ERF3A;
translation termination, peptide release, PTC, P
biosynthesis, GTP-binding; HET: ATP; 3.80A {Homo
sapiens}
Length = 204
Score = 108 bits (272), Expect = 1e-27
Identities = 45/211 (21%), Positives = 89/211 (42%), Gaps = 37/211 (17%)
Query: 263 DKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPS-LKTTVTGVEMFKK 321
P +PI D + GTV G++E G+I G+++ ++ P+ V G+
Sbjct: 4 GSPIRLPIVDKYK--DMGTVVLGKLESGSICKGQQLVMM-----PNKHNVEVLGILSDDV 56
Query: 322 ILDRGEAGDNVGLLLRGLKREDVQRGQVIAKPGS-VKTYKKFEAEIYVLTKDEGGRHTAF 380
D G+N+ + L+G++ E++ G ++ P + + + F+A+I ++ H +
Sbjct: 57 ETDTVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIE------HKSI 110
Query: 381 FSN-YRPQIYLRTADVTGKV-ELL-------GDV-----KMVMPGDNVNAAFELISPLPL 426
Y +++ T ++ L+ G+ + V A + L
Sbjct: 111 ICPGYNAVLHIHTCIEEVEITALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICL 170
Query: 427 -------QQGQRFALREGGRTVGAGVVSKVI 450
Q G RF LR+ G+T+ G V K++
Sbjct: 171 ETFKDFPQMG-RFTLRDEGKTIAIGKVLKLV 200
>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 = 86.0 bits (214), Expect = 2e-18
Identities = 83/269 (30%), Positives = 105/269 (39%), Gaps = 87/269 (32%)
Query: 68 VGTI-GHVDHGKTTLTAAI--TKVLA-EEGKAKAIAFDEIDKAPEEKKRGIT--IATAHV 121
V TI GHVDHGKT+L I TKV + E G GIT I HV
Sbjct: 6 VVTIMGHVDHGKTSLLEYIRSTKVASGEAG-------------------GITQHIGAYHV 46
Query: 122 EYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGV 181
E T +D PGHA + GA D +LVV+A DG MPQT E I A+ V
Sbjct: 47 E--TENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQV 104
Query: 182 PSLVCFLNKVDLVE---DEELLELVEMELRELLSFYKFP----GDEI--PIIRGSATSAL 232
P +V +NK+D E D EL + + P G+ + SA
Sbjct: 105 PVVVA-VNKIDKPEADPDRVKNELSQYGI--------LPEEWGGESQFVHV------SAK 149
Query: 233 QGKNEEIGKKAILKLMDAV------DEYIPDPER---------QLDKPFLMPIEDVFSIQ 277
G I +L+DA+ E + LDK
Sbjct: 150 AGTG-------IDELLDAILLQAEVLELKAVRKGMASGAVIESFLDK------------- 189
Query: 278 GRGTVATGRVEQGTIKVGEEVEVLGLTQG 306
GRG VAT V +GT+ G+ V + G G
Sbjct: 190 GRGPVATVLVREGTLHKGDIV-LCGFEYG 217
>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation;
HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB:
1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A*
1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T*
2zit_A* 1u2r_A* 3b78_A* 3b8h_A*
Length = 842
Score = 85.8 bits (212), Expect = 6e-18
Identities = 45/181 (24%), Positives = 75/181 (41%), Gaps = 32/181 (17%)
Query: 56 MATFTRTKLHV---------NVGTIGHVDHGKTTLTAAI---TKVLAEEGKAKAIAFDEI 103
M FT ++ N+ I HVDHGK+TLT ++ +++ KA
Sbjct: 1 MVAFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAA---KAGEARFT 57
Query: 104 DKAPEEKKRGITI-ATA-------------HVEYETAKRHYA--HVDCPGHADYVKNMIT 147
D +E++RGITI +TA ++ +T + +D PGH D+ +
Sbjct: 58 DTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTA 117
Query: 148 GAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMEL 207
DG ++VV +G QT+ + A + V +NKVD E + ++
Sbjct: 118 ALRVTDGALVVVDTIEGVCVQTETVLRQALGERIK-PVVVINKVDRALLELQVSKEDLYQ 176
Query: 208 R 208
Sbjct: 177 T 177
Score = 32.7 bits (74), Expect = 0.33
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 263 DKPFLMPIEDVFSIQGRG-TVATGRVEQGTIKVGEEVEVLGLTQGPSLKT 311
++ + + +G A GRV GT+K G++V + G P K
Sbjct: 375 KADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVPGKKD 424
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 81.5 bits (202), Expect = 1e-16
Identities = 76/264 (28%), Positives = 106/264 (40%), Gaps = 80/264 (30%)
Query: 70 TI-GHVDHGKTTLTAAI--TKVLA-EEGKAKAIAFDEIDKAPEEKKRGIT--IATAHVEY 123
TI GHVDHGKTTL + T+V A E G GIT I V
Sbjct: 8 TIMGHVDHGKTTLLDKLRKTQVAAMEAG-------------------GITQHIGAFLVSL 48
Query: 124 ETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPS 183
+ ++ +D PGHA + G D ILVV+A DG M QT E I A+ VP
Sbjct: 49 PSGEK-ITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP- 106
Query: 184 LVCFLNKVDLVE---DEELLELVEMELR-ELLSFYKFPGD--EIPIIRGSATSALQGKNE 237
+V +NK D E ++ EL+ ++ E + GD + + SAL G+N
Sbjct: 107 IVLAINKCDKAEADPEKVKKELLAYDVVCE-----DYGGDVQAVHV------SALTGEN- 154
Query: 238 EIGKKAILKLMDAV------DEYIPDPER---------QLDKPFLMPIEDVFSIQGRGTV 282
++ L +A E DP DK GRG V
Sbjct: 155 ------MMALAEATIALAEMLELKADPTGAVEGTVIESFTDK-------------GRGPV 195
Query: 283 ATGRVEQGTIKVGEEVEVLGLTQG 306
T +++GT++ G + V G +
Sbjct: 196 TTAIIQRGTLRKGSIL-VAGKSWA 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 = 81.2 bits (201), Expect = 1e-16
Identities = 52/289 (17%), Positives = 89/289 (30%), Gaps = 81/289 (28%)
Query: 72 GHVDHGKTTLTAAI--TKVLAEE----------------GKAKAIAFDEIDKAPEEKKRG 113
GHVDHGKTTL I + V + E + E G
Sbjct: 12 GHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPG 71
Query: 114 ITIATAHVEYETAKRHYAHVDCPGHADYVKNMIT-GAAQMDGGILVVSAPDGPMPQTKEH 172
+ +D PGH + + G A D IL+V +G PQT+E
Sbjct: 72 LFF----------------IDTPGHEAFT-TLRKRGGALADLAILIVDINEGFKPQTQEA 114
Query: 173 ILLARQVGVPSLVCFLNKVDLVE-----------------------------DEELLELV 203
+ + R P +V NK+D + E + +L
Sbjct: 115 LNILRMYRTPFVVA-ANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVYELVGKLH 173
Query: 204 EMELR-ELLSFYKFPGDEIPIIRGSATSALQGKNEEIGK--KAILKLMDA--VDEYIPDP 258
E E ++ II SA+ G+ I + ++ L ++ +
Sbjct: 174 EEGFESERFDRVTDFASQVSII---PISAITGEG--IPELLTMLMGLAQQYLREQLKIEE 228
Query: 259 ERQLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGP 307
+ +E V G G + G ++ + + + ++
Sbjct: 229 DSPARG---TILE-VKEETGLGMTIDAVIYDGILRKDDTI-AMMTSKDV 272
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 75.8 bits (187), Expect = 2e-16
Identities = 56/148 (37%), Positives = 68/148 (45%), Gaps = 29/148 (19%)
Query: 68 VGTI-GHVDHGKTTLTAAI--TKVLAEEGKAKAIAFDEIDKAPEEKKRGIT--IATAHVE 122
V TI GHVDHGKTTL AI +KV +E GIT I V
Sbjct: 10 VVTIMGHVDHGKTTLLDAIRHSKVTEQEAG------------------GITQHIGAYQVT 51
Query: 123 YETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVP 182
+ +D PGH + GA D ILVV+A DG MPQT E I A+ VP
Sbjct: 52 VN--DKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVP 109
Query: 183 SLVCFLNKVDLVE---DEELLELVEMEL 207
+V +NK+D E D + EL+E L
Sbjct: 110 IIVA-INKMDKPEANPDRVMQELMEYNL 136
>2dy1_A Elongation factor G; translocation, GTP complex, structural
genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus}
SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1
PDB: 1wdt_A*
Length = 665
Score = 68.7 bits (169), Expect = 1e-12
Identities = 68/339 (20%), Positives = 102/339 (30%), Gaps = 119/339 (35%)
Query: 56 MATFTRTKLHVNVGTIGHVDHGKTTLTAAI---TKVL-----AEEGKAKAIAFDEIDKAP 107
M T + V +GH GKTTLT A+ T EEG D P
Sbjct: 1 MGTEGGAMIR-TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTT------TTDYTP 53
Query: 108 EEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMP 167
E K T+ T +D PG+ D+V + D ++ VSA G
Sbjct: 54 EAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQV 113
Query: 168 QTKEHILLARQVGVPSLVCFLNK------------------------------------- 190
T+ +A ++G+P + + K
Sbjct: 114 GTERAWTVAERLGLPRM-VVVTKLDKGGDYYALLEDLRSTLGPILPIDLPLYEGGKWVGL 172
Query: 191 VDLVE----------------DEELLELVEMELR------------ELLSFYKFPGDEIP 222
+D+ E E V+ R LL Y G+E+
Sbjct: 173 IDVFHGKAYRYENGEEREAEVPPEERERVQ-RFRQEVLEAIVETDEGLLEKY-LEGEEVT 230
Query: 223 I------IR-------------GSATSALQGKNEEIGKKAILKLMDAVDEYIPDP-ERQL 262
S + +L L++ + E +P P ER
Sbjct: 231 GEALEKAFHEAVRRGLLYPVALASGE-----RE-----IGVLPLLELILEALPSPTERFG 280
Query: 263 DKPFLMPIEDVFSIQG---RGTVATGRVEQGTIKVGEEV 298
D P L VF +Q G VA R+ +G +K G+ +
Sbjct: 281 DGPPLAK---VFKVQVDPFMGQVAYLRLYRGRLKPGDSL 316
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 56.6 bits (137), Expect = 8e-09
Identities = 45/152 (29%), Positives = 74/152 (48%), Gaps = 23/152 (15%)
Query: 71 IGHVDHGKTTLT-------AAITKVLAEEGKAKAIA------FDEIDKAPEEKKRGITIA 117
I H D GKTTLT AI LA K++ A + E+ EK+RGI++
Sbjct: 19 ISHPDAGKTTLTEKLLLFGGAIQ--LAGTIKSRKAARHATSDWMEL-----EKQRGISVT 71
Query: 118 TAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLAR 177
T+ +++ +D PGHAD+ ++ +D ++V+ A G P+T + + + R
Sbjct: 72 TSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCR 131
Query: 178 QVGVPSLVCFLNKVDLVEDE--ELLELVEMEL 207
P ++ F+NK+D ELL+ +E L
Sbjct: 132 LRHTP-IMTFINKMDRDTRPSIELLDEIESIL 162
>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like
domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus}
PDB: 2ywf_A* 2ywg_A* 2ywh_A*
Length = 600
Score = 56.7 bits (138), Expect = 9e-09
Identities = 77/288 (26%), Positives = 128/288 (44%), Gaps = 52/288 (18%)
Query: 71 IGHVDHGKTTLTAA-----ITKVLAEEGKAKAIAFDEIDKAPEEKKRGITI--ATAHVEY 123
I HVDHGK+TL A T ++E + + D +D E++RGIT+ + Y
Sbjct: 12 IAHVDHGKSTL--ADRLLEYTGAISER-EKREQLLDTLDV---ERERGITVKMQAVRMFY 65
Query: 124 ETAK--RHYA--HVDCPGHADY---VKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLA 176
AK Y +D PGH D+ V + A +G +L++ A G QT + A
Sbjct: 66 -KAKDGNTYKLHLIDTPGHVDFSYEVSRAL---AACEGALLLIDASQGIEAQTVANFWKA 121
Query: 177 RQVG---VPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQ 233
+ +P +NK+DL + ++ V+ ++ E+L +E + SA +
Sbjct: 122 VEQDLVIIP----VINKIDLPSAD--VDRVKKQIEEVLG---LDPEEAILA-----SAKE 167
Query: 234 GKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIK 293
G I ++++A+ IP P+ KP I D + RG VA R+ G +K
Sbjct: 168 GIG-------IEEILEAIVNRIPPPKGDPQKPLKALIFDSYYDPYRGAVAFVRIFDGEVK 220
Query: 294 VGEEVEVLGLTQGPSLKTTVTGVEMFKKI-LDRGEAGDNVGLLLRGLK 340
G+++ ++ G + T G + K D+ AGD VG + +K
Sbjct: 221 PGDKIMLMS--TGKEYEVTEVGAQTPKMTKFDKLSAGD-VGYIAASIK 265
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 56.3 bits (137), Expect = 1e-08
Identities = 73/285 (25%), Positives = 127/285 (44%), Gaps = 46/285 (16%)
Query: 71 IGHVDHGKTTLTAA-----ITKVLAEEGKAKAIAFDEIDKAPEEKKRGITI--ATAHVEY 123
I H+DHGK+TL + I L++ + +A D +D E++RGITI + ++Y
Sbjct: 10 IAHIDHGKSTL--SDRIIQICGGLSDR-EMEAQVLDSMDL---ERERGITIKAQSVTLDY 63
Query: 124 ETAK--RHYA--HVDCPGHADY---VKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLA 176
A Y +D PGH D+ V + A +G +LVV A G QT + A
Sbjct: 64 -KASDGETYQLNFIDTPGHVDFSYEVSRSL---AACEGALLVVDAGQGVEAQTLANCYTA 119
Query: 177 RQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN 236
++ + +V LNK+DL + E V E+ +++ + SA G
Sbjct: 120 MEMDL-EVVPVLNKIDLPAAD--PERVAEEIEDIVG---IDATDAVRC-----SAKTGVG 168
Query: 237 EEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGE 296
+ +++ + IP PE + P I D + G V+ R++ GT++ G+
Sbjct: 169 -------VQDVLERLVRDIPPPEGDPEGPLQALIIDSWFDNYLGVVSLIRIKNGTLRKGD 221
Query: 297 EVEVLGLTQGPSLKTTVTGVEMFKKI-LDRGEAGDNVGLLLRGLK 340
+V+V+ G + G+ K++ + G+ VG L+ +K
Sbjct: 222 KVKVMS--TGQTYNADRLGIFTPKQVDRTELKCGE-VGWLVCAIK 263
>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET:
GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W*
3zvo_Y* 3uoq_W*
Length = 529
Score = 55.5 bits (134), Expect = 2e-08
Identities = 43/152 (28%), Positives = 72/152 (47%), Gaps = 23/152 (15%)
Query: 71 IGHVDHGKTTLT-------AAITKVLAEEGKAKAIA------FDEIDKAPEEKKRGITIA 117
I H D GKTT+T AI A K + + E+ EK+RGI+I
Sbjct: 19 ISHPDAGKTTITEKVLLFGQAIQ--TAGTVKGRGSNQHAKSDWMEM-----EKQRGISIT 71
Query: 118 TAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLAR 177
T+ +++ +D PGH D+ ++ +D ++V+ A G +T++ + + R
Sbjct: 72 TSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTR 131
Query: 178 QVGVPSLVCFLNKVDLVEDE--ELLELVEMEL 207
P ++ F+NK+D + ELL+ VE EL
Sbjct: 132 LRDTP-ILTFMNKLDRDIRDPMELLDEVENEL 162
>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 = 47.0 bits (111), Expect = 1e-05
Identities = 36/265 (13%), Positives = 75/265 (28%), Gaps = 90/265 (33%)
Query: 4 VVLRNPNSKRIVPFSSQIYSCCRGSLSISDAFSANETSATRCGPSVNPWWRSMATFTRTK 63
+V+ NP + + F + I + +SA G T
Sbjct: 1664 IVINNPVNL-TIHFGGE------KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 64 LHVNVGTIGHVDHGKTTLTA-----------AITKVLAEEG------------------- 93
T + G + T A + L +G
Sbjct: 1717 Y-----TFRS-EKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAAL 1770
Query: 94 --KAKAIAF-DEIDKAPEEKKRGITIATAHVEYETAKRHYAHVDC-PG------HADYVK 143
A ++ ++ RG+T+ A E + +Y + PG + ++
Sbjct: 1771 ASLADVMSIESLVEVV---FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ 1827
Query: 144 NMITGAAQMDGGIL-----------VVSAPDGPMPQTKEHILLARQVGVPSLVCFLN--- 189
++ + G ++ V+A G + ++ LN
Sbjct: 1828 YVVERVGKRTGWLVEIVNYNVENQQYVAA--G----DLR--------ALDTVTNVLNFIK 1873
