RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15224
(502 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 = 621 bits (1603), Expect = 0.0
Identities = 157/291 (53%), Positives = 213/291 (73%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVE 60
MITG A +DG ILV +A DGPMPQTREH+LLARQ+GV ++VV++NKAD V D E++ELVE
Sbjct: 83 MITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDSEMVELVE 142
Query: 61 IEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAIDG 120
+EIRELL ++ + G + PII GSA ALE LG +S+ L A+DTYIP P R ++
Sbjct: 143 LEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPVPTRDLEK 202
Query: 121 AFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQG 180
FLLPVE V+SI GRGTVVTG +ERGI++ G+E E +G ++T TG+EMF K LD+
Sbjct: 203 PFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGIEMFHKSLDRA 262
Query: 181 QAGDNIGLLLRGTKREDVERGQVLAKPGSIKPHKHFTGEIYALSKDEGGRHTPFFSNYRP 240
+AGDN+G L+RG KRED+ RG V+AKPGSI+PH+ ++Y L+K+EGGRH PF S++ P
Sbjct: 263 EAGDNLGALVRGLKREDLRRGLVMAKPGSIQPHQKVEAQVYILTKEEGGRHKPFVSHFMP 322
Query: 241 QFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREG 291
+ T D+ I LP KE+ MPG+++ +T+ L P+ +E+G RF +R+G
Sbjct: 323 VMFSLTWDMACRIILPPGKELAMPGEDLKLTLILRQPMILEKGQRFTLRDG 373
>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 = 615 bits (1589), Expect = 0.0
Identities = 205/300 (68%), Positives = 238/300 (79%), Gaps = 9/300 (3%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVE 60
MITGAAQMDGAILV SAADGPMPQTREHILLARQVGVPYIVVF+NK DMVDD ELL+LVE
Sbjct: 92 MITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVE 151
Query: 61 IEIRELLNKYEFPGNDIPIIKGSAKLALEGDTG--------PLGEQSILSLSKALDTYIP 112
+E+R+LLN+YEFPG+++P+I+GSA LALE I L A+D YIP
Sbjct: 152 MEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP 211
Query: 113 TPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIK-DTVKTTCTGVE 171
TP R +D FL+PVEDVF+I+GRGTV TGR+ERG V+VG+E+EI+G+ +T KT TGVE
Sbjct: 212 TPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTGVE 271
Query: 172 MFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPGSIKPHKHFTGEIYALSKDEGGRH 231
M RK L +G AGDN+G+LLRG RE+VERGQVLAKPGSI PH F +Y L K+EGGRH
Sbjct: 272 MHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTKFEASVYVLKKEEGGRH 331
Query: 232 TPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREG 291
T FFS YRPQFYFRTTDVTG ++LP EMVMPGDNV TV LI P+A+EEGLRFAIREG
Sbjct: 332 TGFFSGYRPQFYFRTTDVTGVVQLPPGVEMVMPGDNVTFTVELIKPVALEEGLRFAIREG 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 = 633 bits (1634), Expect = 0.0
Identities = 221/291 (75%), Positives = 256/291 (87%), Gaps = 2/291 (0%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVE 60
MITGAAQMDGAILV +A DGPMPQTREHILL RQVGVPYI+VFLNK DMVDDEELLELVE
Sbjct: 376 MITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVE 435
Query: 61 IEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAIDG 120
+E+RELL++Y+FPG+D PI++GSA ALEGD E IL L+ LD+YIP P RAID
Sbjct: 436 MEVRELLSQYDFPGDDTPIVRGSALKALEGD--AEWEAKILELAGFLDSYIPEPERAIDK 493
Query: 121 AFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQG 180
FLLP+EDVFSISGRGTVVTGRVERGI++VGEE+EI+GIK+T K+TCTGVEMFRKLLD+G
Sbjct: 494 PFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEG 553
Query: 181 QAGDNIGLLLRGTKREDVERGQVLAKPGSIKPHKHFTGEIYALSKDEGGRHTPFFSNYRP 240
+AG+N+G+LLRG KRE++ERGQVLAKPG+IKPH F E+Y LSKDEGGRHTPFF YRP
Sbjct: 554 RAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHTPFFKGYRP 613
Query: 241 QFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREG 291
QFYFRTTDVTG+IELP+ EMVMPGDN+ + V LI+PIAM++GLRFAIREG
Sbjct: 614 QFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREG 664
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 455 bits (1174), Expect = e-159
Identities = 46/293 (15%), Positives = 110/293 (37%), Gaps = 14/293 (4%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVE 60
+IT D A+L G T E I+ +G + ++ L ++D ++ ++
Sbjct: 77 LITALNISDIAVLCI-PPQGLDAHTGECIIALDLLGFKHGIIALTRSDSTHMH-AIDELK 134
Query: 61 IEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAID- 119
+++ + + D I + + + G + + + I N ++
Sbjct: 135 AKLKVITSGTVL--QDWECISLNTNKSAKNP--FEGVDELKARINEVAEKIEAENAELNS 190
