RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8869
(593 letters)
>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 = 823 bits (2129), Expect = 0.0
Identities = 271/391 (69%), Positives = 312/391 (79%), Gaps = 10/391 (2%)
Query: 2 AKSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGG-EAKSYDQIDAAPEEKARG 60
AK +F RTKPH+NVGTIGHVDHGKTTLTAA+ V + + E K Y ID APEE+ARG
Sbjct: 1 AKGEFVRTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARG 60
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHI 120
ITINTAH+EYET RHY+HVDCPGHADYIKNMITGAAQMDGAILV SAADGPMPQTREHI
Sbjct: 61 ITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHI 120
Query: 121 LLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE 180
LLARQVGVPYIVVF+NK DMVDD ELL+LVE+E+R+LLN+YEFPG+++P+I+GSA LALE
Sbjct: 121 LLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALE 180
Query: 181 GDTG--------PLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTG 232
I L A+D YIPTP R +D FL+PVEDVF+I+GRGTV TG
Sbjct: 181 QMHRNPKTRRGENEWVDKIWELLDAIDEYIPTPVRDVDKPFLMPVEDVFTITGRGTVATG 240
Query: 233 RVERGIVRVGEELEIIGIK-DTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVER 291
R+ERG V+VG+E+EI+G+ +T KT TGVEM RK L +G AGDN+G+LLRG RE+VER
Sbjct: 241 RIERGKVKVGDEVEIVGLAPETRKTVVTGVEMHRKTLQEGIAGDNVGVLLRGVSREEVER 300
Query: 292 GQVLAKPGSIKPHKHFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKE 351
GQVLAKPGSI PH F +Y L K+EGGRHT FFS YRPQFYFRTTDVTG ++LP E
Sbjct: 301 GQVLAKPGSITPHTKFEASVYVLKKEEGGRHTGFFSGYRPQFYFRTTDVTGVVQLPPGVE 360
Query: 352 MVMPGDNVLITVRLINPIAMEEGLRFAIREG 382
MVMPGDNV TV LI P+A+EEGLRFAIREG
Sbjct: 361 MVMPGDNVTFTVELIKPVALEEGLRFAIREG 391
>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 = 853 bits (2205), Expect = 0.0
Identities = 294/382 (76%), Positives = 340/382 (89%), Gaps = 2/382 (0%)
Query: 1 MAKSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARG 60
M+K KFERTKPH+NVGTIGHVDHGKTTLTAAI TVL+K +GG A+++DQID APEEKARG
Sbjct: 285 MSKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARG 344
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHI 120
ITINT+H+EY+T RHYAHVDCPGHADY+KNMITGAAQMDGAILV +A DGPMPQTREHI
Sbjct: 345 ITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI 404
Query: 121 LLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE 180
LL RQVGVPYI+VFLNK DMVDDEELLELVE+E+RELL++Y+FPG+D PI++GSA ALE
Sbjct: 405 LLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALE 464
Query: 181 GDTGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVR 240
GD E IL L+ LD+YIP P RAID FLLP+EDVFSISGRGTVVTGRVERGI++
Sbjct: 465 GD--AEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIK 522
Query: 241 VGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPGS 300
VGEE+EI+GIK+T K+TCTGVEMFRKLLD+G+AG+N+G+LLRG KRE++ERGQVLAKPG+
Sbjct: 523 VGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGT 582
Query: 301 IKPHKHFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVL 360
IKPH F E+Y LSKDEGGRHTPFF YRPQFYFRTTDVTG+IELP+ EMVMPGDN+
Sbjct: 583 IKPHTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIK 642
Query: 361 ITVRLINPIAMEEGLRFAIREG 382
+ V LI+PIAM++GLRFAIREG
Sbjct: 643 MVVTLIHPIAMDDGLRFAIREG 664
>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 = 815 bits (2107), Expect = 0.0
Identities = 217/373 (58%), Positives = 283/373 (75%)
Query: 10 KPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAHIE 69
KPH+NVGTIGHVDHGKTTLTAAI +L++ G + K Y++ID APEE+ARGITIN AH+E
Sbjct: 1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVE 60
Query: 70 YETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVP 129
Y T ARHYAH DCPGHADY+KNMITG A +DG ILV +A DGPMPQTREH+LLARQ+GV
Sbjct: 61 YSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVE 120
Query: 130 YIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQ 189
++VV++NKAD V D E++ELVE+EIRELL ++ + G + PII GSA ALE LG +
Sbjct: 121 HVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLK 180
Query: 190 SILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIG 249
S+ L A+DTYIP P R ++ FLLPVE V+SI GRGTVVTG +ERGI++ G+E E +G
Sbjct: 181 SVQKLLDAVDTYIPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLG 240
Query: 250 IKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPGSIKPHKHFTG 309
++T TG+EMF K LD+ +AGDN+G L+RG KRED+ RG V+AKPGSI+PH+
Sbjct: 241 HSKNIRTVVTGIEMFHKSLDRAEAGDNLGALVRGLKREDLRRGLVMAKPGSIQPHQKVEA 300
Query: 310 EIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPI 369
++Y L+K+EGGRH PF S++ P + T D+ I LP KE+ MPG+++ +T+ L P+
Sbjct: 301 QVYILTKEEGGRHKPFVSHFMPVMFSLTWDMACRIILPPGKELAMPGEDLKLTLILRQPM 360
Query: 370 AMEEGLRFAIREG 382
+E+G RF +R+G
Sbjct: 361 ILEKGQRFTLRDG 373
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 587 bits (1515), Expect = 0.0
Identities = 60/384 (15%), Positives = 137/384 (35%), Gaps = 38/384 (9%)
Query: 1 MAKSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARG 60
+ R NV IG G+T+L A + +G
Sbjct: 10 HSSGLVPRGSHMANVAIIGTEKSGRTSLAANL------------------------GKKG 45
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHI 120
+ + + + R+ VD + +K++IT D A+L G T E I
Sbjct: 46 TSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCI-PPQGLDAHTGECI 104
Query: 121 LLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE 180
+ +G + ++ L ++D ++ ++ +++ + + D I + + +
Sbjct: 105 IALDLLGFKHGIIALTRSDSTHM-HAIDELKAKLKVITSGTVL--QDWECISLNTNKSAK 161
Query: 181 GDTGPLGEQSILSLSKALDTYIPTPNRAID-GAFLLPVEDVFSISGRGTVVTGRVERGIV 239
G + + + I N ++ + ++ F+++G+G VV G V++GI
Sbjct: 162 NP--FEGVDELKARINEVAEKIEAENAELNSLPARIFIDHAFNVTGKGCVVLGVVKQGIS 219
Query: 240 RVGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPG 299
+ ++ +I + ++ +D AG +G+ L+ + +D+ERG +++
Sbjct: 220 KDKDKTKIFPLDR--DIEIRSIQSHDVDIDSAPAGTRVGMRLKNVQAKDIERGFIISDKE 277
Query: 300 SIKPHKHFTGEIYALSKD-EGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDN 358
+ + +K E F + + V + E PG
Sbjct: 278 IVTTDYTLECTVSKFTKKIEPASVLHLFVGLQSE----PVRVEKILVDGNEVEEAKPGST 333
Query: 359 VLITVRLINPIAMEEGLRFAIREG 382
++ + +A + RF +
Sbjct: 334 CVLELSGNKKLAYSKQDRFLLANL 357
>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 = 581 bits (1499), Expect = 0.0
Identities = 103/403 (25%), Positives = 169/403 (41%), Gaps = 55/403 (13%)
Query: 1 MAKSKFERTKPH-----INVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPE 55
+PH IN+G GH+DHGKTTL+ + + S D PE
Sbjct: 3 HHHHHSIEGRPHMDFKNINLGIFGHIDHGKTTLSKVLTEIAS---------TSAHDKLPE 53
Query: 56 EKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQ 115
+ RGITI+ ++ + VD PGHAD I+ +++ A +D A++V A +GP Q
Sbjct: 54 SQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQ 113
Query: 116 TREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSA 175
T EH+L+ +P IVV + K+D EE ++ E+ ++ +L + II SA
Sbjct: 114 TGEHMLILDHFNIPIIVV-ITKSDNAGTEE-IKRTEMIMKSILQST-HNLKNSSIIPISA 170
Query: 176 KLALEGDTGPLGEQSILSLSKALDTYI--PTPNRAIDGAFLLPVEDVFSISGRGTVVTGR 233
K D L + T + R + F +P++ F I G GTVVTG
Sbjct: 171 KTGFGVDE----------LKNLIITTLNNAEIIRNTESYFKMPLDHAFPIKGAGTVVTGT 220
Query: 234 VERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQ 293
+ +GIV+VG+EL+++ I T ++ F++ + + +AGD +G+ ++G + + RG
Sbjct: 221 INKGIVKVGDELKVLPINM--STKVRSIQYFKESVMEAKAGDRVGMAIQGVDAKQIYRGX 278
Query: 294 VLAKPGS-IKPHKHFTGEIYALSKDEGGRHTPFFSNYRPQFYFR----TTDVTGSIEL-- 346
+L + ++ +I F N P+ V
Sbjct: 279 ILTSKDTKLQTVDKIVAKIKISD--------IFKYNLTPKMKVHLNVGMLIVPAVAVPFK 330
Query: 347 ---------PKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIR 380
V+ G+ L + E G R I
Sbjct: 331 KVTFGKTEENIILNEVISGNEXYXAFELEEKVLAEVGDRVLIT 373
>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 = 568 bits (1466), Expect = 0.0
Identities = 95/411 (23%), Positives = 172/411 (41%), Gaps = 56/411 (13%)
Query: 6 FERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSY---DQIDAAPEEKARGIT 62
+ + +P +N+G +GHVDHGKTTL AI + + K G A++ + PE +
Sbjct: 2 WPKVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPS 61
Query: 63 INTAHIEYETK-ARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG-PMPQTREHI 120
+ + E K R + +D PGH + M++GAA MDGAILV +A + P PQTREH
Sbjct: 62 CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHF 121
Query: 121 LLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE 180
+ +GV +++ NK D+V EE L + ++PII SA +
Sbjct: 122 VALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFT---KGTWAENVPIIPVSALHKIN 178
Query: 181 GDTGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG--------RGTVVTG 232
D SL + ++ YI TP R + ++ V F ++ +G V+ G
Sbjct: 179 ID----------SLIEGIEEYIKTPYRDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGG 228
Query: 233 RVERGIVRVGEELEII-GIKDTVKTTCTGVEMFRKL---------LDQGQAGDNIGL--- 279
+ +G+ +V +E++++ G++ + + +F K+ + + G + +
Sbjct: 229 SIIQGLFKVDQEIKVLPGLRVEKQGKVSYEPIFTKISSIRFGDEEFKEAKPGGLVAIGTY 288
Query: 280 LLRGTKREDVERGQVLAKPGS-IKPHKHFTGEIYALSK----DEGGRHTPFFSNYRPQFY 334
L + D G ++ + + + + L + E + P +
Sbjct: 289 LDPSLTKADNLLGSIITLADAEVPVLWNIRIKYNLLERVVGAKEMLKVDPIRAKETLMLS 348
Query: 335 FRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEG-LRFAI--REG 382
++ G +V I V L P+A+ +R I +
Sbjct: 349 VGSSTTLG---------IVTSVKKDEIEVELRRPVAVWSNNIRTVISRQIA 390
>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 = 561 bits (1448), Expect = 0.0
Identities = 113/429 (26%), Positives = 176/429 (41%), Gaps = 86/429 (20%)
Query: 5 KFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGITIN 64
K + + +N+G +GHVDHGKTTLT A+ V + D EE RGITI
Sbjct: 3 KRKSRQAEVNIGMVGHVDHGKTTLTKALTGVWT-------------DTHSEELRRGITIK 49
Query: 65 TAHIEYETK-----------------------ARHYAHVDCPGHADYIKNMITGAAQMDG 101
+ E + R + +D PGH + M+ GA+ MDG
Sbjct: 50 IGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDG 109
Query: 102 AILVCSAADG-PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNK 160
AILV +A + P PQTREH++ + +G I++ NK ++VD E+ LE +I+E +
Sbjct: 110 AILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENYR-QIKEFIEG 168
Query: 161 YEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDV 220
+ PII SA I L KA++ +IPTP R + + V
Sbjct: 169 T--VAENAPIIPISALHGAN----------IDVLVKAIEDFIPTPKRDPNKPPKMLVLRS 216
Query: 221 FSISGRGT--------VVTGRVERGIVRVGEELEIIGIKDT----------VKTTCTGVE 262
F ++ GT V+ G + +G ++VG+E+EI + T ++