Query: 190 --KVDLVEDEELLELVEME-LRELL 211
K+D++ EL + + +E + L
Sbjct: 1874 LQKIDII---ELQKSLSLEEVEGHL 1895
Score = 40.0 bits (93), Expect = 0.002
Identities = 62/447 (13%), Positives = 121/447 (27%), Gaps = 166/447 (37%)
Query: 8 NPNSKRIVPFS-SQIYSCCRGSLSIS---------------DAFSANETSATRCG----- 46
+ S R P + S GSL + F+ T
Sbjct: 2 DAYSTR--PLTLSH------GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDE 53
Query: 47 PSVNPWWRSMATFTRTKLHVNVGTIGHVDH----GKTTLTAAITKVLAEE-------GK- 94
P+ + F +G+V K + + E G
Sbjct: 54 PTTPA--ELVGKF-----------LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 95 --AKAIAFDEIDKAPEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQM 152
A A + + K + + I Y TA+
Sbjct: 101 IHALAAKLLQENDTTLVKTKEL-IKN----YITARIMAKRPFDKKSNS------------ 143
Query: 153 DGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLS 212
L + +G + + Q G ++ E ELR+L
Sbjct: 144 ---ALFRAVGEG---NAQLVAIFGGQ-GNT--------------DDYFE----ELRDLYQ 178
Query: 213 FYK-FPGDEIPIIRGSATSALQG--KNEEIGKKAILKLMDAVDEYIPDPERQLDKPFL-- 267
Y GD +I+ + L + +K + ++ + E++ +P DK +L
Sbjct: 179 TYHVLVGD---LIK-FSAETLSELIRTTLDAEKVFTQGLN-ILEWLENPSNTPDKDYLLS 233
Query: 268 ----MPIEDVFSIQGRGTVATGRVE-----------QGTIKVGEEVEV-LGLTQGPS--- 308
P+ + IQ V T ++ +G + + + + + S
Sbjct: 234 IPISCPL--IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES 291
Query: 309 ----LKTTVT-----GVE-------------MFKKILDRGEAGDNVG-----LLLRGLKR 341
++ +T GV + + L+ E G L + L +
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE-----GVPSPMLSISNLTQ 346
Query: 342 EDVQRGQVIAKPGSVKTYKKFEAEIYV 368
E VQ + K ++ ++ +
Sbjct: 347 EQVQD--YVNK---TNSHLPAGKQVEI 368
Score = 40.0 bits (93), Expect = 0.002
Identities = 44/325 (13%), Positives = 90/325 (27%), Gaps = 122/325 (37%)
Query: 95 AKAIAFDEIDKAPEEKKRGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDG 154
A+ + ++ D ++ G +I + H +N
Sbjct: 1642 AQDV-WNRADNHFKDTY-GFSIL--DIVINNPVNLTIHFGGEKGKRIRENYSA------- 1690
Query: 155 GILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFY 214
++ + DG ++ E++ + E+ E + Y
Sbjct: 1691 -MIFETIVDGK----------------------------LKTEKIFK----EINEHSTSY 1717
Query: 215 KFPGDEI---------PIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKP 265
F ++ P + + KA + + + IP D
Sbjct: 1718 TFRSEKGLLSATQFTQPAL--TLME-----------KAAFEDLKS-KGLIPA-----DAT 1758
Query: 266 F----------------LMPIEDVFSI-QGRG---TVATGRVEQGTIKVGEEVEVLGLTQ 305
F +M IE + + RG VA R E G G ++ +
Sbjct: 1759 FAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG----MIAI-- 1812
Query: 306 GPSLKTTVTGVEMFKKILDR-----GE----------------AGDNVGL--LLRGLKRE 342
P E + +++R G AGD L + L
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFI 1872
Query: 343 DVQRGQVIAKPGSVKTYKKFEAEIY 367
+Q+ +I S+ + ++ E ++
Sbjct: 1873 KLQKIDIIELQKSL-SLEEVEGHLF 1896
Score = 37.3 bits (86), Expect = 0.011
Identities = 29/167 (17%), Positives = 56/167 (33%), Gaps = 54/167 (32%)
Query: 7 RNPNSKRIVPFSSQIYSCCRGSLSISDAF------SANETSATRCGPSVNPWWRSMATFT 60
R P S+R + FS++ L ++ F A++ ++ +F
Sbjct: 406 RIPFSERKLKFSNRF-------LPVASPFHSHLLVPASDLINKDL-------VKNNVSFN 451
Query: 61 RTKLHVNVGTIGHVDHGKT--TLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIAT 118
+ + V G L+ +I++ + + I
Sbjct: 452 AKDIQIPV---YDTFDGSDLRVLSGSISERIVDC-----------------------IIR 485
Query: 119 AHVEYETAKRHYA-HV-DC-PGHADYVKNMITGAAQMDG-GILVVSA 161
V++ET + A H+ D PG A + + DG G+ V+ A
Sbjct: 486 LPVKWETTTQFKATHILDFGPGGASGLGVLT--HRNKDGTGVRVIVA 530
Score = 35.4 bits (81), Expect = 0.043
Identities = 49/306 (16%), Positives = 94/306 (30%), Gaps = 96/306 (31%)
Query: 167 PQTKEHILLARQVGVPSLVCFLNKV-DLVEDEELLELVEMELRELLSFYKFPGDEIPIIR 225
P T L+ + FL V LVE ++ + ++ L L+ F E +
Sbjct: 54 PTTPAE-LVGK---------FLGYVSSLVEPSKVGQFDQV-LNLCLTE--F---ENCYLE 97
Query: 226 G----SATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVF---SIQG 278
G + + L +N+ ++K + + YI +PF +G
Sbjct: 98 GNDIHALAAKLLQEND----TTLVKTKELIKNYI-TARIMAKRPFDKKSNSALFRAVGEG 152
Query: 279 RGTVAT---GRVEQGTIKVG-EEVEVLGLTQGPSLKTTVTGV-EMFKKILDRGEAGDNVG 333
+ G QG EE+ L T + + E +++ D
Sbjct: 153 NAQLVAIFGG---QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR--TTLDAEK 207
Query: 334 LLLRGLKREDVQRGQVIAKPGSVKTYKKFEAEIYVLTKDEGGRHTAFFSNYRPQI----- 388
+ +GL ++ + + P + + Y+L+ S P I
Sbjct: 208 VFTQGL---NIL--EWLENPSNTP------DKDYLLS--------IPIS--CPLIGVIQL 246
Query: 389 --YLRTADVTGKVELLGDVKMVMPGDNVNAAFELISPLPLQQGQRFALREGGRTVGAGVV 446
Y+ TA + G +P G+ + +G G+V
Sbjct: 247 AHYVVTAKLLG-----------------------FTP-----GELRSYLKGATGHSQGLV 278
Query: 447 S-KVIS 451
+ I+
Sbjct: 279 TAVAIA 284
Score = 33.1 bits (75), Expect = 0.23
Identities = 43/288 (14%), Positives = 80/288 (27%), Gaps = 106/288 (36%)
Query: 75 DHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVEYETAKRHYAHVD 134
+H K T +I ++ I F EK + I + + +ET VD
Sbjct: 1651 NHFKDTYGFSILDIVINNPVNLTIHFG------GEKGKRIRENYSAMIFETI------VD 1698
Query: 135 CPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEH----ILLA--------RQVG-V 181
+ + I + + G + T + + L + G +
Sbjct: 1699 GKLKTEKIFKEINEHST----SYTFRSEKGLLSAT-QFTQPALTLMEKAAFEDLKSKGLI 1753
Query: 182 PS--------------LVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGS 227
P+ L + + + E L+E+V FY RG
Sbjct: 1754 PADATFAGHSLGEYAALASLADVMSI---ESLVEVV---------FY----------RGM 1791
Query: 228 ATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRV 287
+E+G+ M A+ +P R E + + V
Sbjct: 1792 TMQVA-VPRDELGRSNY--GMIAI-----NPGRVAAS---FSQEALQYV----------V 1830
Query: 288 EQGTIKVGEEVE-----------VLGLTQGPSLKTTVTGVEMFKKILD 324
E+ + G VE V G + ++ +L+
Sbjct: 1831 ERVGKRTGWLVEIVNYNVENQQYVAA---G-----DLRALDTVTNVLN 1870
>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 = 44.7 bits (107), Expect = 3e-05
Identities = 26/109 (23%), Positives = 48/109 (44%), Gaps = 31/109 (28%)
Query: 171 EHIL-LARQVGVPSLVCFLNKVDLVED-EELLELVEMELRELLSFYKFPGDEI-PIIRGS 227
E +L R+ P ++ +NKVD V++ +LL ++ L ++F +I PI
Sbjct: 106 EMVLNKLREGKAPVILA-VNKVDNVQEKADLLPHLQ-FLASQMNF-----LDIVPI---- 154
Query: 228 ATSALQGKNEEIGKKAILKLMDAVDEYIPD-----PERQL-DKP--FLM 268
SA G N + + V +++P+ PE + D+ F+
Sbjct: 155 --SAETGLN-------VDTIAAIVRKHLPEATHHFPEDYITDRSQRFMA 194