Query: 120 GAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQ 179
+ ++ F+++G+G VV G V++GI + ++ +I + ++ +D
Sbjct: 191 LPARIFIDHAFNVTGKGCVVLGVVKQGISKDKDKTKIFPLDR--DIEIRSIQSHDVDIDS 248
Query: 180 GQAGDNIGLLLRGTKREDVERGQVLAKPGSIKPHKHFTGEIYALSKD-EGGRHTPFFSNY 238
AG +G+ L+ + +D+ERG +++ + + +K E F
Sbjct: 249 APAGTRVGMRLKNVQAKDIERGFIISDKEIVTTDYTLECTVSKFTKKIEPASVLHLFVGL 308
Query: 239 RPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREG 291
+ + V + E PG ++ + +A + RF +
Sbjct: 309 QSE----PVRVEKILVDGNEVEEAKPGSTCVLELSGNKKLAYSKQDRFLLANL 357
>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 = 422 bits (1088), Expect = e-145
Identities = 83/319 (26%), Positives = 134/319 (42%), Gaps = 50/319 (15%)
Query: 1 MITGAAQMDGAILVCSAADG-PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV 59
M+ GA+ MDGAILV +A + P PQTREH++ + +G I++ NK ++VD E+ LE
Sbjct: 100 MLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENY 159
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAID 119
+I+E + + PII SA I L KA++ +IPTP R +
Sbjct: 160 R-QIKEFIEGT--VAENAPIIPISALHGAN----------IDVLVKAIEDFIPTPKRDPN 206
Query: 120 GAFLLPVEDVFSISGRGT--------VVTGRVERGIVRVGEELEIIGIKDT--------- 162
+ V F ++ GT V+ G + +G ++VG+E+EI
Sbjct: 207 KPPKMLVLRSFDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYE 266
Query: 163 -VKTTCTGVEMFRKLLDQGQAGDNIGL---LLRGTKREDVERGQVLAKPGSIKP-HKHFT 217
+ T ++ + +++ G +G+ L + D+ G V+ KPG + P
Sbjct: 267 PITTEIVSLQAGGQFVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKLPPVWDSLR 326
Query: 218 GEIYALSKDEGGRH----TPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVR 273
E++ L + G P T G +V I V+
Sbjct: 327 LEVHLLERVVGTEQELKVEPIKRKEVLLLNVGTARTMG---------LVTGLGKDEIEVK 377
Query: 274 LINPIAMEEGLRFAI-REG 291
L P+ E G R AI R+
Sbjct: 378 LQIPVCAEPGDRVAISRQI 396
>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 = 418 bits (1077), Expect = e-143
Identities = 72/307 (23%), Positives = 126/307 (41%), Gaps = 41/307 (13%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVE 60
+++ A +D A++V A +GP QT EH+L+ +P IVV + K+D EE ++ E
Sbjct: 90 VVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVV-ITKSDNAGTEE-IKRTE 147
Query: 61 IEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYI--PTPNRAI 118
+ ++ +L + II SAK D L + T + R
Sbjct: 148 MIMKSILQST-HNLKNSSIIPISAKTGFGVDE----------LKNLIITTLNNAEIIRNT 196
Query: 119 DGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLD 178
+ F +P++ F I G GTVVTG + +GIV+VG+EL+++ I T ++ F++ +
Sbjct: 197 ESYFKMPLDHAFPIKGAGTVVTGTINKGIVKVGDELKVLPINM--STKVRSIQYFKESVM 254
Query: 179 QGQAGDNIGLLLRGTKREDVERGQVLAKPGS-IKPHKHFTGEIYALSKDEGGRHTPFFSN 237
+ +AGD +G+ ++G + + RG +L + ++ +I F N
Sbjct: 255 EAKAGDRVGMAIQGVDAKQIYRGXILTSKDTKLQTVDKIVAKIKISD--------IFKYN 306
Query: 238 YRPQFYFR----TTDVTGSIEL-----------PKNKEMVMPGDNVLITVRLINPIAMEE 282
P+ V V+ G+ L + E
Sbjct: 307 LTPKMKVHLNVGMLIVPAVAVPFKKVTFGKTEENIILNEVISGNEXYXAFELEEKVLAEV 366
Query: 283 GLRFAIR 289
G R I
Sbjct: 367 GDRVLIT 373
>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 = 411 bits (1059), Expect = e-141
Identities = 92/320 (28%), Positives = 138/320 (43%), Gaps = 51/320 (15%)
Query: 1 MITGAAQMDGAILVCSAADG-PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV 59
M++GA+ MDGAILV +A + P PQT+EH++ +G+ I++ NK D+VD+++ E
Sbjct: 98 MLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENY 157
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAID 119
E +I+E + + PII SA E +I L KA+ +IPTP R D
Sbjct: 158 E-QIKEFVKGT--IAENAPIIPISA----------HHEANIDVLLKAIQDFIPTPKRDPD 204
Query: 120 GAFLLPVEDVFSISGRGT--------VVTGRVERGIVRVGEELEII-GIKDT-------- 162
+ V F I+ GT V+ G + +G+ +VG+E+EI GIK T
Sbjct: 205 ATPRMYVARSFDINKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWK 264
Query: 163 -VKTTCTGVEMFRKLLDQGQAGDNIG---LLLRGTKREDVERGQVLAKPGSIKP-HKHFT 217
+ T + +L + G IG L + D G V+ PG++ P + T
Sbjct: 265 PLTTKIVSLAAGNTILRKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGTLPPIREKIT 324
Query: 218 GEIYALSKDEGGRH----TPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVR 273
L + G + P + T G I GD ++
Sbjct: 325 IRANLLDRVVGTKEELKIEPLRTGEVLMLNIGTATTAGVI-------TSARGDIA--DIK 375