Sbjct: 217 FDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPITTEIVSLQ 276
Query: 263 MFRKLLDQGQAGDNIGL---LLRGTKREDVERGQVLAKPGSIKP-HKHFTGEIYALSKDE 318
+ +++ G +G+ L + D+ G V+ KPG + P E++ L +
Sbjct: 277 AGGQFVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKLPPVWDSLRLEVHLLERVV 336
Query: 319 GGRH----TPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEG 374
G P T G +V I V+L P+ E G
Sbjct: 337 GTEQELKVEPIKRKEVLLLNVGTARTMG---------LVTGLGKDEIEVKLQIPVCAEPG 387
Query: 375 LRFAI-REG 382
R AI R+
Sbjct: 388 DRVAISRQI 396
>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 = 541 bits (1395), Expect = 0.0
Identities = 120/427 (28%), Positives = 180/427 (42%), Gaps = 87/427 (20%)
Query: 8 RTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAH 67
++ +N+G +GHVDHGKT+LT A+ V + D EE RGI+I +
Sbjct: 4 GSQAEVNIGMVGHVDHGKTSLTKALTGVWT-------------DRHSEELRRGISIRLGY 50
Query: 68 IEYETK-----------------------ARHYAHVDCPGHADYIKNMITGAAQMDGAIL 104
+ E + R + VD PGH + M++GA+ MDGAIL
Sbjct: 51 ADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAIL 110
Query: 105 VCSAADG-PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEF 163
V +A + P PQT+EH++ +G+ I++ NK D+VD+++ E E +I+E +
Sbjct: 111 VIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENYE-QIKEFVKGT-- 167
Query: 164 PGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSI 223
+ PII SA E +I L KA+ +IPTP R D + V F I
Sbjct: 168 IAENAPIIPISA----------HHEANIDVLLKAIQDFIPTPKRDPDATPRMYVARSFDI 217
Query: 224 SGRGT--------VVTGRVERGIVRVGEELEII-GIKDT---------VKTTCTGVEMFR 265
+ GT V+ G + +G+ +VG+E+EI GIK T + T +
Sbjct: 218 NKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWKPLTTKIVSLAAGN 277
Query: 266 KLLDQGQAGDNIG---LLLRGTKREDVERGQVLAKPGSIKP-HKHFTGEIYALSKDEGGR 321
+L + G IG L + D G V+ PG++ P + T L + G +
Sbjct: 278 TILRKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGTLPPIREKITIRANLLDRVVGTK 337
Query: 322 H----TPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRF 377
P + T G I GD ++L PI E G R
Sbjct: 338 EELKIEPLRTGEVLMLNIGTATTAGVI-------TSARGDIA--DIKLKLPICAEIGDRV 388
Query: 378 AI--REG 382
AI R G
Sbjct: 389 AISRRVG 395
>2jvv_A Transcription antitermination protein NUSG; transcription factor,
transcription regulation, transcription termination; NMR
{Escherichia coli} PDB: 2k06_A 2kvq_G
Length = 181
Score = 304 bits (782), Expect = e-101
Identities = 95/177 (53%), Positives = 135/177 (76%)
Query: 416 NNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKR 475
KKRWYV+ ++SG E V L E I M+ FG ++VPTEE+V+++ Q+ +++
Sbjct: 4 APKKRWYVVQAFSGFEGRVATSLREHIKLHNMEDLFGEVMVPTEEVVEIRGGQRRKSERK 63
Query: 476 FFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPR 535
FFPGYVL++M M D SWHLV++ +V GFIGG S+RP PIS KE++ I+ ++++ +KPR
Sbjct: 64 FFPGYVLVQMVMNDASWHLVRSVPRVMGFIGGTSDRPAPISDKEVDAIMNRLQQVGDKPR 123
Query: 536 PKILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEK 592
PK L++ E+VR+ DGPF DF+G +EEV+YEKSR++VSV+IFGRATPVEL+F+QVEK
Sbjct: 124 PKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFGRATPVELDFSQVEK 180
>1m1h_A Transcription antitermination protein NUSG; transcription
termination, RNP motif, immunoglobulin fold, nucleic
acid interaction; 1.95A {Aquifex aeolicus} SCOP:
b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A
Length = 248
Score = 265 bits (680), Expect = 1e-85
Identities = 59/212 (27%), Positives = 97/212 (45%), Gaps = 10/212 (4%)
Query: 384 QQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERIN 443
+ + + K K+ E V +
Sbjct: 45 EVIVPAEEKVVIRAQGKEKYRLSLKGNARDISVLGKKGVTTFRIENGEVKVVESVEGDTC 104
Query: 444 KLGMQKKFGRILVPTEEIV--DVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTKKV 501
I P ++I + K K V+ + FPGY+LI+ M D+ ++ T V
Sbjct: 105 VNAPP-----ISKPGQKITCKENKTEAKIVLDNKIFPGYILIKAHMNDKLLMAIEKTPHV 159
Query: 502 TGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPKILYQLDELVRIKDGPFTDFSGNIE 561
+ +P P+ +E++ IL QIK+GV K+ ++ + VR+ +GPF +F+G +E
Sbjct: 160 FRPVMVGG-KPVPLKEEEVQNILNQIKRGV--KPSKVEFEKGDQVRVIEGPFMNFTGTVE 216
Query: 562 EVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 593
EV+ EK ++ V ++IFGR TPVEL+F+QVEKI
Sbjct: 217 EVHPEKRKLTVMISIFGRMTPVELDFDQVEKI 248
>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga
maritima}
Length = 352
Score = 254 bits (651), Expect = 8e-80
Identities = 66/273 (24%), Positives = 135/273 (49%), Gaps = 11/273 (4%)
Query: 331 PQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREGVQQFIQDN 390
P Y R + V ++ + + T + +E GLR + + N
Sbjct: 81 PPIYARRSGVIVDVKNVRKIVVETIDRKYTKTYYIPESAGIEPGLRVGTKVKQGLPLSKN 140
Query: 391 LLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQ-K 449
++ + I++ K+ + ++ + ++ Y I +++ + ++ + +
Sbjct: 141 EEYICELDGKIVEIERMKKVVVQTPDGEQDVYYIPLDVFDRDRIKKGKEVKQGEMLAEAR 200
Query: 450 KFGRILVPTEEIVDVKKNQKSVIKK----RFFPGYVLIEMEMTDESWHLVKNTKKVTGFI 505
KF + E+VD ++ I K + FPGYV +EM M DE+++ V++ V GF+
Sbjct: 201 KFFAKVSGRVEVVDYSTRKEIRIYKTKRRKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFV 260
Query: 506 GGKSNRPTPISSKEIEEILK-----QIKKGVEKPRPKILYQLDELVRIKDGPFTDFSGNI 560
+P P+ +E+ IL+ + ++ + + ++ +++ ++V+I GPF DF+G I
Sbjct: 261 SSGG-QPVPVKDREMRPILRLAGLEEYEEKKKPVKVELGFKVGDMVKIISGPFEDFAGVI 319
Query: 561 EEVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 593
+E++ E+ ++V+VTIFGR TPV L ++VEKI
Sbjct: 320 KEIDPERQELKVNVTIFGRETPVVLHVSEVEKI 352
Score = 112 bits (282), Expect = 2e-27
Identities = 27/150 (18%), Positives = 62/150 (41%), Gaps = 6/150 (4%)
Query: 418 KKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFF 477
KK+WY++ + SG E+ V+ + +++ G++ GRI++P E ++D + +I
Sbjct: 2 KKKWYIVLTMSGYEEKVKENIEKKVEATGIKNLVGRIVIPEEVVLDATSPSERLILSPKA 61
Query: 478 PGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGV---EKP 534
+V ++ L+ + G + +E I ++ K E
Sbjct: 62 KLHVNNGKDV--NKGDLIAEEPPIYARRSGVIVDVKNVRKIVVETIDRKYTKTYYIPESA 119
Query: 535 RPKILYQLDELVRIKDGPFTDFSGNIEEVN 564
+ ++ V+ + P + I E++
Sbjct: 120 GIEPGLRVGTKVK-QGLPLSKNEEYICELD 148
>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 = 230 bits (588), Expect = 1e-69
Identities = 130/431 (30%), Positives = 203/431 (47%), Gaps = 77/431 (17%)
Query: 10 KPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------IDAAP 54
KPH+N+ IGHVDHGK+TL I K+ AK + +D
Sbjct: 4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLK 63
Query: 55 EEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG--- 111
EE+ RG+TIN + +ETK + +D PGH D++KNMITGA+Q D AILV SA G
Sbjct: 64 EERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYE 123
Query: 112 ----PMPQTREHILLARQVGVPYIVVFLNKADMVD---DEELLELVEIEIRELLNKYEFP 164
QTREHI+LA+ +G+ ++V +NK D+ + DE+ + + ++ + + Y F
Sbjct: 124 AGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFN 183
Query: 165 GNDIPIIKGSAKLALEGD------------TGPLGEQSILSLSKALDTYIPTPNRAIDGA 212
N + + A GD GP +L + LD + P + +D
Sbjct: 184 TNKVRFVPVV---APSGDNITHKSENMKWYNGP-------TLEEYLDQ-LELPPKPVDKP 232
Query: 213 FLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQ 272
+P++DV+SISG GTV GRVE G+++VG+++ + +E +D+ +
Sbjct: 233 LRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMPAG--KVGEVRSIETHHTKMDKAE 290
Query: 273 AGDNIGLLLRGTKREDVERGQVL-AKPGSIKPHKHFTGEIYALSKDEGGRHTPFFSN-YR 330
GDNIG +RG +++D++RG V+ FT I + H +N Y
Sbjct: 291 PGDNIGFNVRGVEKKDIKRGDVVGHPNNPPTVADEFTARIIVVW------HPTALANGYT 344
Query: 331 PQFYFRTTDVTGSI-------------ELPKNKEMVMPGDNVLITVRLINPIAME----- 372
P + T V + E KN + + GD ++ + I P+ +E
Sbjct: 345 PVLHVHTASVACRVSELVSKLDPRTGQEAEKNPQFLKQGDVAIVKFKPIKPLCVEKYNEF 404
Query: 373 EGL-RFAIREG 382
L RFA+R+
Sbjct: 405 PPLGRFAMRDM 415
>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 = 223 bits (570), Expect = 2e-66
Identities = 102/436 (23%), Positives = 167/436 (38%), Gaps = 86/436 (19%)
Query: 10 KPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------IDAAP 54
K H+N+ IGHVD GK+TL + +K EAK + +D+
Sbjct: 41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTS 100
Query: 55 EEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG--- 111
EE+ +G T+ +ET+ R ++ +D PGH Y+ NMI GA+Q D +LV SA G
Sbjct: 101 EEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFE 160
Query: 112 ----PMPQTREHILLARQVGVPYIVVFLNKADMVD---DEELLELVEIEIRELLNKYEF- 163
QTREH +LAR G+ ++VV +NK D EE + ++ L +
Sbjct: 161 AGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGY 220
Query: 164 -PGNDIPIIKGSAKLALEGD--------------TGPLGEQSILSLSKALDTYIPTPNRA 208
D+ + S A G GP SL + LD+ + R
Sbjct: 221 NSKTDVKYMPVS---AYTGQNVKDRVDSSVCPWYQGP-------SLLEYLDS-MTHLERK 269
Query: 209 IDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEI--IGIKDTVKTTCTGVEMFRK 266
++ F++P+ + GT++ G++E G ++ + + I V + +
Sbjct: 270 VNAPFIMPIASKY--KDLGTILEGKIEAGSIKKNSNVLVMPINQTLEVTAI---YDEADE 324
Query: 267 LLDQGQAGDNIGLLLRGTKREDVERGQVLAKPG-SIKPHKHFTGEIYALSKDEGGRHTPF 325
+ GD + L +RG DV+ G VL + F +I L
Sbjct: 325 EISSSICGDQVRLRVRGDD-SDVQTGYVLTSTKNPVHATTRFIAQIAILE------LPSI 377
Query: 326 FSN-YRPQFYFRTTDVTGSIE------------LPKNKEMVMPGDNVLITVRLINPIAME 372
+ Y + T S K G ++ + P+ ME
Sbjct: 378 LTTGYSCVMHIHTAVEEVSFAKLLHKLDKTNRKSKKPPMFATKGMKIIAELETQTPVCME 437
Query: 373 -----EGL-RFAIREG 382
+ + RF +R+
Sbjct: 438 RFEDYQYMGRFTLRDQ 453
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 224 bits (573), Expect = 8e-66
Identities = 98/427 (22%), Positives = 167/427 (39%), Gaps = 70/427 (16%)
Query: 7 ERTKPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------ID 51
KP +++ GHVD GK+T+ I + +K EA + + +D
Sbjct: 172 SNPKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLD 231
Query: 52 AAPEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG 111
EE+ARG+T++ A +E+ + Y D PGH D+I MI GA+ D A+LV ++
Sbjct: 232 TTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQN 291
Query: 112 PM-------PQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELVEIEIRELLNKYE- 162
QTREH L R +G+ IVV +NK D++ E+ + ++ + + L K
Sbjct: 292 NFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVG 351
Query: 163 FPGNDIPIIKGSAKLALEGD--------------TGPLGEQSILSLSKALDTYIPTPNRA 208
F +++ + S A+ G GP +L ALD + P +
Sbjct: 352 FKTSNVHFVPIS---AISGTNLIQKDSSDLYKWYKGP-------TLLSALDQ-LVPPEKP 400
Query: 209 IDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMF-RKL 267
L ++DV+ TV GRVE G V+V + L + ++ V