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 44.6 bits (106), Expect = 4e-05
Identities = 32/180 (17%), Positives = 70/180 (38%), Gaps = 32/180 (17%)
Query: 156 ILVVSAPDGPMPQTKEHIL-LARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFY 214
ILV + P ++ ++ L +++ +P +V +NK+D++ ++ E L
Sbjct: 118 ILVTDSAPTP---YEDDVVNLFKEMEIPFVVV-VNKIDVLGEKA----------EELKGL 163
Query: 215 KFPGDEIPIIRGSATSALQGKN-EEIGKKAILKLMDAVDEYIPDPERQLDKPFLMPIEDV 273
E ++ SALQ K ++I K I +++ +E + ++ + +
Sbjct: 164 YESRYEAKVL---LVSALQKKGFDDI-GKTISEILPGDEEIPYLGDLIDGGDLVILVVPI 219
Query: 274 FSIQGRGTVATGRVEQ--------GTIKVGEEVE---VLGLTQGPSLKTTVTGVEMFKKI 322
+G + +V V +E E V+ G K +T ++ K+
Sbjct: 220 DLGAPKGRLIMPQVHAIREALDREAIALVVKERELRYVME-NIGMKPKLVITDSQVAMKV 278
>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 = 44.0 bits (105), Expect = 5e-05
Identities = 26/123 (21%), Positives = 53/123 (43%), Gaps = 28/123 (22%)
Query: 156 ILVVSAPDGPMPQTKEHIL--LARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSF 213
+ ++ A +G P+ E I + + P +V +NK+D + + + + E+ +
Sbjct: 97 LFMIDATEGWRPR-DEEIYQNFIKPLNKPVIVV-INKIDKIGPAKNVLPLIDEIHKKHPE 154
Query: 214 YKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPD-----PERQL-DKP-- 265
+ +PI SAL+G N + +L+ + +Y+P+ PE + D P
Sbjct: 155 LT---EIVPI------SALKGAN-------LDELVKTILKYLPEGEPLFPEDMITDLPLR 198
Query: 266 FLM 268
L
Sbjct: 199 LLA 201
>1dar_A EF-G, elongation factor G; ribosomal translocase, translational
GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A
2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A*
1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A*
3izp_E 1zn0_B 1jqs_C 2bcw_C ...
Length = 691
Score = 44.0 bits (105), Expect = 8e-05
Identities = 49/159 (30%), Positives = 67/159 (42%), Gaps = 41/159 (25%)
Query: 56 MATFTRTKLHV--NVGTIGHVDHGKTTLTAAI---TKV---LAE--EGKAKAIAFDEIDK 105
MA L N+G H+D GKTT T I T + E EG A +D
Sbjct: 1 MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAA------TMDF 54
Query: 106 APEEKKRGITIATAHVEYETA--KRHYAHV-DCPGHADY---------VKNMITGAAQMD 153
+E++RGITI A T K H ++ D PGH D+ V +D
Sbjct: 55 MEQERERGITITAAVT---TCFWKDHRINIIDTPGHVDFTIEVERSMRV---------LD 102
Query: 154 GGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVD 192
G I+V + G PQ++ A + VP + F NK+D
Sbjct: 103 GAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMD 140
Score = 27.8 bits (63), Expect = 8.9
Identities = 26/85 (30%), Positives = 34/85 (40%), Gaps = 25/85 (29%)
Query: 193 LVE-----DEELL-------ELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIG 240
LVE DE ++ E E EL + P+ GSA KN
Sbjct: 216 LVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSAL-----KN---- 266
Query: 241 KKAILKLMDAVDEYIPDPERQLDKP 265
K + L+DAV +Y+P P LD P
Sbjct: 267 -KGVQLLLDAVVDYLPSP---LDIP 287
>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 = 44.1 bits (103), Expect = 1e-04
Identities = 61/421 (14%), Positives = 127/421 (30%), Gaps = 143/421 (33%)
Query: 4 VVLRNPNSKRIVPFSSQIYSCCRGSLSISDAFSANETSATRCGPSVNPWWRSMATFTRTK 63
+VL N + + +AF+ C + + T TR K
Sbjct: 248 LVLLNVQNAKAW-----------------NAFN------LSC--------KILLT-TRFK 275
Query: 64 ---LHVNVGTIGHV--DHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRG----I 114
++ T H+ DH TLT K L K + P E +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLL----LKYLDCR-PQDLPREVLTTNPRRL 330
Query: 115 TIATAHVEYETAKR--HYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEH 172
+I + + ++ HV+C D + +I + + V+ + ++
Sbjct: 331 SIIAESIR-DGLATWDNWKHVNC----DKLTTII------ESSLNVLEPAE-----YRKM 374
Query: 173 -ILLA---RQVGVPSLVCFLNKV--DLVEDEELLELVEMELRELLSFYKFPGD-EIPIIR 225
L+ +P+++ L+ + D+++ + ++ + ++ L+ IP I
Sbjct: 375 FDRLSVFPPSAHIPTIL--LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI- 431
Query: 226 GSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDKP-FLMPIED--VFSIQGRGTV 282
L+ K E + A+ + + VD Y + + D + P D +S G
Sbjct: 432 ---YLELKVKLEN--EYALHRSI--VDHY--NIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482
Query: 283 ATGRVEQGTIKVGEEVEVLGLTQGPSLKTTVTGVEMFKKI-LDRGEAGDNVGLLLRGLKR 341
E+ + +F+ + LD R L++
Sbjct: 483 NIEHPER--------------------------MTLFRMVFLD-----------FRFLEQ 505
Query: 342 EDVQRGQVIAKPGSV-------KTYKKFEAEIYVLTKDEGGRHTA------FFSNYRPQI 388
+ GS+ K YK + + ++ F +
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPY------ICDNDPKYERLVNAILDFLPKIEENL 559
Query: 389 Y 389
Sbjct: 560 I 560
Score = 38.3 bits (88), Expect = 0.006
Identities = 43/307 (14%), Positives = 91/307 (29%), Gaps = 88/307 (28%)
Query: 120 HVEYETAKRHYAH--------------VDCPGHADYVKNMITGAAQMDGGILVVSAPDGP 165
H+++ET + Y + DC D K++++ ++D ++ + D
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS-KEEIDH---IIMSKD-A 60
Query: 166 MPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIR 225
+ T + F+ +V + + L+ ++ E R+ P +
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ-------PSMMTRMYI 113
Query: 226 GSATSALQGKNEEIGK------KAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGR 279
L N+ K + LKL A+ E L P ++V I G
Sbjct: 114 -EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE-------------LRPAKNVL-IDGV 158
Query: 280 G----------TVATGRVEQGT------IKVG---EEVEVLGLTQ------GPSLKTTVT 314
+ +V+ + + VL + Q P+ +
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 315 GVEMFKKILDRGEAGDNVGLLLRGLKR-----EDVQRGQVIAKPGSVKTYKKFE--AEIY 367
K + +A L + + +VQ + F +I
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW---------NAFNLSCKIL 269
Query: 368 VLTKDEG 374
+ T+ +
Sbjct: 270 LTTRFKQ 276
Score = 36.8 bits (84), Expect = 0.017
Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 13/61 (21%)
Query: 204 EMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLD 263
E + +L F P E +I T L+ + LM + + +Q+
Sbjct: 542 ERLVNAILDF--LPKIEENLICSKYTDLLR-----------IALMAEDEAIFEEAHKQVQ 588
Query: 264 K 264
+
Sbjct: 589 R 589
>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with
oligonucleotide binding fold, central GTP binding
domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5
c.37.1.8
Length = 307
Score = 42.6 bits (101), Expect = 2e-04