Query: 274 LINPIAMEEGLRFAI--REG 291
L PI E G R AI R G
Sbjct: 376 LKLPICAEIGDRVAISRRVG 395
>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 = 408 bits (1050), Expect = e-140
Identities = 68/321 (21%), Positives = 128/321 (39%), Gaps = 52/321 (16%)
Query: 1 MITGAAQMDGAILVCSAADG-PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV 59
M++GAA MDGAILV +A + P PQTREH + +GV +++ NK D+V EE L
Sbjct: 92 MLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKEEALSQY 151
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAID 119
+ ++PII SA + D SL + ++ YI TP R +
Sbjct: 152 RQIKQFT---KGTWAENVPIIPVSALHKINID----------SLIEGIEEYIKTPYRDLS 198
Query: 120 GAFLLPVEDVFSISG--------RGTVVTGRVERGIVRVGEELEII-GIKDTVKTTCTGV 170
++ V F ++ +G V+ G + +G+ +V +E++++ G++ + +
Sbjct: 199 QKPVMLVIRSFDVNKPGTQFNELKGGVIGGSIIQGLFKVDQEIKVLPGLRVEKQGKVSYE 258
Query: 171 EMFRKL---------LDQGQAGDNIGL---LLRGTKREDVERGQVLAKPGS-IKPHKHFT 217
+F K+ + + G + + L + D G ++ + + +
Sbjct: 259 PIFTKISSIRFGDEEFKEAKPGGLVAIGTYLDPSLTKADNLLGSIITLADAEVPVLWNIR 318
Query: 218 GEIYALSK----DEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVR 273
+ L + E + P + ++ G +V I V
Sbjct: 319 IKYNLLERVVGAKEMLKVDPIRAKETLMLSVGSSTTLG---------IVTSVKKDEIEVE 369
Query: 274 LINPIAMEEG-LRFAI--REG 291
L P+A+ +R I +
Sbjct: 370 LRRPVAVWSNNIRTVISRQIA 390
>2jvv_A Transcription antitermination protein NUSG; transcription factor,
transcription regulation, transcription termination; NMR
{Escherichia coli} PDB: 2k06_A 2kvq_G
Length = 181
Score = 301 bits (774), Expect = e-101
Identities = 95/177 (53%), Positives = 135/177 (76%)
Query: 325 NNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKR 384
KKRWYV+ ++SG E V L E I M+ FG ++VPTEE+V+++ Q+ +++
Sbjct: 4 APKKRWYVVQAFSGFEGRVATSLREHIKLHNMEDLFGEVMVPTEEVVEIRGGQRRKSERK 63
Query: 385 FFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPR 444
FFPGYVL++M M D SWHLV++ +V GFIGG S+RP PIS KE++ I+ ++++ +KPR
Sbjct: 64 FFPGYVLVQMVMNDASWHLVRSVPRVMGFIGGTSDRPAPISDKEVDAIMNRLQQVGDKPR 123
Query: 445 PKILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEK 501
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 = 263 bits (673), Expect = 2e-85
Identities = 59/212 (27%), Positives = 97/212 (45%), Gaps = 10/212 (4%)
Query: 293 QQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERIN 352
+ + + K K+ E V +
Sbjct: 45 EVIVPAEEKVVIRAQGKEKYRLSLKGNARDISVLGKKGVTTFRIENGEVKVVESVEGDTC 104
Query: 353 KLGMQKKFGRILVPTEEIV--DVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTKKV 410
I P ++I + K K V+ + FPGY+LI+ M D+ ++ T V
Sbjct: 105 VNAPP-----ISKPGQKITCKENKTEAKIVLDNKIFPGYILIKAHMNDKLLMAIEKTPHV 159
Query: 411 TGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPKILYQLDELVRIKDGPFTDFSGNIE 470
+ +P P+ +E++ IL QIK+GV K+ ++ + VR+ +GPF +F+G +E
Sbjct: 160 FRPVMVGG-KPVPLKEEEVQNILNQIKRGV--KPSKVEFEKGDQVRVIEGPFMNFTGTVE 216
Query: 471 EVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 502
EV+ EK ++ V ++IFGR TPVEL+F+QVEKI
Sbjct: 217 EVHPEKRKLTVMISIFGRMTPVELDFDQVEKI 248
>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga
maritima}
Length = 352
Score = 251 bits (643), Expect = 1e-79
Identities = 66/273 (24%), Positives = 135/273 (49%), Gaps = 11/273 (4%)
Query: 240 PQFYFRTTDVTGSIELPKNKEMVMPGDNVLITVRLINPIAMEEGLRFAIREGVQQFIQDN 299
P Y R + V ++ + + T + +E GLR + + N
Sbjct: 81 PPIYARRSGVIVDVKNVRKIVVETIDRKYTKTYYIPESAGIEPGLRVGTKVKQGLPLSKN 140
Query: 300 LLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQ-K 358
++ + I++ K+ + ++ + ++ Y I +++ + ++ + +
Sbjct: 141 EEYICELDGKIVEIERMKKVVVQTPDGEQDVYYIPLDVFDRDRIKKGKEVKQGEMLAEAR 200
Query: 359 KFGRILVPTEEIVDVKKNQKSVIKK----RFFPGYVLIEMEMTDESWHLVKNTKKVTGFI 414
KF + E+VD ++ I K + FPGYV +EM M DE+++ V++ V GF+
Sbjct: 201 KFFAKVSGRVEVVDYSTRKEIRIYKTKRRKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFV 260
Query: 415 GGKSNRPTPISSKEIEEILK-----QIKKGVEKPRPKILYQLDELVRIKDGPFTDFSGNI 469
+P P+ +E+ IL+ + ++ + + ++ +++ ++V+I GPF DF+G I
Sbjct: 261 SSGG-QPVPVKDREMRPILRLAGLEEYEEKKKPVKVELGFKVGDMVKIISGPFEDFAGVI 319
Query: 470 EEVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 502
+E++ E+ ++V+VTIFGR TPV L ++VEKI
Sbjct: 320 KEIDPERQELKVNVTIFGRETPVVLHVSEVEKI 352