Sbjct: 401 YRKPLRLSIDDVYRSPRSVTVT-GRVEAGNVQVNQVLYDVSSQED--AYVKNVIRNSDPS 457
Query: 268 LDQGQAGDNIGLLLRGTKREDVERGQVLAKPG-SIKPHKHFTGEIYALSKDEGGRHTPFF 326
AGD + L L + + G +L+ ++ + F EI P
Sbjct: 458 STWAVAGDTVTLQLADIEVNQLRPGDILSNYENPVRRVRSFVAEIQTFDIH-----GPIL 512
Query: 327 SNYRPQFYFRTTDVTGSIELP----KNKEMVMPGDNVLITVRLINP-IAME------EGL 375
S + T + S+++ K + L+ + ++ +
Sbjct: 513 SGSTLVLHLGRTVTSVSLKIVTVNNKRSRHIASRKRALVRISFLDGLFPLCLAEECPALG 572
Query: 376 RFAIREG 382
RF +R
Sbjct: 573 RFILRRS 579
>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 = 215 bits (550), Expect = 2e-63
Identities = 92/456 (20%), Positives = 162/456 (35%), Gaps = 100/456 (21%)
Query: 7 ERTKPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------ID 51
+ PH++ +GHVD GK+TL + +K E+++ + +D
Sbjct: 28 KSALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMD 87
Query: 52 AAPEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG 111
EE+ RG+T++ + T ++ VD PGH D++ N I G +Q D AIL +
Sbjct: 88 QTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTN 147
Query: 112 PM-------PQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELVEIEIRELLNKYEF 163
QT+EH+LLA +G+ +++ +NK D VD ++ E ++ ++ L F
Sbjct: 148 AFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGF 207
Query: 164 PGNDIPIIKGSAKLALEGD---------------TGPLGEQSILSLSKALD-----TYIP 203
++I + S G+ GP +L L+
Sbjct: 208 FEDNINWVPIS---GFSGEGVYKIEYTDEVRQWYNGP-------NLMSTLENAAFKISKE 257
Query: 204 TPNRAIDGAFLLPVEDVFS---ISGRGTVVTGRVERGIVRVGEELEI--IGIKDTVKTTC 258
D FL V ++ S +V+G++E G ++ GE L I V
Sbjct: 258 NEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIYPSEQSCIVDK-- 315
Query: 259 TGVEMFRKL--------LDQGQAGDNIGLLLRGTKREDVERGQVLAKPGS--IKPHKHFT 308
+++ + D GD + L LR ED++ G + A I + F
Sbjct: 316 --IQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFV 373
Query: 309 GEIYALSKDEGGRH-TPFFSNYRPQFYFRTTDVTGSIE------------LPKNKEMVMP 355
E+ P + + I+ K +
Sbjct: 374 LELTTFD------MNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNTASKKKIRHLGS 427
Query: 356 GDNVLITVRLI---NPIAMEE-----GL-RFAIREG 382
+ + LI I + L R +R+
Sbjct: 428 KQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLRKD 463
>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 = 214 bits (548), Expect = 2e-63
Identities = 128/438 (29%), Positives = 184/438 (42%), Gaps = 72/438 (16%)
Query: 8 RTKPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------IDA 52
+ K HINV IGHVD GK+T T I +KF EA + +D
Sbjct: 3 KEKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDK 62
Query: 53 APEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG- 111
E+ RGITI+ A ++ET +D PGH D+IKNMITG +Q D AIL+ + G
Sbjct: 63 LKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE 122
Query: 112 ------PMPQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELVEIEIRELLNKYEFP 164
QTREH LLA +GV ++V +NK D V DE + + E + K +
Sbjct: 123 FEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYN 182
Query: 165 GNDIPIIKGSAKLALEGD-----------------TGPLGEQSILSLSKALDTYIPTPNR 207
+P + S GD G +L +A+D I P+R
Sbjct: 183 PKTVPFVPIS---GWNGDNMIEATTNAPWYKGWEKETKAGVVKGKTLLEAIDA-IEQPSR 238
Query: 208 AIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKL 267
D LP++DV+ I G GTV GRVE G+++ G + V T VEM +
Sbjct: 239 PTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPAG--VTTEVKSVEMHHEQ 296
Query: 268 LDQGQAGDNIGLLLRGTKREDVERGQVL--AKPGSIKPHKHFTGEIYALSKDEGGRHTPF 325
L+QG GDN+G ++ +++ RG V AK K F + L+
Sbjct: 297 LEQGVPGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGCASFNATVIVLNHP-----GQI 351
Query: 326 FSNYRPQFYFRTTDVTGSI-------------ELPKNKEMVMPGDNVLITVRLINPIAME 372
+ Y P T + +L + + + GD L+ P+ +E
Sbjct: 352 SAGYSPVLDCHTAHIACRFDELLEKNDRRSGKKLEDHPKFLKSGDAALVKFVPSKPMCVE 411
Query: 373 -----EGL-RFAIREGVQ 384
L RFA+R+ Q
Sbjct: 412 AFSEYPPLGRFAVRDMRQ 429
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 215 bits (550), Expect = 3e-62
Identities = 92/456 (20%), Positives = 162/456 (35%), Gaps = 100/456 (21%)
Query: 7 ERTKPHINVGTIGHVDHGKTTLTA-------AIATVLSKKFGGEAKSYDQ--------ID 51
+ PH++ +GHVD GK+TL + +K E+++ + +D
Sbjct: 162 KSALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMD 221
Query: 52 AAPEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADG 111
EE+ RG+T++ + T ++ VD PGH D++ N I G +Q D AIL +
Sbjct: 222 QTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTN 281
Query: 112 PM-------PQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELVEIEIRELLNKYEF 163
QT+EH+LLA +G+ +++ +NK D VD ++ E ++ ++ L F
Sbjct: 282 AFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGF 341
Query: 164 PGNDIPIIKGSAKLALEGD---------------TGPLGEQSILSLSKALDT-----YIP 203
++I + S G+ GP +L L+
Sbjct: 342 FEDNINWVPIS---GFSGEGVYKIEYTDEVRQWYNGP-------NLMSTLENAAFKISKE 391
Query: 204 TPNRAIDGAFLLPVEDVFS---ISGRGTVVTGRVERGIVRVGEELEI--IGIKDTVKTTC 258
D FL V ++ S +V+G++E G ++ GE L I V
Sbjct: 392 NEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIYPSEQSCIVDK-- 449
Query: 259 TGVEMFRKL--------LDQGQAGDNIGLLLRGTKREDVERGQVLAKPGS--IKPHKHFT 308
+++ + D GD + L LR ED++ G + A I + F
Sbjct: 450 --IQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFV 507
Query: 309 GEIYALSKDEGGRH-TPFFSNYRPQFYFRTTDVTGSIE------------LPKNKEMVMP 355
E+ P + + I+ K +
Sbjct: 508 LELTTFD------MNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNTASKKKIRHLGS 561
Query: 356 GDNVLITVRLI---NPIAMEE-----GL-RFAIREG 382
+ + LI I + L R +R+
Sbjct: 562 KQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLRKD 597
>2oug_A Transcriptional activator RFAH; transcription factor, virulence,
transcription pausing, transcription elongation; 2.10A
{Escherichia coli}
Length = 162
Score = 199 bits (509), Expect = 2e-61
Identities = 28/175 (16%), Positives = 64/175 (36%), Gaps = 14/175 (8%)
Query: 419 KRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFP 478
+ WY+++ G + Q L + L P + + + +++ + + FP
Sbjct: 2 QSWYLLYCKRGQLQRAQEHLERQA---------VNCLAPMITLEKIVRGKRTAVSEPLFP 52
Query: 479 GYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPKI 538
Y+ +E + + T+ V+ F+ P + S I ++ K + P
Sbjct: 53 NYLFVEFDPEVIHTTTINATRGVSHFVRF-GASPAIVPSAVIHQLSVYKPKDIVDP---A 108
Query: 539 LYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 593
+ V I +G F F E + E R + + + + ++ + K+
Sbjct: 109 TPYPGDKVIITEGAFEGFQAIFTEPDGEA-RSMLLLNLINKEIKHSVKNTEFRKL 162
>1nz8_A Transcription antitermination protein NUSG; transcription
elongation, riken structural genomics/proteomics
initiative, RSGI; NMR {Thermus thermophilus} SCOP:
d.58.42.1
Length = 119
Score = 172 bits (439), Expect = 7e-52
Identities = 40/115 (34%), Positives = 69/115 (60%), Gaps = 7/115 (6%)
Query: 419 KRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKR-FF 477
WY +H+ G E+ + L +RI G+Q K ++L+PTEE+V++++ K + ++ F
Sbjct: 2 IEWYAVHTLVGQEEKAKANLEKRIKAFGLQDKIFQVLIPTEEVVELREGGKKEVVRKKLF 61
Query: 478 PGYVLIEMEMTD-----ESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQI 527
PGY+ I+M++ D E+W +V+ T +TGF+G RP P+S E+ IL+
Sbjct: 62 PGYLFIQMDLGDEEEPNEAWEVVRGTPGITGFVGAGM-RPVPLSPDEVRHILEVS 115
>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 = 178 bits (453), Expect = 5e-50
Identities = 89/326 (27%), Positives = 139/326 (42%), Gaps = 55/326 (16%)
Query: 10 KPHINVGTIGHVDHGKTTL--------------TAAIATVLSKKFGGEAKSYDQ---IDA 52
K + T G+VD GK+TL T SKK G D +D
Sbjct: 22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDG 81
Query: 53 APEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGP 112
E+ +GITI+ A+ + T R + D PGH Y +NM TGA+ D AI++ A G
Sbjct: 82 LQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGV 141
Query: 113 MPQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELVEIEIRELLNKYEFPGNDIPII 171
QTR H +A +G+ +IVV +NK D+ DE + E ++ + + F + +
Sbjct: 142 QTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFV 201
Query: 172 KGSAKLALEGD------------TGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVED 219
S AL+GD G SL + L+T + + PV+
Sbjct: 202 PMS---ALKGDNVVNKSERSPWYAGQ-------SLMEILET-VEIASDRNYTDLRFPVQY 250
Query: 220 V--FSISGRGTVVTGRVERGIVRVGEELEII--GIKDTVKTTCTGVEMFRKLLDQGQAGD 275
V +++ RG G + GIV G+E+ ++ G VK+ + F L+Q G
Sbjct: 251 VNRPNLNFRG--FAGTLASGIVHKGDEIVVLPSGKSSRVKS----IVTFEGELEQAGPGQ 304
Query: 276 NIGLLLRGTKRE-DVERGQVLAKPGS 300
+ L + + E D+ RG +L +
Sbjct: 305 AVTLTM---EDEIDISRGDLLVHADN 327
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 117 bits (295), Expect = 3e-31
Identities = 26/178 (14%), Positives = 56/178 (31%), Gaps = 36/178 (20%)
Query: 418 KKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFF 477
+ + + G E+ + + ++ + IL P+
Sbjct: 2 AGKIFAVRVTHGQEETTAKLIYSKVRTYNLPIY--AILAPSR-----------------V 42
Query: 478 PGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPK 537
GY+ +E ++ + G + P + KEIE L++
Sbjct: 43 KGYIFVEAPNKGVVDEAIRGIRHARGVL------PGEVPFKEIEHFLEEKPAVSG----- 91
Query: 538 ILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVEL--EFNQVEKI 593
+ +LV + GPF + +++ K V V P+ + + + V I
Sbjct: 92 --LEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQ--FIDAIVPIPVTIKGDYVRLI 145
>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 = 107 bits (270), Expect = 4e-28
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 215 LPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQAG 274
+ VE+V +I G+ ++ G VE G++ VG +++ + +E R+ ++ AG
Sbjct: 37 VVVEEVVNIMGKDVII-GTVESGMIGVGFKVK----GPSGIGGIVRIERNREKVEFAIAG 91
Query: 275 DNIGLLLRGTKREDVERGQVLAKPGS 300
D IG+ + G K V++G VL +
Sbjct: 92 DRIGISIEG-KIGKVKKGDVLEIYQT 116
>1nz9_A Transcription antitermination protein NUSG; transcription
elongation, riken structural genomics/proteomics
initiative, RSGI; NMR {Thermus thermophilus} SCOP:
b.34.5.4
Length = 58
Score = 105 bits (265), Expect = 4e-28
Identities = 28/56 (50%), Positives = 42/56 (75%)
Query: 537 KILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEK 592
++ ++ + VR+ GPF DF+G + E+N E+ +V+V VTIFGR TPVEL+F+QV K
Sbjct: 2 QVAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVMVTIFGRETPVELDFSQVVK 57
>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 = 86.2 bits (213), Expect = 9e-18
Identities = 45/166 (27%), Positives = 74/166 (44%), Gaps = 25/166 (15%)
Query: 14 NVGTIGHVDHGKTTLTAAI---ATVLSKKFGGEAKSYDQIDAAPEEKARGITI------- 63