Identities = 20/112 (17%), Positives = 40/112 (35%), Gaps = 23/112 (20%)
Query: 143 KNMIT--GAAQMDGGILVVSAPDGPMPQTKEHIL-----LARQVGVPSLVCFLNKVDLVE 195
N + +D +LV SA P +L L + ++C K+DL+E
Sbjct: 76 TNELIRPPICNVDQAVLVFSAVQ---PSFSTALLDRFLVLVEANDIQPIICI-TKMDLIE 131
Query: 196 DEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN-EEIGKKAILK 246
D++ + ++ Y+ G + TS+ + +I +
Sbjct: 132 DQDTEDTIQ----AYAEDYRNIG--YDVYL---TSSKDQDSLADI--IPHFQ 172
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 42.1 bits (100), Expect = 3e-04
Identities = 49/157 (31%), Positives = 71/157 (45%), Gaps = 39/157 (24%)
Query: 56 MATFTRTKLHVNVGTIGHVDHGKTTLTAAI---TKV---LAE--EGKAKAIAFDEIDKAP 107
MA + N+G + H+D GKTT T I T + E EG + ++D
Sbjct: 1 MAREFSLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGAS------QMDWME 54
Query: 108 EEKKRGITIATAHVEYETA--KRHYAHV-DCPGHADY---------VKNMITGAAQMDGG 155
+E+ RGITI +A TA + H ++ D PGH D+ V +DG
Sbjct: 55 QEQDRGITITSAAT---TAAWEGHRVNIIDTPGHVDFTVEVERSLRV---------LDGA 102
Query: 156 ILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVD 192
+ V+ A G PQT+ A GVP + F+NK+D
Sbjct: 103 VTVLDAQSGVEPQTETVWRQATTYGVPRI-VFVNKMD 138
Score = 27.8 bits (63), Expect = 8.9
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 25/85 (29%)
Query: 193 LVE-----DEELL-------ELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIG 240
L+E +EL+ E+ EL+E + + P++ G+A KN
Sbjct: 214 LIEAVAETSDELMEKYLGDEEISVSELKEAIRQATTNVEFYPVLCGTAF-----KN---- 264
Query: 241 KKAILKLMDAVDEYIPDPERQLDKP 265
K + ++DAV +Y+P P LD
Sbjct: 265 -KGVQLMLDAVIDYLPSP---LDVK 285
>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
50S subunit, cryo-EM, REAL-space refinement,
ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
Length = 704
Score = 42.1 bits (100), Expect = 3e-04
Identities = 50/161 (31%), Positives = 72/161 (44%), Gaps = 40/161 (24%)
Query: 56 MATFTRTKLHVNVGTIGHVDHGKTTLTAAI---TKV---LAE--EGKAKAIAFDEIDKAP 107
MA T + N+G H+D GKTT T I T V + E +G A +D
Sbjct: 1 MARTTPIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAA------TMDWME 54
Query: 108 EEKKRGITI---ATAHVEYETAKRHYAH----VDCPGHADY---------VKNMITGAAQ 151
+E++RGITI AT AK++ H +D PGH D+ V
Sbjct: 55 QEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRV--------- 105
Query: 152 MDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVD 192
+DG ++V A G PQ++ A + VP + F+NK+D
Sbjct: 106 LDGAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKMD 145
>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding,
hydrolase, nucleotide-binding; HET: GDP; 2.25A
{Salmonella typhimurium} PDB: 2ykr_W 4a2i_V
Length = 358
Score = 41.1 bits (97), Expect = 5e-04
Identities = 19/97 (19%), Positives = 39/97 (40%), Gaps = 22/97 (22%)
Query: 156 ILVVSAPDGPMPQTKEHIL-----LARQVGVPSLVCFLNKVDLVEDEELLELVEMELREL 210
I++VSA P+ +I+ + V L+ NK+DL++DE + + E
Sbjct: 134 IVIVSAIL---PELSLNIIDRYLVGCETLQVEPLIVL-NKIDLLDDEGM-----DFVNEQ 184
Query: 211 LSFYKFPGDEIPIIRGSATSALQGKN-EEIGKKAILK 246
+ Y+ G ++ S+ + + + L
Sbjct: 185 MDIYRNIG--YRVLM---VSSHTQDGLKPL--EEALT 214
>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}
Length = 302
Score = 39.9 bits (94), Expect = 0.001
Identities = 26/112 (23%), Positives = 49/112 (43%), Gaps = 24/112 (21%)
Query: 143 KNMIT--GAAQMDGGILVVSAPDGPMPQTKEHIL-----LARQVGVPSLVCFLNKVDLVE 195
KN++ A +D I+V + P+ ++L + V ++ F NK+DL+
Sbjct: 69 KNLLIRPKVANVDRVIIVETLKM---PEFNNYLLDNMLVVYEYFKVEPVIVF-NKIDLLN 124
Query: 196 DEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN-EEIGKKAILK 246
+EE EL +S Y+ G +++ SA G+ +E+ L+
Sbjct: 125 EEEK-----KELERWISIYRDAG--YDVLK---VSAKTGEGIDEL--VDYLE 164
>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 = 38.8 bits (90), Expect = 0.001
Identities = 32/184 (17%), Positives = 55/184 (29%), Gaps = 31/184 (16%)
Query: 77 GKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVEYETAKR----HYAH 132
GK++ I KV+ + F +T + + ++
Sbjct: 32 GKSS----IQKVVFHKMSPNETLF--------------LESTNKIYKDDISNSSFVNFQI 73
Query: 133 VDCPGHADYVKNMITGAA---QMDGGILVVSAPDGPMPQTKEH---ILLARQV--GVPSL 184
D PG D+ I V+ A D M + A +V +
Sbjct: 74 WDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMN-F 132
Query: 185 VCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAI 244
F++KVD + D+ +E + G E + TS E K +
Sbjct: 133 EVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVV 192
Query: 245 LKLM 248
KL+
Sbjct: 193 QKLI 196
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 38.4 bits (88), Expect = 0.005
Identities = 29/258 (11%), Positives = 71/258 (27%), Gaps = 70/258 (27%)
Query: 65 HVNVGTIGHVDHGKTTL-----------------TAAITKVL-AEEGKAKAIAFD----- 101
+ +G + GK+T TA +T + E K D
Sbjct: 69 VFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQ 128
Query: 102 -------------------EIDKAPEEKKRGITIATAHVEYETAKRHYAHVDCPG----- 137
++++ ++ + A ++ VD PG
Sbjct: 129 QLDFQNFKYKYTIDPAEAKKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTE 188
Query: 138 -HADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVED 196
+ + + V+ A + ++ + ++ +N D V +
Sbjct: 189 ARNELSLGYVNNC---HAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRE 245
Query: 197 EE---------------LLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGK----NE 237
L ++ L E + + + S+ AL+ +
Sbjct: 246 SLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQA 305
Query: 238 EIGKKAILKLMDAVDEYI 255
++ K MD+++ ++
Sbjct: 306 DLDGTGFPKFMDSLNTFL 323
>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem
G-domains, ligand binding protein; HET: GDP; 1.90A
{Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1
Length = 439
Score = 37.9 bits (89), Expect = 0.006
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 15/72 (20%)
Query: 183 SLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGK 241
+ V NK DLV E+ + RE L F + P+I TSA +G N
Sbjct: 294 ASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDY----SPLI---FTSADKGWN----- 341
Query: 242 KAILKLMDAVDE 253
I +++DA++
Sbjct: 342 --IDRMIDAMNL 351
>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural
genomics, BSGC structure funded by NIH, protein