Score = 111 bits (279), Expect = 3e-27
Identities = 27/150 (18%), Positives = 62/150 (41%), Gaps = 6/150 (4%)
Query: 327 KKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFF 386
KK+WY++ + SG E+ V+ + +++ G++ GRI++P E ++D + +I
Sbjct: 2 KKKWYIVLTMSGYEEKVKENIEKKVEATGIKNLVGRIVIPEEVVLDATSPSERLILSPKA 61
Query: 387 PGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGV---EKP 443
+V ++ L+ + G + +E I ++ K E
Sbjct: 62 KLHVNNGKDV--NKGDLIAEEPPIYARRSGVIVDVKNVRKIVVETIDRKYTKTYYIPESA 119
Query: 444 RPKILYQLDELVRIKDGPFTDFSGNIEEVN 473
+ ++ V+ + P + I E++
Sbjct: 120 GIEPGLRVGTKVK-QGLPLSKNEEYICELD 148
>2oug_A Transcriptional activator RFAH; transcription factor, virulence,
transcription pausing, transcription elongation; 2.10A
{Escherichia coli}
Length = 162
Score = 196 bits (501), Expect = 4e-61
Identities = 28/175 (16%), Positives = 64/175 (36%), Gaps = 14/175 (8%)
Query: 328 KRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFP 387
+ WY+++ G + Q L + L P + + + +++ + + FP
Sbjct: 2 QSWYLLYCKRGQLQRAQEHLERQA---------VNCLAPMITLEKIVRGKRTAVSEPLFP 52
Query: 388 GYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPKI 447
Y+ +E + + T+ V+ F+ P + S I ++ K + P
Sbjct: 53 NYLFVEFDPEVIHTTTINATRGVSHFVRF-GASPAIVPSAVIHQLSVYKPKDIVDP---A 108
Query: 448 LYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEKI 502
+ 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 = 171 bits (435), Expect = 5e-52
Identities = 40/115 (34%), Positives = 69/115 (60%), Gaps = 7/115 (6%)
Query: 328 KRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKR-FF 386
WY +H+ G E+ + L +RI G+Q K ++L+PTEE+V++++ K + ++ F
Sbjct: 2 IEWYAVHTLVGQEEKAKANLEKRIKAFGLQDKIFQVLIPTEEVVELREGGKKEVVRKKLF 61
Query: 387 PGYVLIEMEMTD-----ESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQI 436
PGY+ I+M++ D E+W +V+ T +TGF+G RP P+S E+ IL+
Sbjct: 62 PGYLFIQMDLGDEEEPNEAWEVVRGTPGITGFVGAGM-RPVPLSPDEVRHILEVS 115
>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 = 150 bits (382), Expect = 1e-40
Identities = 94/334 (28%), Positives = 153/334 (45%), Gaps = 62/334 (18%)
Query: 1 MITGAAQMDGAILVCSAADG-------PMPQTREHILLARQVGVPYIVVFLNKADMVD-- 51
MITGA+Q D AILV SA G QTREHI+LA+ +G+ ++V +NK D+ +
Sbjct: 101 MITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPP 160
Query: 52 -DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGD------------TGPLGEQ 98
DE+ + + ++ + + Y F N + + A GD GP
Sbjct: 161 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVA---PSGDNITHKSENMKWYNGP---- 213
Query: 99 SILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIG 158
+L + LD + P + +D +P++DV+SISG GTV GRVE G+++VG+++ +
Sbjct: 214 ---TLEEYLDQ-LELPPKPVDKPLRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMP 269
Query: 159 IKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVL-AKPGSIKPHKHFT 217
+E +D+ + GDNIG +RG +++D++RG V+ FT
Sbjct: 270 AG--KVGEVRSIETHHTKMDKAEPGDNIGFNVRGVEKKDIKRGDVVGHPNNPPTVADEFT 327
Query: 218 GEIYALSKDEGGRHTPFFSN-YRPQFYFRTTDVTGSI-------------ELPKNKEMVM 263
I + H +N Y P + T V + E KN + +
Sbjct: 328 ARIIVVW------HPTALANGYTPVLHVHTASVACRVSELVSKLDPRTGQEAEKNPQFLK 381
Query: 264 PGDNVLITVRLINPIAME-----EGL-RFAIREG 291
GD ++ + I P+ +E L RFA+R+
Sbjct: 382 QGDVAIVKFKPIKPLCVEKYNEFPPLGRFAMRDM 415
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 150 bits (380), Expect = 2e-39
Identities = 69/327 (21%), Positives = 120/327 (36%), Gaps = 55/327 (16%)
Query: 1 MITGAAQMDGAILVCSAADGPM-------PQTREHILLARQVGVPYIVVFLNKADMVD-D 52
MI GA+ D A+LV ++ QTREH L R +G+ IVV +NK D++
Sbjct: 272 MIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMSWS 331
Query: 53 EELLELVEIEIRELLNKYE-FPGNDIPIIKGSAKLALEGD--------------TGPLGE 97
E+ + ++ + + L K F +++ + S A+ G GP
Sbjct: 332 EDRFQEIKNIVSDFLIKMVGFKTSNVHFVPIS---AISGTNLIQKDSSDLYKWYKGP--- 385
Query: 98 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEII 157
+L ALD + P + L ++DV+ TV GRVE G V+V + L +
Sbjct: 386 ----TLLSALDQ-LVPPEKPYRKPLRLSIDDVYRSPRSVTVT-GRVEAGNVQVNQVLYDV 439
Query: 158 GIKDTVKTTCTGVEMF-RKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPG-SIKPHKH 215
++ V AGD + L L + + G +L+ ++ +
Sbjct: 440 SSQED--AYVKNVIRNSDPSSTWAVAGDTVTLQLADIEVNQLRPGDILSNYENPVRRVRS 497