N+ I HVDHGK+TLT ++ A ++S GEA+ D +E+ RGITI
Sbjct: 21 NMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRK---DEQERGITIKSTAISL 77
Query: 64 -------NTAHIEYETKARHYA--HVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMP 114
+ I+ +T + +D PGH D+ + DGA++V +G
Sbjct: 78 YSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCV 137
Query: 115 QTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNK 160
QT + A + VV +NK D E L++ + ++ + +
Sbjct: 138 QTETVLRQALGERIK-PVVVINKVDRALLE--LQVSKEDLYQTFAR 180
>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 = 77.2 bits (191), Expect = 2e-16
Identities = 37/194 (19%), Positives = 66/194 (34%), Gaps = 33/194 (17%)
Query: 209 IDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLL 268
+ LP+ D + GTVV G++E G + G++L ++ K G+
Sbjct: 3 LGSPIRLPIVDKYK--DMGTVVLGKLESGSICKGQQLVMMPNK--HNVEVLGILSDDVET 58
Query: 269 DQGQAGDNIGLLLRGTKREDVERGQVLAKPGS-IKPHKHFTGEIYALSKDEGGRHTPFFS 327
D G+N+ + L+G + E++ G +L P + + F +I + H
Sbjct: 59 DTVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIE------HKSIIC 112
Query: 328 N-YRPQFYFRTTDVTGSI-------------ELPKNKEMVMPGDNVLITVRLINPIAMEE 373
Y + T I + V + +R I +E
Sbjct: 113 PGYNAVLHIHTCIEEVEITALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLET 172
Query: 374 -------GLRFAIR 380
G RF +R
Sbjct: 173 FKDFPQMG-RFTLR 185
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 76.2 bits (188), Expect = 3e-16
Identities = 51/129 (39%), Positives = 59/129 (45%), Gaps = 24/129 (18%)
Query: 15 VGTI-GHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAHI---EY 70
V TI GHVDHGKTTL AI SK EA GIT HI +
Sbjct: 10 VVTIMGHVDHGKTTLLDAIRH--SKVTEQEAG--------------GIT---QHIGAYQV 50
Query: 71 ETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPY 130
+ +D PGH + GA D ILV +A DG MPQT E I A+ VP
Sbjct: 51 TVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVP- 109
Query: 131 IVVFLNKAD 139
I+V +NK D
Sbjct: 110 IIVAINKMD 118
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 73.8 bits (182), Expect = 6e-14
Identities = 69/247 (27%), Positives = 99/247 (40%), Gaps = 67/247 (27%)
Query: 17 TI-GHVDHGKTTLTAAI--ATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAHI-EYET 72
TI GHVDHGKTTL + V + + GG I T HI +
Sbjct: 8 TIMGHVDHGKTTLLDKLRKTQVAAMEAGG--------------------I-TQHIGAFLV 46
Query: 73 KARHYAHV---DCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVP 129
+ D PGHA + G D ILV +A DG M QT E I A+ VP
Sbjct: 47 SLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP 106
Query: 130 YIVVFLNKADMVD------DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDT 183
IV+ +NK D + +ELL ++ + G D+ + SA T
Sbjct: 107 -IVLAINKCDKAEADPEKVKKELLAY-DVVCEDY-------GGDVQAVHVSAL------T 151
Query: 184 GPLG----EQSILSLSKALDTYIPTPNRAIDG----AFLLPVEDVFSISGRGTVVTGRVE 235
G ++ ++L++ L+ P A++G +F GRG V T ++
Sbjct: 152 G-ENMMALAEATIALAEMLE-LKADPTGAVEGTVIESFTDK--------GRGPVTTAIIQ 201
Query: 236 RGIVRVG 242
RG +R G
Sbjct: 202 RGTLRKG 208
>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 = 72.9 bits (180), Expect = 1e-13
Identities = 36/145 (24%), Positives = 56/145 (38%), Gaps = 14/145 (9%)
Query: 1 MAKSKFERTKPHINVGTIGHVDHGKTTLTAAIA--TVLSKKFG----GEAKSYDQIDAAP 54
M + V +GH GKTTLT A+ T ++ G G D P
Sbjct: 1 MGTEGGAMIR---TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTT----TTDYTP 53
Query: 55 EEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMP 114
E K T+ T + +D PG+ D++ + D A++ SA G
Sbjct: 54 EAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQV 113
Query: 115 QTREHILLARQVGVPYIVVFLNKAD 139
T +A ++G+P + V + K D
Sbjct: 114 GTERAWTVAERLGLPRM-VVVTKLD 137
>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 = 69.8 bits (172), Expect = 8e-13
Identities = 52/131 (39%), Positives = 61/131 (46%), Gaps = 28/131 (21%)
Query: 15 VGTI-GHVDHGKTTLTAAI--ATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAHI--- 68
V TI GHVDHGKT+L I V S GEA GIT HI
Sbjct: 6 VVTIMGHVDHGKTSLLEYIRSTKVAS----GEAG--------------GIT---QHIGAY 44
Query: 69 EYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGV 128
ET+ +D PGHA + GA D +LV +A DG MPQT E I A+ V
Sbjct: 45 HVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQV 104
Query: 129 PYIVVFLNKAD 139
P +VV +NK D
Sbjct: 105 P-VVVAVNKID 114
>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 = 67.7 bits (166), Expect = 5e-12
Identities = 37/140 (26%), Positives = 48/140 (34%), Gaps = 37/140 (26%)
Query: 19 GHVDHGKTTLTAAI------------------ATVLSKKFGGEAKSYDQIDAAPEEKARG 60
GHVDHGKTTL I AT + + E G
Sbjct: 12 GHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPG 71
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMIT-GAAQMDGAILVCSAADGPMPQTREH 119
+ +D PGH + + G A D AIL+ +G PQT+E
Sbjct: 72 LFF----------------IDTPGHEAF-TTLRKRGGALADLAILIVDINEGFKPQTQEA 114
Query: 120 ILLARQVGVPYIVVFLNKAD 139
+ + R P VV NK D
Sbjct: 115 LNILRMYRTP-FVVAANKID 133
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 67.0 bits (164), Expect = 7e-12
Identities = 51/152 (33%), Positives = 76/152 (50%), Gaps = 17/152 (11%)
Query: 18 IGHVDHGKTTLT-------AAIA---TVLSKKFGGEAKSYDQIDAAPEEKARGITINTAH 67
I H D GKTTLT AI T+ S+K A S D EK RGI++ T+
Sbjct: 19 ISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATS----DWMELEKQRGISVTTSV 74
Query: 68 IEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVG 127
+++ K +D PGHAD+ ++ +D A++V AA G P+T + + + R
Sbjct: 75 MQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRH 134
Query: 128 VPYIVVFLNKADMVDDEELLELVEIEIRELLN 159
P I+ F+NK D D +EL++ EI +L
Sbjct: 135 TP-IMTFINKMDR-DTRPSIELLD-EIESILR 163
>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 = 66.3 bits (162), Expect = 1e-11
Identities = 47/152 (30%), Positives = 72/152 (47%), Gaps = 17/152 (11%)
Query: 18 IGHVDHGKTTLT-------AAIA---TVLSKKFGGEAKSYDQIDAAPEEKARGITINTAH 67
I H D GKTT+T AI TV + AKS D EK RGI+I T+
Sbjct: 19 ISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKS----DWMEMEKQRGISITTSV 74
Query: 68 IEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVG 127
+++ +D PGH D+ ++ +D ++V AA G +TR+ + + R
Sbjct: 75 MQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRD 134
Query: 128 VPYIVVFLNKADMVDDEELLELVEIEIRELLN 159
P I+ F+NK D D + +EL++ E+ L
Sbjct: 135 TP-ILTFMNKLDR-DIRDPMELLD-EVENELK 163
>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 = 62.9 bits (152), Expect = 2e-10
Identities = 86/614 (14%), Positives = 190/614 (30%), Gaps = 163/614 (26%)
Query: 38 KKFGGEA--KSYDQIDAAPEEKARGITINTAHIEYETKARHYAHVDCPGHADY------- 88
+KF E +Y + + + + R ++ T Y + R + D A Y
Sbjct: 80 QKFVEEVLRINYKFLMSPIKTEQRQPSMMT--RMYIEQ-RDRLYNDNQVFAKYNVSRLQP 136
Query: 89 IKNMITGAAQ-----------MDGA---ILVCSAADGPMPQTREHILLARQVGVPYIVVF 134
+ + + G+ + + + + + + +
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC-------LSYKVQCKM---DFKIFW 186
Query: 135 LNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSL 194
LN + E +LE+++ +LL + + D + I S+
Sbjct: 187 LNLKNCNSPETVLEMLQ----KLLYQIDPNWTSRS------------DHSSNIKLRIHSI 230
Query: 195 SKALDTYIPTPNRAIDGAFLLPVEDV--------FSISGRGTVVTGRVERGIVRVGEELE 246
L + + LL + +V F++S + ++T R +
Sbjct: 231 QAELRRLLKSKPYENC---LLVLLNVQNAKAWNAFNLSCK-ILLTTR----------FKQ 276
Query: 247 IIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLR--GTKREDVERGQVLAKPGSIKPH 304
+ TT ++ L + LLL+ + +D+ R +VL + P
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEV---KSLLLKYLDCRPQDLPR-EVL----TTNPR 328
Query: 305 KHFTGEIYALSKDEGGRHTPFFSNYRPQFYFR-TTDVTGSIELPKNKEM--------VMP 355
+ I +D + N++ + TT + S+ + + E V P
Sbjct: 329 RL--SIIAESIRDGLAT----WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382
Query: 356 GDNVLITVRLINPIAMEEGLRFAIREGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSI 415
+ I L+ + + ++ + V + + +L+ K
Sbjct: 383 -PSAHIPTILL-SLIWFDVIKSDVMVVVNKLHKYSLVEK--------------------- 419
Query: 416 NNKKRWYVIHS-YSGM------EKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQ 468
K+ I S Y + E + R +++ N + K F D
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYN---IPKTF-----------DSDDLI 465
Query: 469 KSVIKKRFFP--GYVLIEMEMTDESWHLVKNTKKVTGFIGGK-----SNRPTPISSKEIE 521
+ + F+ G+ L +E + L + F+ K + S
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPER-MTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL 524
Query: 522 EILKQIKKGVEKPRPKILYQLDELVRIKDGPFTDFSGNIEE--VNYEKSRVRVSVTIFGR 579
+ LK K + PK ++ ++ DF IEE + + + + + + +
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAIL--------DFLPKIEENLICSKYTDL-LRIALMAE 575
Query: 580 ATPVELE-FNQVEK 592
+ E QV++
Sbjct: 576 DEAIFEEAHKQVQR 589
Score = 53.7 bits (128), Expect = 2e-07
Identities = 65/523 (12%), Positives = 144/523 (27%), Gaps = 137/523 (26%)
Query: 3 KSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQI---DAAPEEKAR 59
+ +P NV G + GKT + LS K + K +I +
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVAL--DVCLSYKV--QCKMDFKIFWLNLKNCNSPE 196
Query: 60 GITINTAHIEYETKARHYAHVDCPGHA--DYIKNMITGAAQMDGA--------------- 102
+ + +D + D+ N+ +
Sbjct: 197 TVLEMLQKL--------LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 103 IL--VCSAADGPMPQTREH------ILL-ARQVGVPYIVVFLNKADMVDDEELLELVEIE 153
+L V + + ILL R V + + D + L E
Sbjct: 249 VLLNVQN------AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 154 IRELLNKY-EFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKAL--------DTY--- 201
++ LL KY + D+P + L + P LS+ D +
Sbjct: 303 VKSLLLKYLDCRPQDLP------REVLTTN--PR----RLSIIAESIRDGLATWDNWKHV 350
Query: 202 -IPTPNRAIDGAF--LLPVE-----DVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDT 253
I+ + L P E D S+ + + + + ++ +
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL---LSLIWFDVIKSDVMVV 407
Query: 254 VKTTCTGVEMFRK-LLDQGQAGDNIGL--LLRGTKREDVERGQVLAKPGSIKPHKHFTGE 310
V ++ + L+++ I + + K + + H+ +
Sbjct: 408 VN------KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL---------HRSIV-D 451
Query: 311 IYALSK--DEGGRHTPFFSNYRPQFYF------RTTDVTGSIELPKNKEMVMPGDNVLIT 362
Y + K D P+ Y FY + + + L + + D +
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQY---FYSHIGHHLKNIEHPERMTLFRMVFL----DFRFLE 504
Query: 363 VRLINPIAMEEGLRFAIREGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWY 422
++ + + + + +Q + K YI + +R
Sbjct: 505 QKIRH-----DSTAWNASGSILNTLQQ--------------LKFYKPYICDNDPKYERLV 545