structure initiative, PSI; HET: GDP; 2.80A {Thermotoga
maritima} SCOP: b.40.4.5 c.37.1.8
Length = 301
Score = 37.1 bits (87), Expect = 0.008
Identities = 32/112 (28%), Positives = 53/112 (47%), Gaps = 25/112 (22%)
Query: 143 KNMIT--GAAQMDGGILVVSAPDGPMPQTKEHIL-----LARQVGVPSLVCFLNKVDLVE 195
KN++T A +D ILVV+ P+T +I+ LA + + +++ NK+DL +
Sbjct: 74 KNLLTKPHVANVDQVILVVTVKM---PETSTYIIDKFLVLAEKNELETVMVI-NKMDLYD 129
Query: 196 DEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN-EEIGKKAILK 246
+++L ++REL Y + TSA G EE+ K LK
Sbjct: 130 EDDL-----RKVRELEEIYS------GLYPIVKTSAKTGMGIEEL--KEYLK 168
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A
3kxk_A
Length = 364
Score = 37.2 bits (87), Expect = 0.008
Identities = 23/113 (20%), Positives = 40/113 (35%), Gaps = 23/113 (20%)
Query: 156 ILVVSAPDGPMPQTKEHILLARQV-------GVPSLVCFLNKVDLVEDEELLELVEMELR 208
ILV+ + E + + ++ G P LV NK+D + + +L +E
Sbjct: 262 ILVIDSTF-SENLLIETLQSSFEILREIGVSGKPILVTL-NKIDKINGDLYKKLDLVEKL 319
Query: 209 ELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQ 261
+ D IPI SAL+ N + L D + + +
Sbjct: 320 SKELYSPIF-DVIPI------SALKRTN-------LELLRDKIYQLATQLSLE 358
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 36.5 bits (84), Expect = 0.012
Identities = 32/165 (19%), Positives = 60/165 (36%), Gaps = 22/165 (13%)
Query: 115 TIATAHVEYETAKRHYAHV-----DCPGHADYVKNMITGAAQM-----DGGILVVSAPDG 164
AT VE+ R ++ DC G +++N T I V
Sbjct: 35 LGATIDVEHSH-LRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVEST 93
Query: 165 PMPQTKEH---ILLARQVGVP--SLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGD 219
+ + E L + P + L+K+DLV+ ++ EL ++ ++ L G
Sbjct: 94 EVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFG- 152
Query: 220 EIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDPERQLDK 264
P + G TS KA +++ ++ + + + L K
Sbjct: 153 -FPNLIGFPTSIWDESL----YKAWSQIVCSLIPNMSNHQSNLKK 192
>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 = 36.7 bits (86), Expect = 0.013
Identities = 17/91 (18%), Positives = 29/91 (31%), Gaps = 31/91 (34%)
Query: 188 LNKVDLVEDEELLELVEMELRELLSFYKFPGDEI-PIIRGSATSALQGKNEEIGKKAILK 246
NK+D + E E ++ ELL E + SAL + +
Sbjct: 124 GNKLDAAKYPE--EAMK-AYHELLPE-----AEPRML------SALDERQVA-------E 162
Query: 247 LMDAVDEYIPD-----PERQL--DKP--FLM 268
L + +P+ PE D+ +
Sbjct: 163 LKADLLALMPEGPFFYPEDYAKSDQTFGEWV 193
>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 = 35.5 bits (82), Expect = 0.023
Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 10/80 (12%)
Query: 188 LNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKN-EEIGKKAILK 246
NK+D + L ++ ++++L K P S L G E+ K +
Sbjct: 149 FNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSF------STLTGVGVEQA-KITACE 201
Query: 247 LMDA--VDEYIPDPERQLDK 264
L+ + + D E+ L+
Sbjct: 202 LLKNDQAESILLDQEQLLNT 221
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 35.9 bits (84), Expect = 0.025
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 15/72 (20%)
Query: 183 SLVCFLNKVDLVE-DEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGK 241
++V +NK D V+ DE ++ E +R+ F + PI+ SAL K
Sbjct: 288 AVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDY----APIL---FMSALTKKR----- 335
Query: 242 KAILKLMDAVDE 253
I LM A+ +
Sbjct: 336 --IHTLMPAIIK 345
>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 = 34.5 bits (78), Expect = 0.026
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 19/48 (39%)
Query: 241 KKAILKLMDAVDEYIPDPERQLDKPFLMPIEDVFSIQGRGTVATGRVE 288
K+A+ KL ++ Y D P L +I+ AT +E
Sbjct: 19 KQALKKLQASLKLYADD-----SAPAL-------AIK-----AT--ME 47
>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP
binding, structure function project, S2F, unknown
function; 2.00A {Escherichia coli} SCOP: c.37.1.10
d.237.1.1
Length = 318
Score = 35.6 bits (83), Expect = 0.028
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 146 ITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLE 201
+ +DG I +V A Q + + QVG + L K D+ + E L
Sbjct: 117 LCQRYLLDGVIALVDAVHA-DEQMNQFTIAQSQVGYADRI-LLTKTDVAGEAEKLH 170
>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 = 34.4 bits (80), Expect = 0.062
Identities = 20/98 (20%), Positives = 43/98 (43%), Gaps = 18/98 (18%)
Query: 188 LNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKL 247
LNKVDL+E+E + L + + + ++ SAL G K+A+ L
Sbjct: 276 LNKVDLLEEEAVKALAD----------ALAREGLAVL---PVSALTGAGLPALKEALHAL 322
Query: 248 MDAV---DEYIPDPERQLDKPF-LMPIED-VFSIQGRG 280
+ + + P P +++ ++P+ + V+ ++
Sbjct: 323 VRSTPPPEMPKPVPRKEVQAGVEVVPVAEGVYEVRAPE 360
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 34.3 bits (78), Expect = 0.068
Identities = 25/178 (14%), Positives = 48/178 (26%), Gaps = 45/178 (25%)
Query: 70 TIGHVDHGKTTLTAAITKVLAEEGKAKAIAFD------------------EIDKAPEEKK 111
+G GKTTLT + L + K + D +++ E
Sbjct: 19 FVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMREGY 78
Query: 112 RGITIATAHVEY--------------ETAKRHYAHVDCPG------HADYVKNMITGAAQ 151
+ + Y +D PG ++ +
Sbjct: 79 GPNGAIVESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVR-LMENLP 137
Query: 152 MDGGILVVSAPDGPMPQTKEHILLA-----RQVGVPSLVCFLNKVDLVEDEELLELVE 204
+ + P + ++G + + LNKVDL+ +EE +
Sbjct: 138 YPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATT-IPALNKVDLLSEEEKERHRK 194
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 33.3 bits (76), Expect = 0.17
Identities = 43/215 (20%), Positives = 77/215 (35%), Gaps = 46/215 (21%)
Query: 67 NVGTIGHVDHGKTTLTAAITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVEYETA 126
V GH + GK+TL A+T A EI P + I E
Sbjct: 169 TVVIAGHPNVGKSTLLKALTT-----------AKPEIASYPFTTR---GINVGQFEDG-- 212
Query: 127 KRHYAHVDCPG---HADYVKNMITGAA-----QMDGGILVV---SAPDGPMPQTKEHIL- 174
Y +D PG +N I A + I+ + S G + + H+
Sbjct: 213 YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFE 272
Query: 175 -LARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQ 233
+ + + +NK+D+ ++E + L + + I+ SAL+
Sbjct: 273 EVHGEFKDLPFLVVINKIDVADEENIKRLEKF----------VKEKGLNPIK---ISALK 319
Query: 234 GKN-EEIGKKAILKLMDAVDEYIPD--PERQLDKP 265
G + + K+ I+K + + E + ER+L +
Sbjct: 320 GTGIDLV-KEEIIKTLRPLAEKVAREKIERELRRY 353