Query: 216 FTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELP----KNKEMVMPGDNVLIT 271
F EI P S + T + S+++ K + L+
Sbjct: 498 FVAEIQTFDIH-----GPILSGSTLVLHLGRTVTSVSLKIVTVNNKRSRHIASRKRALVR 552
Query: 272 VRLINP-IAME------EGLRFAIREG 291
+ ++ + RF +R
Sbjct: 553 ISFLDGLFPLCLAEECPALGRFILRRS 579
>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 = 144 bits (365), Expect = 3e-38
Identities = 72/339 (21%), Positives = 120/339 (35%), Gaps = 71/339 (20%)
Query: 1 MITGAAQMDGAILVCSAADG-------PMPQTREHILLARQVGVPYIVVFLNKADMVD-- 51
MI GA+Q D +LV SA G QTREH +LAR G+ ++VV +NK D
Sbjct: 138 MINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQ 197
Query: 52 -DEELLELVEIEIRELLNKYEF--PGNDIPIIKGSAKLALEGD--------------TGP 94
EE + ++ L + D+ + S A G GP
Sbjct: 198 WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVS---AYTGQNVKDRVDSSVCPWYQGP 254
Query: 95 LGEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEEL 154
SL + LD+ + R ++ F++P+ + GT++ G++E G ++ +
Sbjct: 255 -------SLLEYLDS-MTHLERKVNAPFIMPIASKY--KDLGTILEGKIEAGSIKKNSNV 304
Query: 155 EI--IGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPG-SIK 211
+ I V + + + GD + L +RG DV+ G VL +
Sbjct: 305 LVMPINQTLEVTAI---YDEADEEISSSICGDQVRLRVRGDD-SDVQTGYVLTSTKNPVH 360
Query: 212 PHKHFTGEIYALSKDEGGRHTPFFSN-YRPQFYFRTTDVTGSIE------------LPKN 258
F +I L + Y + T S K
Sbjct: 361 ATTRFIAQIAILE------LPSILTTGYSCVMHIHTAVEEVSFAKLLHKLDKTNRKSKKP 414
Query: 259 KEMVMPGDNVLITVRLINPIAME-----EGL-RFAIREG 291
G ++ + P+ ME + + RF +R+
Sbjct: 415 PMFATKGMKIIAELETQTPVCMERFEDYQYMGRFTLRDQ 453
>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 = 140 bits (356), Expect = 7e-37
Identities = 66/356 (18%), Positives = 115/356 (32%), Gaps = 85/356 (23%)
Query: 1 MITGAAQMDGAILVCSAADGPM-------PQTREHILLARQVGVPYIVVFLNKADMVD-D 52
I G +Q D AIL + QT+EH+LLA +G+ +++ +NK D VD
Sbjct: 128 AIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWS 187
Query: 53 EELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGD---------------TGPLGE 97
++ E ++ ++ L F ++I + S G+ GP
Sbjct: 188 QQRFEEIKSKLLPYLVDIGFFEDNINWVPIS---GFSGEGVYKIEYTDEVRQWYNGP--- 241
Query: 98 QSILSLSKALD-----TYIPTPNRAIDGAFLLPVEDVFS---ISGRGTVVTGRVERGIVR 149
+L L+ D FL V ++ S +V+G++E G ++
Sbjct: 242 ----NLMSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQ 297
Query: 150 VGEELEI--IGIKDTVKTTCTGVEMFRKL--------LDQGQAGDNIGLLLRGTKREDVE 199
GE L I V +++ + D GD + L LR ED++
Sbjct: 298 PGESLTIYPSEQSCIVDK----IQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQ 353
Query: 200 RGQVLAKPGS--IKPHKHFTGEIYALSKDEGGRH-TPFFSNYRPQFYFRTTDVTGSIE-- 254
G + A I + F E+ P + + I+
Sbjct: 354 NGDLAASVDYSSIHSAQCFVLELTTFD------MNRPLLPGTPFILFIGVKEQPARIKRL 407
Query: 255 ----------LPKNKEMVMPGDNVLITVRLI---NPIAMEE-----GL-RFAIREG 291
K + + + LI I + L R +R+
Sbjct: 408 ISFIDKGNTASKKKIRHLGSKQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLRKD 463
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 141 bits (358), Expect = 2e-36
Identities = 66/356 (18%), Positives = 115/356 (32%), Gaps = 85/356 (23%)
Query: 1 MITGAAQMDGAILVCSAADGPM-------PQTREHILLARQVGVPYIVVFLNKADMVD-D 52
I G +Q D AIL + QT+EH+LLA +G+ +++ +NK D VD
Sbjct: 262 AIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWS 321
Query: 53 EELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGD---------------TGPLGE 97
++ E ++ ++ L F ++I + S G+ GP
Sbjct: 322 QQRFEEIKSKLLPYLVDIGFFEDNINWVPIS---GFSGEGVYKIEYTDEVRQWYNGP--- 375
Query: 98 QSILSLSKALDT-----YIPTPNRAIDGAFLLPVEDVFS---ISGRGTVVTGRVERGIVR 149
+L L+ D FL V ++ S +V+G++E G ++
Sbjct: 376 ----NLMSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQ 431
Query: 150 VGEELEI--IGIKDTVKTTCTGVEMFRKL--------LDQGQAGDNIGLLLRGTKREDVE 199
GE L I V +++ + D GD + L LR ED++
Sbjct: 432 PGESLTIYPSEQSCIVDK----IQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQ 487
Query: 200 RGQVLAKPGS--IKPHKHFTGEIYALSKDEGGRH-TPFFSNYRPQFYFRTTDVTGSIE-- 254
G + A I + F E+ P + + I+
Sbjct: 488 NGDLAASVDYSSIHSAQCFVLELTTFD------MNRPLLPGTPFILFIGVKEQPARIKRL 541
Query: 255 ----------LPKNKEMVMPGDNVLITVRLI---NPIAMEE-----GL-RFAIREG 291
K + + + LI I + L R +R+