Query: 423 --VIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVD 463
++ +E+N+ + ++ + + I + V
Sbjct: 546 NAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 34.1 bits (77), Expect = 0.15
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 9/61 (14%)
Query: 515 ISSKEIEEILKQIKKGVEKPRPKILYQLDELVRIK-DGPFTDFSGNIEEVNYE--KSRVR 571
+S +EI+ I+ K +L + K + F + +NY+ S ++
Sbjct: 46 LSKEEIDHIIM------SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 572 V 572
Sbjct: 100 T 100
Score = 29.4 bits (65), Expect = 4.5
Identities = 29/236 (12%), Positives = 60/236 (25%), Gaps = 71/236 (30%)
Query: 2 AKSKFERTKPH-----I--NV---GTIGHVDHG-KTTLT---AAIATVLSKKFGGEAKSY 47
+ ++KP+ + NV + K LT + LS
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 48 DQIDAAPEEKARGITINTAHIEY-----ETKARHYAHV--------DCPGHADYIKNMIT 94
++ + + + E + + D D K++
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV-- 350
Query: 95 GAAQMDGAILVCSAADGPMPQTREH-ILLA---RQVGVPYIV--VFLNKADMVDDEELLE 148
++ I P + R+ L+ +P I+ + D ++
Sbjct: 351 NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 149 ------LVE-------IEI------------------RELLNKYE----FPGNDIP 169
LVE I I R +++ Y F +D+
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
>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 = 60.4 bits (146), Expect = 1e-09
Identities = 53/344 (15%), Positives = 95/344 (27%), Gaps = 166/344 (48%)
Query: 138 ADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE----Q-SIL 192
+VD + E + EI E Y F + G L Q ++
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTF----------------RSEKGLLSATQFTQPALT 1737
Query: 193 SLSKALDTYIPTPNRAIDGAFLLPVEDVF---SISGRGTVVTGRVERGIVRVGE--EL-- 245
+ KA + L+P + F S +GE L
Sbjct: 1738 LMEKAA-------FEDLKSKGLIPADATFAGHS------------------LGEYAALAS 1772
Query: 246 --EIIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPGSIKP 303
+++ I+ V+ ++ RG +
Sbjct: 1773 LADVMSIESLVE------------------------VVF-------YRGMTMQV------ 1795
Query: 304 HKHFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITV 363
A+ +DE GR SNY M+
Sbjct: 1796 ---------AVPRDELGR-----SNYG---------------------MIA--------- 1811
Query: 364 RLINPIAMEEGL-RFAIREGVQQFIQDN--LLTKEIVNSNKINIDKGKEYIERSINNKKR 420
INP + + A++ V++ + L+ EIVN N + N++
Sbjct: 1812 --INPGRVAASFSQEALQYVVERVGKRTGWLV--EIVNYN--------------VENQQ- 1852
Query: 421 WYVIHSYSGMEKNVQRKLIERINKLGMQK-KFGRILV--PTEEI 461
YV +G + + + +N + +QK + EE+
Sbjct: 1853 -YVA---AGDLRALD-TVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 45.4 bits (107), Expect = 6e-05
Identities = 73/500 (14%), Positives = 147/500 (29%), Gaps = 180/500 (36%)
Query: 23 HGKTTLTAAI-------ATVLSKKFGG------EAKSYDQIDAAPEE-KARGITINTAHI 68
HG + A+ L ++F E + D P E + + + +
Sbjct: 13 HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY-VSSL 71
Query: 69 EYETKARHYAHVDCPG----HADYIK-NMI-TGAAQMDG----------AIL-----VCS 107
+K + V Y++ N I AA++ ++
Sbjct: 72 VEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 108 AADGPMPQTREHILL--ARQVGVPYIVVF----LNKADMVDDEELLELVEIEIRELLNKY 161
A P + L + + +F ++ E E+R+L Y
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT-------DDYFE----ELRDL---Y 177
Query: 162 E-FPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALD--TYIPTPNRAIDGAFLL--P 216
+ + +IK SA+ E L + + + + L+ ++ P+ D +LL P
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT--QGLNILEWLENPSNTPDKDYLLSIP 235
Query: 217 V------------------------EDVFSISGRGTVVTGRVERGIV------------- 239
+ ++ S +G TG + G+V
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYL-KGA--TGHSQ-GLVTAVAIAETDSWES 291
Query: 240 ---RVGEELEI---IGIK--DTVKTTCTGVEMFRKLLDQGQAGDNIG-----LLLRGTKR 286
V + + + IG++ + T + L+ + G L + +
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE-----GVPSPMLSISNLTQ 346
Query: 287 EDVERGQVLAKPGSIKP------------HKHF--TG---EIYALS------KDEGG--- 320
E V+ + K S P K+ +G +Y L+ K G
Sbjct: 347 EQVQD--YVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 321 -------RH-----------TPFFSNY-RPQFYFRTTDVTGSIELPKNKEMVMP------ 355
R +PF S+ P D+ + K++ +P
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 356 GDNV-----LITVRLINPIA 370
G ++ I+ R+++ I
Sbjct: 465 GSDLRVLSGSISERIVDCII 484
Score = 40.4 bits (94), Expect = 0.002
Identities = 22/130 (16%), Positives = 40/130 (30%), Gaps = 31/130 (23%)
Query: 481 VLIEMEMTDESWHLVKNTKKVTG---FIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPK 537
V I + ES+ + +K FIG + P +S + ++ P P
Sbjct: 281 VAIAETDSWESFF--VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP- 337
Query: 538 ILYQLDELVRIKDGPFTDFSGNIEEVNY---EKSRVRVS---------VTIFGRATPVEL 585
++ I + + + N +V +S V+ G P L
Sbjct: 338 -------MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS--G--PPQSL 386
Query: 586 E-FN-QVEKI 593
N + K
Sbjct: 387 YGLNLTLRKA 396
Score = 38.9 bits (90), Expect = 0.005
Identities = 58/351 (16%), Positives = 96/351 (27%), Gaps = 146/351 (41%)
Query: 2 AKSKFERTKPHI--NVG-TIGH-VDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEK 57
A+ + R H G +I V + LT + FGGE K
Sbjct: 1642 AQDVWNRADNHFKDTYGFSILDIVINNPVNLT-----IH---FGGE-------------K 1680
Query: 58 ARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTR 117
+ I N + + +ET DG + +
Sbjct: 1681 GKRIRENYSAMIFETIV-------------------------DG----KLKTEKIFKEIN 1711
Query: 118 EHILLARQVGVPYIVVFLNKADMVDDEELLE----------LVEIEIRELLNKYEFPGND 167
EH ++ LL L+E E L K +
Sbjct: 1712 EH---------------STSYTFRSEKGLLSATQFTQPALTLMEKAAFEDL-KSKG---- 1751
Query: 168 IPIIKGSAKLALEGDTG-PLGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSI-SG 225
+I A A G LGE + AL ++ + +E + +
Sbjct: 1752 --LIPADATFA-----GHSLGEYA------AL--------ASLADV--MSIESLVEVVFY 1788
Query: 226 RGTVVTGRVER--------GIV-----RVGEELEIIGIKDTVKTTC--TGVEMFRKLLD- 269
RG + V R G++ RV ++ V+ TG L++
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG-----WLVEI 1843
Query: 270 -----QGQ----AGDNIGL-----LLR--GTKREDVERGQVLAKPGSIKPH 304
+ Q AGD L +L ++ D+ Q ++ H
Sbjct: 1844 VNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGH 1894
Score = 29.6 bits (66), Expect = 4.3
Identities = 41/257 (15%), Positives = 80/257 (31%), Gaps = 72/257 (28%)
Query: 299 GSIK-----PHK-HFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEM 352
GS++ P F L +++ F+ P+ T E
Sbjct: 14 GSLEHVLLVPTASFFIASQ--L-QEQ-------FNKILPE---PTEGFAADDE------- 53
Query: 353 VMPGDNVLITVRLINPIA----------MEEGLRFAIREGVQQFIQDN---LLTKEIVNS 399
P + + + ++ ++ L + E +++ N L +++
Sbjct: 54 --PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE 111
Query: 400 NKINIDKGKEYIE---RSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILV 456
N + K KE I+ + KR + S S + + V + + G Q G
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ---GNTDD 168
Query: 457 PTEEIVDVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTKKVT-----GF-----IG 506
EE+ D+ + ++ LI+ + L++ T G +
Sbjct: 169 YFEELRDLYQTYHVLVGD-------LIK-FSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 507 GKSNRP-------TPIS 516
SN P PIS
Sbjct: 221 NPSNTPDKDYLLSIPIS 237
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 48.6 bits (117), Expect = 4e-06
Identities = 72/291 (24%), Positives = 121/291 (41%), Gaps = 60/291 (20%)
Query: 18 IGHVDHGKTTL-------TAAIATVLSKKFGGEAKSYDQI-DAAPEEKARGITI--NTAH 67
I H+DHGK+TL ++ + + Q+ D+ E+ RGITI +
Sbjct: 10 IAHIDHGKSTLSDRIIQICGGLS---------DREMEAQVLDSMDLERERGITIKAQSVT 60
Query: 68 IEYETK-ARHYA--HVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLAR 124
++Y+ Y +D PGH D+ + A +GA+LV A G QT + A
Sbjct: 61 LDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAM 120
Query: 125 QVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTG 184
++ + + V LNK D+ + E V EI +++ D SAK TG
Sbjct: 121 EMDLEVVPV-LNKIDLPAAD--PERVAEEIEDIVG---IDATDAVRC--SAK------TG 166
Query: 185 PLGEQSILSLSKALDTYIPTPN-------RA--IDGAFLLPVEDVFSISGRGTVVTGRVE 235
+G Q +L + L IP P +A ID F D + G V R++
Sbjct: 167 -VGVQDVL---ERLVRDIPPPEGDPEGPLQALIIDSWF-----DNY----LGVVSLIRIK 213
Query: 236 RGIVRVGEELEIIGIKDTVKTTCTGV-EMFRKLLDQGQAGDNIGLLLRGTK 285
G +R G++++++ T G+ + + + G+ +G L+ K
Sbjct: 214 NGTLRKGDKVKVMSTGQTYNADRLGIFTPKQVDRTELKCGE-VGWLVCAIK 263
>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 = 48.2 bits (116), Expect = 6e-06
Identities = 75/291 (25%), Positives = 122/291 (41%), Gaps = 60/291 (20%)
Query: 18 IGHVDHGKTTL-------TAAIATVLSKKFGGEAKSYDQI-DAAPEEKARGITI--NTAH 67
I HVDHGK+TL T AI+ E + +Q+ D E+ RGIT+
Sbjct: 12 IAHVDHGKSTLADRLLEYTGAIS---------EREKREQLLDTLDVERERGITVKMQAVR 62
Query: 68 IEYETK-ARHYA--HVDCPGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLAR 124
+ Y+ K Y +D PGH D+ + A +GA+L+ A+ G QT + A
Sbjct: 63 MFYKAKDGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAV 122
Query: 125 QVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTG 184
+ + I V +NK D+ + ++ V+ +I E+L + + SAK G
Sbjct: 123 EQDLVIIPV-INKIDLPSAD--VDRVKKQIEEVLG---LDPEEAILA--SAK------EG 168
Query: 185 PLGEQSILSLSKALDTYIPTPN-------RA--IDGAFLLPVEDVFSISGRGTVVTGRVE 235
+G + IL +A+ IP P +A D + D + RG V R+
Sbjct: 169 -IGIEEIL---EAIVNRIPPPKGDPQKPLKALIFDSYY-----DPY----RGAVAFVRIF 215
Query: 236 RGIVRVGEELEIIGIKDTVKTTCTGV-EMFRKLLDQGQAGDNIGLLLRGTK 285
G V+ G+++ ++ + T G D+ AGD +G + K
Sbjct: 216 DGEVKPGDKIMLMSTGKEYEVTEVGAQTPKMTKFDKLSAGD-VGYIAASIK 265
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 45.9 bits (110), Expect = 3e-05
Identities = 53/155 (34%), Positives = 71/155 (45%), Gaps = 33/155 (21%)
Query: 1 MAKS-KFERTKPHINVGTIGHVDHGKTTLTAAIA--TVLSKKFG----GEAKSYDQIDAA 53
MA+ E+T+ N+G + H+D GKTT T I T K G G + Q+D
Sbjct: 1 MAREFSLEKTR---NIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGAS----QMDWM 53
Query: 54 PEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQ-----MDGAILVCSA 108
+E+ RGITI +A + +D PGH D+ T + +DGA+ V A
Sbjct: 54 EQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDF-----TVEVERSLRVLDGAVTVLDA 108
Query: 109 ADGPMPQT----REHILLARQVGVPYIVVFLNKAD 139
G PQT R A GVP I VF+NK D
Sbjct: 109 QSGVEPQTETVWR----QATTYGVPRI-VFVNKMD 138
>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 = 46.0 bits (110), Expect = 3e-05
Identities = 51/162 (31%), Positives = 70/162 (43%), Gaps = 40/162 (24%)
Query: 1 MA-KSKFERTKPHINVGTIGHVDHGKTTLTAAIA--TVLSKKFG----GEAKSYDQIDAA 53