>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved
in replication initiation, csgid, IDP90222; HET: DGI;
1.80A {Bacillus anthracis str}
Length = 368
Score = 33.0 bits (75), Expect = 0.20
Identities = 20/116 (17%), Positives = 38/116 (32%), Gaps = 8/116 (6%)
Query: 140 DYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEEL 199
D+++ + + +V D L R VG ++ NK DL+
Sbjct: 58 DFLRILNGIGKSDALVVKIVDIFDFNGSWLPG---LHRFVGNNKVLLVGNKADLIPKSVK 114
Query: 200 LELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYI 255
+ V+ +R +++ SA +G+ AI D Y+
Sbjct: 115 HDKVKHWMRYSAKQLGLKPEDV-----FLISAAKGQGIAELADAIEYYRGGKDVYV 165
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 32.7 bits (74), Expect = 0.21
Identities = 12/81 (14%), Positives = 28/81 (34%), Gaps = 4/81 (4%)
Query: 184 LVCFLNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKA 243
+ ++KVD + ++ ++ ++ G + + TS E +
Sbjct: 109 IEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDHSIYEAFSRI 168
Query: 244 ILKLMDAVDEYIPDPERQLDK 264
+ KL+ + E LD
Sbjct: 169 VQKLIP----ELSFLENMLDN 185
>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 = 32.6 bits (75), Expect = 0.27
Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 13/75 (17%)
Query: 188 LNKVDLVEDEELLELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKL 247
NK+D+ E E LE + +L D+ P+ SA+ + +
Sbjct: 281 ANKMDMPEAAENLEAFKEKL----------TDDYPVF---PISAVTREGLRELLFEVANQ 327
Query: 248 MDAVDEYIPDPERQL 262
++ E+ E +L
Sbjct: 328 LENTPEFPLYDEEEL 342
>3cwq_A Para family chromosome partitioning protein; alpha-beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: ADP; 2.47A {Synechocystis SP}
Length = 209
Score = 31.6 bits (72), Expect = 0.34
Identities = 25/151 (16%), Positives = 46/151 (30%), Gaps = 22/151 (14%)
Query: 77 GKTTLTAAITKVLAEEGKAKAIAFD---------EIDKAPEEKKRGITIATAHVEYETAK 127
GKTT ++ LA +G+ I D + P + A +Y+
Sbjct: 13 GKTTTAVHLSAYLALQGETLLIDGDPNRSATGWGKRGSLPFKVVDERQAAKYAPKYQ--- 69
Query: 128 RHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGP-MPQTKEHILLARQVGVPSLVC 186
+D + + A +++ S PD + I +++G
Sbjct: 70 --NIVIDTQARPE--DEDLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNRFRI 125
Query: 187 FLNKVDLVEDEELLELVEMELRELLSFYKFP 217
L + E R+LL+ P
Sbjct: 126 LLTIIP-----PYPSKDGDEARQLLTTAGLP 151
>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein
COOC; Zn-bound dimer, nickel binding protein, ATPase;
1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A*
3kje_A 3kji_A*
Length = 254
Score = 31.7 bits (72), Expect = 0.37
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 77 GKTTLTAAITKVLAEEGK 94
GKTT+ A + K++A +
Sbjct: 12 GKTTVAAGLIKIMASDYD 29
Score = 27.8 bits (62), Expect = 6.0
Identities = 15/70 (21%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 133 VDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHIL-LARQVGVPSLVCFLNKV 191
+D +++ A M ++ V P+ +T +I LA +G+ + +NKV
Sbjct: 137 MDMGAGIEHLTRGTAKAVDM---MIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKV 193
Query: 192 DLVEDEELLE 201
+++E+L++
Sbjct: 194 RNIKEEKLIK 203
>2cx0_A Hypothetical protein APE0525; PUA domain, structural genomics,
NPPSFA, national project on structural and functional
analyses; 1.80A {Aeropyrum pernix} SCOP: b.122.1.1
d.17.6.4 PDB: 2cx1_A* 1zs7_A
Length = 187
Score = 31.0 bits (70), Expect = 0.50
Identities = 11/93 (11%), Positives = 24/93 (25%), Gaps = 18/93 (19%)
Query: 47 PSVNPWWRSMATFTRTKLHVNVGTIGHVDHGKTTLTAAITKV-----------LAEEGKA 95
P++ + + + V+ G + G + + V
Sbjct: 78 PTLQCLKAFGVDWLKGVVLVDKGAAIALAKGAHLMIPGVVGVEGSFTRGDVVAALYHETR 137
Query: 96 KAIA-------FDEIDKAPEEKKRGITIATAHV 121
+ ++K EK RG + H
Sbjct: 138 TPVMVGVAEVDSSALEKLYREKARGRAVRRVHR 170
>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 = 31.3 bits (72), Expect = 0.62
Identities = 20/95 (21%), Positives = 42/95 (44%), Gaps = 18/95 (18%)
Query: 156 ILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYK 215
+L + A G +E + + P ++ +NK+DLVE + + L +
Sbjct: 308 LLTIDAATGWTTGDQE--IYEQVKHRPLILV-MNKIDLVEKQLITSL------------E 352
Query: 216 FPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDA 250
+P + I+ T+A Q + + + AIL+++
Sbjct: 353 YPENITQIVH---TAAAQKQGIDSLETAILEIVQT 384
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 31.1 bits (70), Expect = 0.77
Identities = 17/116 (14%), Positives = 35/116 (30%), Gaps = 8/116 (6%)
Query: 140 DYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEEL 199
D++ + + +V D L R ++ NK DL+
Sbjct: 60 DFLSMLHRIGESKALVVNIVDIFDFNGSFIPG---LPRFAADNPILLVGNKADLLPRSVK 116
Query: 200 LELVEMELRELLSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYI 255
+ +R + + + SA +G +AI + + D Y+
Sbjct: 117 YPKLLRWMRRMAEELG-----LCPVDVCLVSAAKGIGMAKVMEAINRYREGGDVYV 167
>2jm3_A Hypothetical protein; zinc finger, domain, metal binding protein;
NMR {Caenorhabditis elegans}
Length = 91
Score = 28.6 bits (63), Expect = 1.1
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 211 LSFYKFPGDEIPIIRGSATSALQGKNEEIGKKAIL-----KLMDAVDEYIPDPERQLDKP 265
FY+ P I+R +A+ E + + + + + + IP P+ +DK
Sbjct: 25 RHFYRIPKRP-LILRQRWLTAIGRTEETVVSQLRICSAHFEGGEKKEGDIPVPDPTVDKQ 83
Query: 266 FLMPI 270
+ +
Sbjct: 84 IKIEL 88
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 30.5 bits (68), Expect = 1.1
Identities = 13/87 (14%), Positives = 29/87 (33%), Gaps = 11/87 (12%)
Query: 128 RHYAHVDCPGHADYVKNMITGAAQMDGG----------ILVVSAPDGP-MPQTKEHILLA 176
+ +D PG K ++ I+++ + + A
Sbjct: 154 ESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGA 213
Query: 177 RQVGVPSLVCFLNKVDLVEDEELLELV 203
+ + LNK D+VE ++L+ +
Sbjct: 214 LRGHEDKIRVVLNKADMVETQQLMRVY 240
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 29.2 bits (65), Expect = 1.7
Identities = 32/162 (19%), Positives = 52/162 (32%), Gaps = 24/162 (14%)
Query: 68 VGTIGHVDHGKTTLTAAITKVLAEEGK----AKAIAFDEIDKAPEEK------KRGITIA 117
+ +G D GKTTL + +L E G K A + + E K G +
Sbjct: 5 LSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHGDFEIDKEGKDSWKIYNSGADVV 64
Query: 118 TAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQM--DGG-------ILVVSAPDGPMPQ 168