Sbjct: 542 ISFIDKGNTASKKKIRHLGSKQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLRKD 597
>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 = 139 bits (352), Expect = 2e-36
Identities = 91/339 (26%), Positives = 136/339 (40%), Gaps = 57/339 (16%)
Query: 1 MITGAAQMDGAILVCSAADG-------PMPQTREHILLARQVGVPYIVVFLNKADMVD-D 52
MITG +Q D AIL+ + G QTREH LLA +GV ++V +NK D V D
Sbjct: 102 MITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWD 161
Query: 53 EELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGD-----------------TGPL 95
E + + E + K + +P + S GD
Sbjct: 162 ESRFQEIVKETSNFIKKVGYNPKTVPFVPISG---WNGDNMIEATTNAPWYKGWEKETKA 218
Query: 96 GEQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELE 155
G +L +A+D I P+R D LP++DV+ I G GTV GRVE G+++ G +
Sbjct: 219 GVVKGKTLLEAIDA-IEQPSRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVT 277
Query: 156 IIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVL--AKPGSIKPH 213
V T VEM + L+QG GDN+G ++ +++ RG V AK K
Sbjct: 278 FAPAG--VTTEVKSVEMHHEQLEQGVPGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGC 335
Query: 214 KHFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSI-------------ELPKNKE 260
F + L+ + Y P T + +L + +
Sbjct: 336 ASFNATVIVLNHP-----GQISAGYSPVLDCHTAHIACRFDELLEKNDRRSGKKLEDHPK 390
Query: 261 MVMPGDNVLITVRLINPIAME-----EGL-RFAIREGVQ 293
+ GD L+ P+ +E L RFA+R+ Q
Sbjct: 391 FLKSGDAALVKFVPSKPMCVEAFSEYPPLGRFAVRDMRQ 429
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 114 bits (288), Expect = 2e-30
Identities = 26/178 (14%), Positives = 56/178 (31%), Gaps = 36/178 (20%)
Query: 327 KKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFF 386
+ + + G E+ + + ++ + IL P+
Sbjct: 2 AGKIFAVRVTHGQEETTAKLIYSKVRTYNLPIY--AILAPSR-----------------V 42
Query: 387 PGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPK 446
GY+ +E ++ + G + P + KEIE L++
Sbjct: 43 KGYIFVEAPNKGVVDEAIRGIRHARGVL------PGEVPFKEIEHFLEEKPAVSG----- 91
Query: 447 ILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVEL--EFNQVEKI 502
+ +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 = 3e-28
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 124 LPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLDQGQAG 183
+ VE+V +I G+ ++ G VE G++ VG +++ + +E R+ ++ AG
Sbjct: 37 VVVEEVVNIMGKDVII-GTVESGMIGVGFKVK----GPSGIGGIVRIERNREKVEFAIAG 91
Query: 184 DNIGLLLRGTKREDVERGQVLAKPGS 209
D IG+ + G K V++G VL +
Sbjct: 92 DRIGISIEG-KIGKVKKGDVLEIYQT 116
>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 = 115 bits (289), Expect = 6e-28
Identities = 59/227 (25%), Positives = 98/227 (43%), Gaps = 38/227 (16%)
Query: 1 MITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVD-DEELLELV 59
M TGA+ D AI++ A G QTR H +A +G+ +IVV +NK D+ DE + E +
Sbjct: 121 MATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESI 180
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAKLALEGD------------TGPLGEQSILSLSKAL 107
+ + + F + + S AL+GD G SL + L
Sbjct: 181 KADYLKFAEGIAFKPTTMAFVPMS---ALKGDNVVNKSERSPWYAGQ-------SLMEIL 230
Query: 108 DTYIPTPNRAIDGAFLLPVEDV--FSISGRGTVVTGRVERGIVRVGEELEII--GIKDTV 163
+T + + PV+ V +++ RG G + GIV G+E+ ++ G V
Sbjct: 231 ET-VEIASDRNYTDLRFPVQYVNRPNLNFRG--FAGTLASGIVHKGDEIVVLPSGKSSRV 287
Query: 164 KTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKRE-DVERGQVLAKPGS 209
K+ + F L+Q G + L + + E D+ RG +L +
Sbjct: 288 KS----IVTFEGELEQAGPGQAVTLTM---EDEIDISRGDLLVHADN 327
>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 = 104 bits (261), Expect = 1e-27
Identities = 28/56 (50%), Positives = 42/56 (75%)
Query: 446 KILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVSVTIFGRATPVELEFNQVEK 501
++ ++ + VR+ GPF DF+G + E+N E+ +V+V VTIFGR TPVEL+F+QV K
Sbjct: 2 QVAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVMVTIFGRETPVELDFSQVVK 57
>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 = 1e-16
Identities = 37/194 (19%), Positives = 66/194 (34%), Gaps = 33/194 (17%)
Query: 118 IDGAFLLPVEDVFSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLL 177
+ LP+ D + GTVV G++E G + G++L ++ K G+
Sbjct: 3 LGSPIRLPIVDKYK--DMGTVVLGKLESGSICKGQQLVMMPNK--HNVEVLGILSDDVET 58
Query: 178 DQGQAGDNIGLLLRGTKREDVERGQVLAKPGS-IKPHKHFTGEIYALSKDEGGRHTPFFS 236