MA + R + N+G H+D GKTT T I T ++ K G G A +D
Sbjct: 1 MARTTPIARYR---NIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAA----TMDWM 53
Query: 54 PEEKARGITIN----TAHIEYETKARHYAHV---DCPGHADYIKNMITGAAQ-----MDG 101
+E+ RGITI TA K + D PGH D+ T + +DG
Sbjct: 54 EQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDF-----TIEVERSMRVLDG 108
Query: 102 AILVCSAADGPMPQT----REHILLARQVGVPYIVVFLNKAD 139
A++V A G PQ+ R+ A + VP I F+NK D
Sbjct: 109 AVMVYCAVGGVQPQSETVWRQ----ANKYKVPRI-AFVNKMD 145
>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 = 45.6 bits (109), Expect = 4e-05
Identities = 47/141 (33%), Positives = 62/141 (43%), Gaps = 29/141 (20%)
Query: 14 NVGTIGHVDHGKTTLTAAIA--TVLSKKFG----GEAKSYDQIDAAPEEKARGITINTAH 67
N+G H+D GKTT T I T K G G A +D +E+ RGITI A
Sbjct: 14 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAA----TMDFMEQERERGITITAAV 69
Query: 68 IEYETKARHYAHVDCPGHADYIKNMITGAAQ-----MDGAILVCSAADGPMPQT----RE 118
K +D PGH D+ T + +DGAI+V ++ G PQ+ R+
Sbjct: 70 TTCFWKDHRINIIDTPGHVDF-----TIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ 124
Query: 119 HILLARQVGVPYIVVFLNKAD 139
A + VP I F NK D
Sbjct: 125 ----AEKYKVPRI-AFANKMD 140
>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 = 39.7 bits (93), Expect = 9e-04
Identities = 35/191 (18%), Positives = 63/191 (32%), Gaps = 34/191 (17%)
Query: 1 MAKSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARG 60
M+ F + + + G GKTT I + + + GE S E R
Sbjct: 3 MSTINFANREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVS------LATEDERT 56
Query: 61 ITINTAHIEYETKARHYAHV---DCPGHA---DYIKNMITGAAQMDGAILVCSAADGPMP 114
+ + ++ PG K ++ G DG + V +A +
Sbjct: 57 LFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGV---DGIVFVADSAPNRLR 113
Query: 115 QTREHILLARQV---------GVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPG 165
E + R+ VP V+ +NK D+ D L +R +++ P
Sbjct: 114 ANAESMRNMRENLAEYGLTLDDVPI-VIQVNKRDLPD-----ALPVEMVRAVVD----PE 163
Query: 166 NDIPIIKGSAK 176
P+++ A
Sbjct: 164 GKFPVLEAVAT 174
>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 = 38.7 bits (91), Expect = 0.003
Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 17/94 (18%)
Query: 90 KNMIT--GAAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVD 142
N + +D A+LV SA P +L L + I+ K D+++
Sbjct: 76 TNELIRPPICNVDQAVLVFSAVQ---PSFSTALLDRFLVLVEANDIQPIICI-TKMDLIE 131
Query: 143 DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
D++ + I+ Y G + S+K
Sbjct: 132 DQDTED----TIQAYAEDYRNIG--YDVYLTSSK 159
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 39.2 bits (92), Expect = 0.003
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 15/78 (19%)
Query: 100 DGAILVCSAADGPMPQTREHIL-LARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELL 158
D ILV +A P + ++ L +++ +P++VV +NK D++ ++ E++ L
Sbjct: 115 DCGILVTDSAPTP---YEDDVVNLFKEMEIPFVVV-VNKIDVLGEK------AEELKGLY 164
Query: 159 NKYEFPGNDIPIIKGSAK 176
++ SA
Sbjct: 165 ESRYE----AKVLLVSAL 178
>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic
domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A
{Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A
Length = 97
Score = 36.2 bits (84), Expect = 0.004
Identities = 16/76 (21%), Positives = 28/76 (36%), Gaps = 11/76 (14%)
Query: 400 NKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTE 459
N +N K Y+ + + +KRW + KL NK G +
Sbjct: 10 NTLN---NKVYVGSAKDFEKRWKRHFKDLEKGCHSSIKLQRSFNKHGNVFEC-------- 58
Query: 460 EIVDVKKNQKSVIKKR 475
I++ +K +I +R
Sbjct: 59 SILEEIPYEKDLIIER 74
>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 = 37.5 bits (88), Expect = 0.009
Identities = 23/94 (24%), Positives = 43/94 (45%), Gaps = 18/94 (19%)
Query: 90 KNMIT--GAAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVD 142
KN++ A +D I+V + P+ ++L + V ++VF NK D+++
Sbjct: 69 KNLLIRPKVANVDRVIIVETLKM---PEFNNYLLDNMLVVYEYFKVEPVIVF-NKIDLLN 124
Query: 143 DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
+EE E+ ++ Y G ++K SAK
Sbjct: 125 EEEK-----KELERWISIYRDAG--YDVLKVSAK 151
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 37.1 bits (85), Expect = 0.014
Identities = 22/124 (17%), Positives = 38/124 (30%), Gaps = 27/124 (21%)
Query: 38 KKFGGEAKSYDQIDAAPEEKARGITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAA 97
FG + P + I+I +D PG K ++
Sbjct: 133 NPFGNTFLNRFMCAQLPNQVLESISI----------------IDTPGILSGAKQRVSRGY 176
Query: 98 QMDGA----------ILVCSAADGP-MPQTREHILLARQVGVPYIVVFLNKADMVDDEEL 146
I++ A + + A + I V LNKADMV+ ++L
Sbjct: 177 DFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQL 236
Query: 147 LELV 150
+ +
Sbjct: 237 MRVY 240
>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 = 36.5 bits (85), Expect = 0.018
Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 17/86 (19%)
Query: 96 AAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVDDEELLELV 150
AA +D ++V + P+ +I+ + V ++V NK D++DDE +
Sbjct: 128 AANIDQIVIVSAIL----PELSLNIIDRYLVGCETLQVEPLIVL-NKIDLLDDEGM---- 178
Query: 151 EIEIRELLNKYEFPGNDIPIIKGSAK 176
+ E ++ Y G ++ S+
Sbjct: 179 -DFVNEQMDIYRNIG--YRVLMVSSH 201
>2exu_A Transcription initiation protein SPT4/SPT5; helixs surrounding beta
sheet; 2.23A {Saccharomyces cerevisiae}
Length = 200
Score = 35.8 bits (82), Expect = 0.020
Identities = 23/150 (15%), Positives = 46/150 (30%), Gaps = 18/150 (12%)
Query: 380 REGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLI 439
V I K ++ Y R + + + G EK + RKL
Sbjct: 63 WLSVDHSIAGMYAIKVDGRLPAEVVELLPHYKPRDGSGSATIWGVRCRPGKEKELIRKL- 121
Query: 440 ERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTK 499
++KKF ++ + + S+ ++ + G + IE
Sbjct: 122 -------LKKKFNLDRAMGKKKLKIL----SIFQRDNYTGRIYIEAPKQSVIEKFCN--- 167
Query: 500 KVTGFIGGKSNRPTPISSKEIEEILKQIKK 529
G ++ I +E+ +LK +
Sbjct: 168 ---GVPDIYISQKLLIPVQELPLLLKPNLE 194
>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 = 34.9 bits (79), Expect = 0.025
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 6/33 (18%)
Query: 188 EQSILSLSKALDTYIP--TPNRAIDGAFLLPVE 218
+Q++ L +L Y P AI +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKAT----ME 47
>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 = 35.6 bits (83), Expect = 0.031
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 19/94 (20%)
Query: 90 KNMIT--GAAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVD 142
KN++T A +D ILV + P+T +I+ LA + + ++V NK D+ D
Sbjct: 74 KNLLTKPHVANVDQVILVVTVKM---PETSTYIIDKFLVLAEKNELETVMVI-NKMDLYD 129
Query: 143 DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
+++L ++REL Y PI+K SAK
Sbjct: 130 EDDL-----RKVRELEEIYS---GLYPIVKTSAK 155
>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 = 34.3 bits (79), Expect = 0.057
Identities = 23/156 (14%), Positives = 41/156 (26%), Gaps = 32/156 (20%)
Query: 24 GKTTLTAAIATVLSKKFG----------GEAKSYDQIDAAPEEKARGITINTAHIEYETK 73
GKTT ++ L+ + G A + + + P + +Y+
Sbjct: 13 GKTTTAVHLSAYLALQ-GETLLIDGDPNRSATGWGKRGSLPFKVVDERQAAKYAPKYQ-- 69
Query: 74 ARHYAHVDCPGHADYIKNMITGAAQMDGAILV-----CSAADGPMPQTREHILLARQVGV 128
+D A DG L+ A + I +++G
Sbjct: 70 ---NIVIDTQARP----EDEDLEALADGCDLLVIPSTPDALA--LDALMLTIETLQKLGN 120
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFP 164
+ L E R+LL P
Sbjct: 121 NRFRILLTIIPPYP-----SKDGDEARQLLTTAGLP 151
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 34.6 bits (79), Expect = 0.066
Identities = 24/117 (20%), Positives = 43/117 (36%), Gaps = 14/117 (11%)
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAAQM-----DGAILVCSAADGPMPQ 115
I + +H+ + DC G +++N T I V + +
Sbjct: 39 IDVEHSHLRF-LGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLK 97
Query: 116 TREH---ILLARQVGVP--YIVVFLNKADMVDD---EELLELVEIEIRELLNKYEFP 164
E L + P I V L+K D+V EEL +++ + E +++ FP
Sbjct: 98 DIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFP 154
>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 = 0.094
Identities = 28/153 (18%), Positives = 54/153 (35%), Gaps = 45/153 (29%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 188
P +V LNK D++++E + L + + ++ SA L G L E
Sbjct: 271 PSLVA-LNKVDLLEEEAVKALAD----------ALAREGLAVLPVSA-LTGAG-LPALKE 317
Query: 189 Q--SILSLSKALDTYIPTPNRAIDGAF-LLPVED-VFSISGRGTVVTGRVERGIVR---- 240
+++ + + P P + + ++PV + V+ + VER + R
Sbjct: 318 ALHALVRSTPPPEMPKPVPRKEVQAGVEVVPVAEGVYEVRAP------EVERYLARIKGD 371
Query: 241 ----------------VGEELEIIGIK--DTVK 255
V L G++ D V+
Sbjct: 372 LMEAAGYLQEVFRRQGVEAALRAKGVRAGDLVR 404
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 33.2 bits (76), Expect = 0.16
Identities = 7/42 (16%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPI 170
++ NK D + + L ++ I+++L+ + P
Sbjct: 144 SIVIG-FNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSF 184
>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 = 33.9 bits (77), Expect = 0.16
Identities = 20/174 (11%), Positives = 42/174 (24%), Gaps = 28/174 (16%)
Query: 13 INVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGITINTAHIEYET 72
+NV G GK++ + G ++ AA H
Sbjct: 70 LNVAVTGETGSGKSSFINTL-------RG---IGNEEEGAAKTGVVE--VTMERHPYKHP 117
Query: 73 KARHYAHVDCPGHADY---IKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVP 129
+ D PG + + + +A + +
Sbjct: 118 NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKKE 177
Query: 130 YIVVFLNKADMV------------DDEELLELVEIEIRELLNKYEFPGNDIPII 171
+ V K D D E++L+ + + + I ++
Sbjct: 178 FYFV-RTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLL 230
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 33.4 bits (75), Expect = 0.22
Identities = 15/137 (10%), Positives = 35/137 (25%), Gaps = 22/137 (16%)
Query: 85 HADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDE 144
+ + + V A+ R ++ + + +N D V +
Sbjct: 190 RNELSLGYVNNC---HAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRES 246
Query: 145 E---------------LLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE----GDTGP 185
L ++ + E D + + S+ AL
Sbjct: 247 LIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQAD 306
Query: 186 LGEQSILSLSKALDTYI 202
L +L+T++
Sbjct: 307 LDGTGFPKFMDSLNTFL 323
>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 = 32.9 bits (76), Expect = 0.26
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 93 ITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLE 148