A R + + + ++ + +G I+VV P+
Sbjct: 65 IASPVKLAFIRRVSEEEGNDLDWIYERYLSDYDLVITEGFSKAGKDRIVVVKKPEEVEHF 124
Query: 169 TKEHIL-LARQVGVPSLVCFLNKVDLVEDEELLELVEMELRE 209
+ IL + V F E E + E + LRE
Sbjct: 125 RQGRILAVVCDERVDGHKWF----RRDEVERIAEFILSLLRE 162
>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 = 29.4 bits (67), Expect = 2.6
Identities = 24/112 (21%), Positives = 44/112 (39%), Gaps = 21/112 (18%)
Query: 156 ILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYK 215
+ V+ A + ++ +L R LV +NKVD+VE E+
Sbjct: 328 LFVLDASSPLDEEDRK--ILERIKNKRYLVV-INKVDVVEKINEEEIKNKL--------- 375
Query: 216 FPGDEIPIIRGSATSALQGKNEEIGKKAILKLMDAVDEYIPDP----ERQLD 263
G + +++ SAL+G+ E +++I + + E D RQ
Sbjct: 376 --GTDRHMVK---ISALKGEGLEKLEESIYRETQEIFERGSDSLITNLRQKQ 422
>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 = 28.7 bits (65), Expect = 2.7
Identities = 15/96 (15%), Positives = 31/96 (32%), Gaps = 21/96 (21%)
Query: 156 ILVV---SAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLS 212
+L + + D P +AR + NK D+ + + V
Sbjct: 87 VLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGETLGMSEV--------- 137
Query: 213 FYKFPGDEIPIIRGSATSALQGKNEEIGKKAILKLM 248
+ +IR SA G+ ++ + + + M
Sbjct: 138 ------NGHALIR---LSARTGEGVDVLRNHLKQSM 164
>3c48_A Predicted glycosyltransferases; retaining glycosyltransferase, beta
alpha beta, substrate AS catalysis; 2.10A
{Corynebacterium glutamicum} PDB: 3c4v_A* 3c4q_A*
Length = 438
Score = 28.8 bits (65), Expect = 4.2
Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 156 ILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLEL 202
+++ P GP + +A ++GV + FL+ EL+ +
Sbjct: 279 VIICGGPSGPNATPDTYRHMAEELGVEKRIRFLDPRP---PSELVAV 322
>3tva_A Xylose isomerase domain protein TIM barrel; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
HET: MSE; 2.15A {Planctomyces limnophilus}
Length = 290
Score = 28.2 bits (63), Expect = 5.6
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 168 QTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELL 211
+ KE A VG P++ + V + ELV + ++LL
Sbjct: 103 EMKEISDFASWVGCPAIGLHIGFVPESSSPDYSELVRV-TQDLL 145
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 28.5 bits (63), Expect = 5.7
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 77 GKTTLTAAITKVLAEEGKAK 96
G TTLT I + L G+
Sbjct: 57 GATTLTKFIIEALISTGETG 76
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 27.7 bits (61), Expect = 5.8
Identities = 18/129 (13%), Positives = 31/129 (24%), Gaps = 9/129 (6%)
Query: 68 VGTIGHVDHGKTTLTAAITKVLAEEG-KAKAIAFDEIDKAPEEKKRG----ITIATAHVE 122
+G+ GKTTL EG + + P + A A
Sbjct: 7 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGAVAT 66
Query: 123 YETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVP 182
+ A +LV P+ ++L R
Sbjct: 67 AVEGDGLLQLHLRRPLWRLDDVLALYAPLRLDLVLVEGYKQERHPK----VVLVRSEEDW 122
Query: 183 SLVCFLNKV 191
+ + L +
Sbjct: 123 ASLQHLANI 131
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 6.3
Identities = 10/80 (12%), Positives = 25/80 (31%), Gaps = 10/80 (12%)
Query: 159 VSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDLVEDEELLELVEMELRELLSFYKFPG 218
++ D + Q E I R+ L ++D E E ++L + +
Sbjct: 74 IAQAD-RLTQEPESIRKWREEQRKRL----QELDAASKVMEQEWREKAKKDLEEWNQRQS 128
Query: 219 DEIPIIRGSATSALQGKNEE 238
+++ ++
Sbjct: 129 EQV-----EKNKINNRIADK 143
Score = 27.4 bits (60), Expect = 6.8
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 5/48 (10%)
Query: 84 AITKVLAEEGKAKAIAFDEIDKAPEEKKRGITIATAHVEYETAKRHYA 131
+I K EE + K + E+D A + A + E + +
Sbjct: 86 SIRK-WREE-QRKRLQ--ELDAA-SKVMEQEWREKAKKDLEEWNQRQS 128
>3jrx_A Acetyl-COA carboxylase 2; BC domain, soraphen A, alternative
splicing, ATP-binding, biotin, fatty acid biosynthesis,
ligase, lipid synthesis; HET: S1A; 2.50A {Homo sapiens}
PDB: 3jrw_A*
Length = 587
Score = 28.1 bits (63), Expect = 7.9
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 8/62 (12%)
Query: 275 SIQGRGTVATGRVEQGTIKVGEEVEVLGLTQGPSLKTTV------TGVEMFKKIL--DRG 326
S++G G++ +K G E + L L + ++ + G + +K+L + G
Sbjct: 6 SMRGSGSMRPSMSGLHLVKRGREHKKLDLHRDFTVASPAEFVTRFGGDRVIEKVLIANNG 65
Query: 327 EA 328
A
Sbjct: 66 IA 67
>3eag_A UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-ME diaminopimelate
ligase; UDP-N-acetylmuramate:L-alanyl-G
glutamyl-MESO-diaminopimelate ligase; 2.55A {Neisseria
meningitidis MC58}
Length = 326
Score = 27.6 bits (62), Expect = 8.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 76 HGKTTLTAAITKVLAEEG 93
HGKTT + + VL G
Sbjct: 117 HGKTTTASMLAWVLEYAG 134
>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding,
protein transport; HET: ANP; 3.00A {Chaetomium
thermophilum} PDB: 3iqx_A* 3ibg_A*
Length = 334
Score = 27.6 bits (61), Expect = 9.5
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 48 SVNPWWRSMATFTRTKLHVNVGTIGHVDHGKTTLTAAITKVLAEEGK 94
S+ P +S+ + G G GKTT + ++ LA+ +
Sbjct: 2 SMEPTLQSILDQRSLRWIFVGGKGGV---GKTTTSCSLAIQLAKVRR 45
>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural
genomics, PSI-2, prote structure initiative; HET: ATP;
2.20A {Chlorobium tepidum}
Length = 245
Score = 27.2 bits (61), Expect = 9.6
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 77 GKTTLTAAITKVLAEEGKAKAIAFD 101
G + + A L++E +A D
Sbjct: 17 GGSCIAANFAFALSQEPDIHVLAVD 41
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 27.1 bits (59), Expect = 9.7
Identities = 7/26 (26%), Positives = 9/26 (34%)
Query: 68 VGTIGHVDHGKTTLTAAITKVLAEEG 93
+ GKTTL + L G
Sbjct: 9 LAFAAWSGTGKTTLLKKLIPALCARG 34
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
0.317 0.135 0.386
Gapped
Lambda K H
0.267 0.0698 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,072,455
Number of extensions: 459622
Number of successful extensions: 1484
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1336
Number of HSP's successfully gapped: 135
Length of query: 451
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 354
Effective length of database: 3,993,456
Effective search space: 1413683424
Effective search space used: 1413683424
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: 59 (26.6 bits)