D G+N+ + L+G + E++ G +L P + + F +I + H
Sbjct: 59 DTVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIE------HKSIIC 112
Query: 237 N-YRPQFYFRTTDVTGSI-------------ELPKNKEMVMPGDNVLITVRLINPIAMEE 282
Y + T I + V + +R I +E
Sbjct: 113 PGYNAVLHIHTCIEEVEITALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLET 172
Query: 283 -------GLRFAIR 289
G RF +R
Sbjct: 173 FKDFPQMG-RFTLR 185
>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 = 61.8 bits (149), Expect = 3e-10
Identities = 77/531 (14%), Positives = 168/531 (31%), Gaps = 127/531 (23%)
Query: 21 PMPQTREHILLARQVGVPYIVVF----LNK----ADMVDDEELLELVEIEIREL-LNKYE 71
P + R+ +L R +++ K D+ ++ ++ +I L L
Sbjct: 136 PYLKLRQALLELRPA--KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193
Query: 72 FPGNDIPIIKG-----SAKLALEGDTGPLGEQSILSLSKALDTYIPTPNRAIDGAFLLPV 126
P + +++ D + I S+ L + + LL +
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC---LLVL 250
Query: 127 EDV--------FSISGRGTVVTGRVERGIVRVGEELEIIGIKDTVKTTCTGVEMFRKLLD 178
+V F++S + ++T R ++ TT ++ L
Sbjct: 251 LNVQNAKAWNAFNLSCK-ILLTTR----------FKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 179 QGQAGDNIGLLLR--GTKREDVERGQVLAKPGSIKPHKHFTGEIYALSKDEGGRHTPFFS 236
+ LLL+ + +D+ R +VL + P + I +D +
Sbjct: 300 PDEV---KSLLLKYLDCRPQDLPR-EVL----TTNPRRL--SIIAESIRDGLAT----WD 345
Query: 237 NYRPQFYFR-TTDVTGSIELPKNKEM--------VMPGDNVLITVRLINPIAMEEGLRFA 287
N++ + TT + S+ + + E V P + I L+ + + ++
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP-PSAHIPTILL-SLIWFDVIKSD 403
Query: 288 IREGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHS-YSGM------E 340
+ V + + +L+ K K+ I S Y + E
Sbjct: 404 VMVVVNKLHKYSLVEK---------------------QPKESTISIPSIYLELKVKLENE 442
Query: 341 KNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFP--GYVLIEMEMTD 398
+ R +++ N + K F D + + F+ G+ L +E +
Sbjct: 443 YALHRSIVDHYN---IPKTF-----------DSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488
Query: 399 ESWHLVKNTKKVTGFIGGK-----SNRPTPISSKEIEEILKQIKKGVEKPRPKILYQLDE 453
L + F+ K + S + LK K + PK ++
Sbjct: 489 R-MTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 454 LVRIKDGPFTDFSGNIEE--VNYEKSRVRVSVTIFGRATPVELE-FNQVEK 501
++ DF IEE + + + + + + + + E QV++
Sbjct: 548 IL--------DFLPKIEENLICSKYTDL-LRIALMAEDEAIFEEAHKQVQR 589
Score = 34.1 bits (77), Expect = 0.12
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 9/61 (14%)
Query: 424 ISSKEIEEILKQIKKGVEKPRPKILYQLDELVRIK-DGPFTDFSGNIEEVNYE--KSRVR 480
+S +EI+ I+ K +L + K + F + +NY+ S ++
Sbjct: 46 LSKEEIDHIIM------SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 481 V 481
Sbjct: 100 T 100
Score = 31.0 bits (69), Expect = 1.0
Identities = 20/156 (12%), Positives = 59/156 (37%), Gaps = 34/156 (21%)
Query: 292 VQQFIQDNLLTKEIVNSNKINIDKGKEY--IERSINNKKRWYVIHSYSGMEKNVQRKLIE 349
F+ + K++ + K +I +E I S + + + + Q ++++
Sbjct: 26 EDAFVDN-FDCKDVQDMPK-SILSKEEIDHIIMSKDAVSGTLRL--FWTLLSK-QEEMVQ 80
Query: 350 RINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTKK 409
+ + ++ + ++ P + ++ Q S++ + + +E D + N +
Sbjct: 81 KFVEEVLRINYKFLMSPIKT----EQRQPSMMTRMY--------IEQRDRLY----NDNQ 124
Query: 410 VTGFIGGKSNRPTPISSKEIEEILKQIKKGVEKPRP 445
V F +R P ++++ + + RP
Sbjct: 125 V--FAKYNVSRLQPY---------LKLRQALLELRP 149
>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 = 60.8 bits (147), Expect = 8e-10
Identities = 53/344 (15%), Positives = 95/344 (27%), Gaps = 166/344 (48%)
Query: 47 ADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE----Q-SIL 101
+VD + E + EI E Y F + G L Q ++
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTF----------------RSEKGLLSATQFTQPALT 1737
Query: 102 SLSKALDTYIPTPNRAIDGAFLLPVEDVF---SISGRGTVVTGRVERGIVRVGE--EL-- 154
+ KA + L+P + F S +GE L
Sbjct: 1738 LMEKAA-------FEDLKSKGLIPADATFAGHS------------------LGEYAALAS 1772
Query: 155 --EIIGIKDTVKTTCTGVEMFRKLLDQGQAGDNIGLLLRGTKREDVERGQVLAKPGSIKP 212
+++ I+ V+ ++ RG +
Sbjct: 1773 LADVMSIESLVE------------------------VVF-------YRGMTMQV------ 1795
Query: 213 HKHFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEMVMPGDNVLITV 272
A+ +DE GR SNY M+
Sbjct: 1796 ---------AVPRDELGR-----SNYG---------------------MIA--------- 1811