+ +DG I + A Q + + QVG ++ L K D+ + E L
Sbjct: 117 LCQRYLLDGVIALVDAVHA-DEQMNQFTIAQSQVGYADRIL-LTKTDVAGEAEKLH 170
>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 = 31.9 bits (72), Expect = 0.54
Identities = 14/94 (14%), Positives = 33/94 (35%), Gaps = 3/94 (3%)
Query: 87 DYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEEL 146
D+++ + + + D L R VG +++ NKAD++
Sbjct: 58 DFLRILNGIGKSDALVVKIVDIFDFNGSWLPG---LHRFVGNNKVLLVGNKADLIPKSVK 114
Query: 147 LELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE 180
+ V+ +R + D+ +I + +
Sbjct: 115 HDKVKHWMRYSAKQLGLKPEDVFLISAAKGQGIA 148
>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 = 31.5 bits (71), Expect = 0.59
Identities = 20/127 (15%), Positives = 36/127 (28%), Gaps = 13/127 (10%)
Query: 61 ITINTAHIEYETKARHYAHVDCPGHADYIKNMITGAA---QMDGAILVCSAADG---PMP 114
I I + ++ D PG D+ I V A D +
Sbjct: 56 NKIYKDDISNSSFV-NFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALT 114
Query: 115 QTREHILLARQV--GVPYIVVFLNKADMVDDE---ELLELVEIEIRELLNKYEFPGNDIP 169
+ + A +V + VF++K D + D+ E + + L +
Sbjct: 115 RLHITVSKAYKVNPDMN-FEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLS 173
Query: 170 IIKGSAK 176
S
Sbjct: 174 FYLTSIY 180
>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 = 31.2 bits (71), Expect = 0.62
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 129 PYIVVFL--NKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
V L D+ D+++ + +ELLNK FP + +
Sbjct: 111 SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE 160
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 31.8 bits (72), Expect = 0.64
Identities = 13/90 (14%), Positives = 27/90 (30%), Gaps = 5/90 (5%)
Query: 87 DYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEEL 146
D++ + + + D L R I++ NKAD++
Sbjct: 60 DFLSMLHRIGESKALVVNIVDIFDFNGSFIPG---LPRFAADNPILLVGNKADLLPRSVK 116
Query: 147 LELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
+ +R + E + + SA
Sbjct: 117 YPKLLRWMRRMAE--ELGLCPVDVCLVSAA 144
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 31.6 bits (71), Expect = 0.68
Identities = 11/87 (12%), Positives = 24/87 (27%), Gaps = 3/87 (3%)
Query: 370 AMEEGLRFAIREGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSG 429
+ E L I E F+ ++ E+ + K ++ N + G
Sbjct: 39 TIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKTLQPNKVAE---MIENQG 95
Query: 430 MEKNVQRKLIERINKLGMQKKFGRILV 456
+ K+ + + K
Sbjct: 96 LFKDHVEDVNFQPVKYSALTSNNEECT 122
>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 = 31.4 bits (70), Expect = 0.82
Identities = 32/195 (16%), Positives = 57/195 (29%), Gaps = 35/195 (17%)
Query: 3 KSKFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAKSYDQIDAAPEEKARGIT 62
K + + +G GK+TL I ++ + A E+ I
Sbjct: 28 HRKSVKKGFEFTLMVVGESGLGKSTL---INSLFLTDL--YPERVIPGAAEKIERTVQIE 82
Query: 63 INTAHIEYETKARHYAHVDCPGHADYIKNM-----------------------ITGAAQM 99
+T IE VD PG+ D I + +
Sbjct: 83 ASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHII 142
Query: 100 DGAILVC---SAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRE 156
D + C + G + + + IV + KAD + +E L + + E
Sbjct: 143 DNRVHCCFYFISPFGHGLKPLDVAFMKAIHNKVNIVPVIAKADTLTLKERERLKKRILDE 202
Query: 157 L----LNKYEFPGND 167
+ + Y P +
Sbjct: 203 IEEHNIKIYHLPDAE 217
>3c48_A Predicted glycosyltransferases; retaining glycosyltransferase, beta
alpha beta, substrate AS catalysis; 2.10A
{Corynebacterium glutamicum} PDB: 3c4v_A* 3c4q_A*
Length = 438
Score = 31.5 bits (72), Expect = 0.89
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 103 ILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLEL 149
+++C GP + +A ++GV + FL D EL+ +
Sbjct: 279 VIICGGPSGPNATPDTYRHMAEELGVEKRIRFL---DPRPPSELVAV 322
>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 = 31.0 bits (71), Expect = 1.0
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRE 156
P I+V NK DM + E LE + ++ +
Sbjct: 276 PQIIV-ANKMDMPEAAENLEAFKEKLTD 302
>3h7h_B Transcription elongation factor SPT5; helices surrounding beta
sheet, activator, ME binding, nucleus, repressor,
transcription regulation; 1.55A {Homo sapiens}
Length = 106
Score = 29.1 bits (65), Expect = 1.2
Identities = 22/119 (18%), Positives = 40/119 (33%), Gaps = 19/119 (15%)
Query: 414 SINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIK 473
S + W V G E+ L+ + +I KSV+
Sbjct: 2 SHMDPNLWTV-KCKIGEERATAISLMRKFIAYQFTDTPLQI--------------KSVVA 46
Query: 474 KRFFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVE 532
GY+ +E + H+ + + V G N + KE+ ++LK +K+
Sbjct: 47 PEHVKGYIYVE---AYKQTHVKQAIEGVGNLRLGYWN-QQMVPIKEMTDVLKVVKEVAN 101
>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 = 30.4 bits (68), Expect = 1.5
Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 17/92 (18%)
Query: 92 MITGAAQMDGAILVCSAADGP------MPQTREHILL-ARQVGVPYIVVFLNKADMVDDE 144
M G +DG +L + G + ++ + P +VV L K D +
Sbjct: 156 MPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVV-LTKCDEGVER 214
Query: 145 ELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
+ L+K ++ +++ SA+
Sbjct: 215 Y----IRDAHTFALSKK-----NLQVVETSAR 237
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 30.4 bits (67), Expect = 1.5
Identities = 14/79 (17%), Positives = 26/79 (32%), Gaps = 5/79 (6%)
Query: 5 KFERTKPHINVGTIGHVDHGKTTLTAAIATVLSKKFGGEAK----SYDQIDAAPEEKARG 60
+ P + G GK+ + I L +K+GGE S D E++ +
Sbjct: 25 ETGNKCPLF-IFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKL 83
Query: 61 ITINTAHIEYETKARHYAH 79
+ + + H
Sbjct: 84 NEQFKNNKLLQGRGLPGTH 102
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 30.2 bits (68), Expect = 2.0
Identities = 27/129 (20%), Positives = 43/129 (33%), Gaps = 27/129 (20%)
Query: 61 ITINTAHIEYETKARHYAHVDCPG---HADYIKNMITGAA-----QMDGAILV---CSAA 109
IN E Y +D PG +N I A + I+ S
Sbjct: 202 RGINVGQFED--GYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEH 259
Query: 110 DGPMPQTREHIL---LARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGN 166
G + + H+ +P++VV +NK D+ D+E + L +
Sbjct: 260 CGFPLEEQIHLFEEVHGEFKDLPFLVV-INKIDVADEENIKRLEK----------FVKEK 308
Query: 167 DIPIIKGSA 175
+ IK SA
Sbjct: 309 GLNPIKISA 317
>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 = 29.7 bits (67), Expect = 2.2
Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 5/80 (6%)
Query: 80 VDCP-GHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKA 138
+D G + D I V + LA +G+ + +NK
Sbjct: 137 MDMGAGIEHLTRGTAKAV---DMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKV 193
Query: 139 DMVDDEELLELVEIEIRELL 158
+ +E+L++ + ++L
Sbjct: 194 RNIKEEKLIKK-HLPEDKIL 212
Score = 29.7 bits (67), Expect = 2.6
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 24 GKTTLTAAIATVLSKK 39
GKTT+ A + +++
Sbjct: 12 GKTTVAAGLIKIMASD 27
>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 = 29.7 bits (67), Expect = 2.3
Identities = 19/114 (16%), Positives = 37/114 (32%), Gaps = 21/114 (18%)
Query: 61 ITINTAHIEYET-KARHYAHVDCPGH----ADYIKNMITGAAQMDGAILVCSAADGP--M 113
IT ++A + + +D PGH + + A + V +A +
Sbjct: 39 ITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSA---RAVVFVVDSAAFQREV 95
Query: 114 PQTRE---HILLARQV--GVPYIVVFLNKADMVD----DE--ELLELVEIEIRE 156
E +L+ P +++ NK D+ + LE +R
Sbjct: 96 KDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRV 149
>2nwh_A AGR_C_3442P, carbohydrate kinase; structural genomics, APC6199,
PSI-2, PR structure initiative 2; 1.86A {Agrobacterium
tumefaciens str}
Length = 317
Score = 29.9 bits (68), Expect = 2.4
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 6/54 (11%)
Query: 112 PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV------EIEIRELLN 159
P L+AR P + ++ A V + L + E E R L
Sbjct: 145 PEDTLTALGLIARACEKPLAAIAISPAKAVKLKAALGDIDILFMNEAEARALTG 198
>2xcz_A Possible ATLS1-like light-inducible protein; cytokine, tautomerase,
immune system, cyanobacterium; 1.64A {Prochlorococcus
marinus}
Length = 115
Score = 28.4 bits (63), Expect = 2.7
Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 6/97 (6%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 188
P I + + + D LL+ + ++ ELL K E + ++ + G+T P
Sbjct: 2 PLINIQASVPAVADANSLLQELSSKLAELLGKPEK--YVMTSLQCGVPMTFSGNTEP--- 56
Query: 189 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 225
+ K++ + + + +E I
Sbjct: 57 -TCYVEVKSIGALDGSRTQEVSELVCGHIEQNLGIPA 92
>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 = 29.3 bits (67), Expect = 3.0
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 11/61 (18%)
Query: 118 EHIL-LARQVGVPYIVVFLNKADMVDD-EELLELVEIEIRELLNKYEFPGNDIPIIKGSA 175
E +L R+ P I+ +NK D V + +LL ++ + +N + +PI SA
Sbjct: 106 EMVLNKLREGKAPVILA-VNKVDNVQEKADLLPHLQ-FLASQMNFLDI----VPI---SA 156
Query: 176 K 176
+
Sbjct: 157 E 157
>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 = 29.4 bits (66), Expect = 3.0
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 115 QTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYE 162
+ +E A VG P I + + + ELV + ++LL
Sbjct: 103 EMKEISDFASWVGCPAIGLHIGFVPESSSPDYSELVRV-TQDLLTHAA 149
>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 = 29.4 bits (67), Expect = 3.3
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 9/77 (11%)
Query: 102 AILVCSAADGPMPQTREHIL--LARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLN 159
IL A E I + + P IVV +NK D + + + + EI +
Sbjct: 95 VILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVV-INKIDKIGPAKNVLPLIDEIHKKHP 153
Query: 160 KYEFPGNDIPIIKGSAK 176
+ I+ SA
Sbjct: 154 ELT------EIVPISAL 164
>3h5t_A Transcriptional regulator, LACI family; DNA-dependent, protein
structure initiative II(PSI II), NYSGXRC, 11232D),
structural genomics; 2.53A {Corynebacterium glutamicum}
Length = 366
Score = 29.5 bits (67), Expect = 3.4
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 83 PGHADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 133
H + + A +DG ++ A P HI R G+P ++
Sbjct: 115 VDHVSAQQLVN--NAAVDGVVIYSVAKGDP------HIDAIRARGLPAVIA 157
>3djh_A Macrophage migration inhibitory factor; homotrimer, cytokine,
inflammatory response, isomerase, phosphoprotein; 1.25A
{Homo sapiens} PDB: 1ca7_A* 1ljt_A* 2ooh_A* 2ooz_A*
3b9s_A* 2oow_A* 3ce4_A 3dji_A* 3ijg_A* 3ijj_A* 1gd0_A*
1gcz_A* 3jsf_A* 3jsg_A* 3jtu_A* 3l5p_A* 3l5r_A* 3l5s_A*
3l5t_A* 3l5u_A* ...
Length = 114
Score = 28.0 bits (62), Expect = 3.5
Identities = 13/97 (13%), Positives = 28/97 (28%), Gaps = 6/97 (6%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 188
P +V N + L + ++ + K + +A G + P
Sbjct: 1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQ--YIAVHVVPDQLMAFGGSSEPCAL 58
Query: 189 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 225
S+ ++ NR+ + + IS
Sbjct: 59 CSL----HSIGKIGGAQNRSYSKLLCGLLAERLRISP 91
>3dx5_A Uncharacterized protein ASBF; beta-alpha barrel, petrobactin
synthesis, ASB locus, structu genomics, PSI-2, protein
structure initiative; HET: MSE DHB TRS; 2.12A {Bacillus
anthracis}
Length = 286
Score = 29.0 bits (65), Expect = 3.8
Identities = 9/40 (22%), Positives = 13/40 (32%), Gaps = 4/40 (10%)
Query: 115 QTREHILLARQVGVPYIVVF---LNKADMVDDEELLELVE 151
+ + +LA I F AD +E E V
Sbjct: 85 KCEQLAILANWFKTNKIRTFAGQKGSADF-SQQERQEYVN 123
>3lpe_A Putative transcription antitermination protein NU; transcription
regulation, SPT4, SPT5, NUSG, archaea, evoluti directed
RNA polymerase; 1.90A {Methanocaldococcus jannaschii}
PDB: 3ewg_A
Length = 92
Score = 27.5 bits (61), Expect = 3.9
Identities = 24/114 (21%), Positives = 39/114 (34%), Gaps = 25/114 (21%)
Query: 412 ERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSV 471
R+ + + + G EKN+ + R K + IL
Sbjct: 3 RRASVGAHMIFAVRTMVGQEKNIAGLMASRAEKEQLDVY--SILASES------------ 48
Query: 472 IKKRFFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILK 525
GYVL+E E + L+K +V + P I+ +EIE +L
Sbjct: 49 -----LKGYVLVEAETKGDVEELIKGMPRV------RGIVPGTIAIEEIEPLLT 91
>3nks_A Protoporphyrinogen oxidase; FAD containing protein, PPO, variegate
porphyria disease, VP oxidoreductase-oxidoreductase
inhibitor complex; HET: ACJ FAD; 1.90A {Homo sapiens}
Length = 477
Score = 29.3 bits (65), Expect = 3.9
Identities = 8/63 (12%), Positives = 19/63 (30%)
Query: 102 AILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKY 161
I+ S A + + + +G ++ ++ E + + L
Sbjct: 345 GIVYDSVAFPEQDGSPPGLRVTVMLGGSWLQTLEASGCVLSQELFQQRAQEAAATQLGLK 404
Query: 162 EFP 164
E P
Sbjct: 405 EMP 407
>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA
segregation, unknown function; HET: ADP; 1.80A
{Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*
Length = 206
Score = 28.9 bits (65), Expect = 4.0
Identities = 26/165 (15%), Positives = 45/165 (27%), Gaps = 42/165 (25%)
Query: 24 GKTTLTAAIATVLSKK------------------FGGEAKSYDQIDAAPEEKARGITINT 65
GKTT IAT LS+ ++D AA E+ GI +
Sbjct: 14 GKTTAVINIATALSRSGYNIAVVDTDPQMSLTNWSKAGKAAFDVFTAASEKDVYGIRKDL 73
Query: 66 AHIEYETKARHYAHVDCPGHA-DYIKNMITGAAQMDGAI--LVCSAADGPMPQTREHILL 122
A +Y+ +A VD G + + D I + S D + +
Sbjct: 74 A--DYD-----FAIVDGAGSLSVITSAAVMVS---DLVIIPVTPSPLD--FSAAGSVVTV 121
Query: 123 ARQVGVPY---IVVFLNKADMVDDEELLELVEIEIRELLNKYEFP 164
+ + + ++E +
Sbjct: 122 LEAQAYSRKVEARFLIT---RKIEMATM---LNVLKESIKDTGVK 160
>1uiz_A MIF, macrophage migration inhibitory factor; cytokine, tautomerase;
2.50A {Xenopus laevis} SCOP: d.80.1.3
Length = 115
Score = 27.6 bits (61), Expect = 5.1
Identities = 11/97 (11%), Positives = 26/97 (26%), Gaps = 6/97 (6%)
Query: 129 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 188
P + N + LL + ++ + K I ++ T P
Sbjct: 2 PVFTIRTNVCRDSVPDTLLSDLTKQLAKATGKPAE--YIAIHIVPDQIMSFGDSTDPCAV 59
Query: 189 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 225
S+ ++ N++ + +I
Sbjct: 60 CSL----CSIGKIGGPQNKSYTKLLCDILTKQLNIPA 92
>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM,
RNA binding domain, ST genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.23A {Homo
sapiens} PDB: 3us5_A 2dny_A
Length = 118
Score = 27.4 bits (61), Expect = 5.8
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 131 IVVFLNKADMVDDEELLELVEIEIRELLNKY 161
++V N MVD +++ + +E E+ E K+
Sbjct: 22 VMVLRN---MVDPKDIDDDLEGEVTEECGKF 49
>3bbl_A Regulatory protein of LACI family; protein structure initiative II,
PSI-II, NYSGXRC, transcript regulator, periplasmic
binding protein; 2.35A {Chloroflexus aggregans}
Length = 287
Score = 28.7 bits (65), Expect = 6.0
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 86 ADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 133
Y + +G +DG +L + P Q L +Q P++
Sbjct: 54 DIYRDLIRSG--NVDGFVLSSINYNDPRVQ-----FLLKQ-KFPFVAF 93
>3qk7_A Transcriptional regulators; structural genomics, NEW YORK
structural genomix research CO NYSGXRC, PSI-2, protein
structur initiative; 2.70A {Yersinia pestis}
Length = 294
Score = 28.3 bits (64), Expect = 7.2
Identities = 5/49 (10%), Positives = 18/49 (36%), Gaps = 8/49 (16%)
Query: 85 HADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 133
+ I + T ++D I+ + + + ++ P++ +
Sbjct: 54 YQSLIHLVETR--RVDALIVAHTQPEDF------RLQYLQKQNFPFLAL 94
>3k4h_A Putative transcriptional regulator; structural genomics, protein
structure INI NEW YORK structural genomix research
consortium; HET: MAL; 2.80A {Bacillus cytotoxicus nvh
391-98}
Length = 292
Score = 27.9 bits (63), Expect = 8.4
Identities = 8/47 (17%), Positives = 18/47 (38%), Gaps = 8/47 (17%)
Query: 87 DYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 133
+K + Q+ G IL+ S + I + P++++
Sbjct: 60 GVVKMVQGR--QIGGIILLYSRENDR------IIQYLHEQNFPFVLI 98
>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem
G-domains, ligand binding protein; HET: GDP; 1.90A
{Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1
Length = 439
Score = 28.2 bits (64), Expect = 8.6
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 131 IVVFLNKADMVD-DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
VV NK D+V E+ + RE L + P+I SA
Sbjct: 295 SVVVFNKWDLVVHREKRYDEFTKLFREKLY----FIDYSPLIFTSAD 337
>3gv0_A Transcriptional regulator, LACI family; transcription regulator,
PSI-II, structural genomics structure initiative; 2.35A
{Agrobacterium tumefaciens str}
Length = 288
Score = 27.9 bits (63), Expect = 8.7
Identities = 7/49 (14%), Positives = 15/49 (30%), Gaps = 8/49 (16%)
Query: 85 HADYIKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 133
+ TG DG I+ + P + + +P++
Sbjct: 55 MVPIRYILETG--SADGVIISKIEPNDP------RVRFMTERNMPFVTH 95
>2nxv_A ATP synthase subunits region ORF 6; majastridin, ATPase operon,
glycosyl transferase, rossmann F sulphur SAD,
transferase; 1.10A {Rhodobacter blasticus} PDB: 2qgi_A*
Length = 249
Score = 28.1 bits (62), Expect = 8.7
Identities = 15/98 (15%), Positives = 32/98 (32%), Gaps = 8/98 (8%)
Query: 131 IVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPII--KGS-AKLALEGDTGPLG 187
V+F + +D EL++ ++ + E + GS + T
Sbjct: 77 YVIFCH-----EDVELVDRGYDDLVAAIEALEEADPKWLVAGVAGSPWRPLNHSVTAQAL 131
Query: 188 EQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 225
S + + +P ++D FLL ++
Sbjct: 132 HISDVFGNDRRRGNVPCRVESLDECFLLMRRLKPVLNS 169
>3v5n_A Oxidoreductase; structural genomics, PSI-biology, protein structure
initiati nysgrc, NEW YORK structural genomics research
consortium; 2.80A {Sinorhizobium meliloti}
Length = 417
Score = 27.9 bits (62), Expect = 9.7
Identities = 17/140 (12%), Positives = 46/140 (32%), Gaps = 24/140 (17%)
Query: 122 LARQVGVPYIVVF-------LNKA-DMVDDEEL--LELVEIEIRELLNKYEFPGNDIPII 171
A + +++ + +A +M+++ ++ + LV++E + +
Sbjct: 156 AADESDALFVLTHNYTGYPMVRQAREMIENGDIGAVRLVQMEYPQDWLTENIEQSGQKQA 215
Query: 172 KGSAKLALEGDTGPLGE--------------QSILSLSKALDTYIPTPNRAIDGAFLLPV 217
A G G G+ + L+ LD+++ + L+
Sbjct: 216 AWRTDPARSGAGGSTGDIGTHAYNLGCFVSGLELEELAADLDSFVGGRQLDDNAHVLMRF 275
Query: 218 EDVFSISGRGTVVTGRVERG 237
+ +G + +V G
Sbjct: 276 REKDGTRAKGMLWCSQVAPG 295
>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 = 27.6 bits (62), Expect = 9.8
Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 11/82 (13%)
Query: 100 DGAILVCSAAD-GPMPQTRE--HILLARQ--VGVPYIVVFLNKADMVDDEELLELVEIEI 154
+ I+V + D + TRE + +LA + +++F NK D+ + + EI
Sbjct: 90 EFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQDVKEC-----MTVAEI 143
Query: 155 RELLNKYEFPGNDIPIIKGSAK 176
+ L + I A
Sbjct: 144 SQFLKLTSIKDHQWHIQACCAL 165
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 27.8 bits (63), Expect = 9.8
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 131 IVVFLNKADMVD-DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 176
+V+ +NK D VD DE ++ E IR+ + PI+ SA
Sbjct: 289 VVIVVNKWDAVDKDESTMKEFEENIRDHFQ----FLDYAPILFMSAL 331
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 0.137 0.388
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,451,347
Number of extensions: 632666
Number of successful extensions: 2332
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2162
Number of HSP's successfully gapped: 152
Length of query: 593
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 494
Effective length of database: 3,937,614
Effective search space: 1945181316
Effective search space used: 1945181316
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: 60 (26.8 bits)