Query: 273 RLINPIAMEEGL-RFAIREGVQQFIQDN--LLTKEIVNSNKINIDKGKEYIERSINNKKR 329
INP + + A++ V++ + L+ EIVN N + N++
Sbjct: 1812 --INPGRVAASFSQEALQYVVERVGKRTGWLV--EIVNYN--------------VENQQ- 1852
Query: 330 WYVIHSYSGMEKNVQRKLIERINKLGMQK-KFGRILV--PTEEI 370
YV +G + + + +N + +QK + EE+
Sbjct: 1853 -YVA---AGDLRALD-TVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 52.7 bits (126), Expect = 3e-07
Identities = 74/495 (14%), Positives = 144/495 (29%), Gaps = 172/495 (34%)
Query: 15 CSAADGPMPQTREHILL--ARQVGVPYIVVF----LNKADMVDDEELLELVEIEIRELLN 68
A P + L + + +F ++ E E+R+L
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT-------DDYFE----ELRDLYQ 178
Query: 69 KYEFPGNDIPIIKGSAKLALEGDTGPLGEQSILSLSKALD--TYIPTPNRAIDGAFLL-- 124
Y +IK SA+ E L + + ++ L+ ++ P+ D +LL
Sbjct: 179 TY--HVLVGDLIKFSAETLSELIRTTLDAEKV--FTQGLNILEWLENPSNTPDKDYLLSI 234
Query: 125 PVEDVFSISGRGTV------VTGRVERGIVRVGEELEII-GIKDTVKTTCT-GV------ 170
P+ S G + VT ++ G GE + G T + G+
Sbjct: 235 PI----SCPLIGVIQLAHYVVTAKLL-G-FTPGELRSYLKGA-----TGHSQGLVTAVAI 283
Query: 171 ------EMFRKLLDQGQAGDNIGLLLR-GTKREDVERGQVLAKPGSIKPHKHFTGEIYAL 223
E F + + I +L G R P+ I
Sbjct: 284 AETDSWESFFVSVRKA-----ITVLFFIGV------RCYEAY------PNTSLPPSILED 326
Query: 224 SKDEG-GRHTPFFSNYRPQFYFRTTDVTGSIELPK----------NKEMVMPGDNVLITV 272
S + G +P S ++ L + N +P + +
Sbjct: 327 SLENNEGVPSPMLS------------ISN---LTQEQVQDYVNKTNSH--LPAGKQ-VEI 368
Query: 273 RLIN----------PIAMEEGLRFAIRE-----GVQQFIQDNLLTKEIVNSNKINIDKGK 317
L+N P ++ GL +R+ G+ Q ++I
Sbjct: 369 SLVNGAKNLVVSGPPQSL-YGLNLTLRKAKAPSGLDQ--------------SRI------ 407
Query: 318 EYIERSINNKKRWYVI----HS-YSGMEKNVQRKLIERINKLGMQKKFGRILVP---TEE 369
+ ER + R+ + HS + + + + K + I +P T +
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHL--LVP-ASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 370 IVDVKKNQKSVIKKRFFPGYVLIEMEMTDE-SWHLVKNTKKVTGFI----GGKSNRPTPI 424
D++ S+ ++ +++ + W K T + GG S
Sbjct: 465 GSDLRVLSGSISER-------IVDCIIRLPVKWETTTQF-KATHILDFGPGGASG----- 511
Query: 425 SSKEIEEILKQIKKG 439
+ + + K G
Sbjct: 512 ----LGVLTHRNKDG 522
Score = 40.4 bits (94), Expect = 0.002
Identities = 22/130 (16%), Positives = 40/130 (30%), Gaps = 31/130 (23%)
Query: 390 VLIEMEMTDESWHLVKNTKKVTG---FIGGKSNRPTPISSKEIEEILKQIKKGVEKPRPK 446
V I + ES+ + +K FIG + P +S + ++ P P
Sbjct: 281 VAIAETDSWESFF--VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP- 337
Query: 447 ILYQLDELVRIKDGPFTDFSGNIEEVNY---EKSRVRVS---------VTIFGRATPVEL 494
++ I + + + N +V +S V+ G P L
Sbjct: 338 -------MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS--G--PPQSL 386
Query: 495 E-FN-QVEKI 502
N + K
Sbjct: 387 YGLNLTLRKA 396
Score = 29.6 bits (66), Expect = 3.4
Identities = 41/257 (15%), Positives = 80/257 (31%), Gaps = 72/257 (28%)
Query: 208 GSIK-----PHK-HFTGEIYALSKDEGGRHTPFFSNYRPQFYFRTTDVTGSIELPKNKEM 261
GS++ P F L +++ F+ P+ T E
Sbjct: 14 GSLEHVLLVPTASFFIASQ--L-QEQ-------FNKILPE---PTEGFAADDE------- 53
Query: 262 VMPGDNVLITVRLINPIA----------MEEGLRFAIREGVQQFIQDN---LLTKEIVNS 308
P + + + ++ ++ L + E +++ N L +++
Sbjct: 54 --PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE 111
Query: 309 NKINIDKGKEYIE---RSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILV 365
N + K KE I+ + KR + S S + + V + + G Q G
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ---GNTDD 168
Query: 366 PTEEIVDVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTKKVT-----GF-----IG 415
EE+ D+ + ++ LI+ + L++ T G +
Sbjct: 169 YFEELRDLYQTYHVLVGD-------LIK-FSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 416 GKSNRP-------TPIS 425
SN P PIS
Sbjct: 221 NPSNTPDKDYLLSIPIS 237
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 55.7 bits (135), Expect = 2e-08
Identities = 45/162 (27%), Positives = 69/162 (42%), Gaps = 39/162 (24%)
Query: 4 GAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVD------DEELLE 57
G D ILV +A DG M QT E I A+ VP IV+ +NK D + +ELL
Sbjct: 72 GTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP-IVLAINKCDKAEADPEKVKKELLA 130
Query: 58 LVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLG----EQSILSLSKALDTYIPT 113
++ + G D+ + SA TG ++ ++L++ L+
Sbjct: 131 Y-DVVCEDY-------GGDVQAVHVSAL------TG-ENMMALAEATIALAEMLE-LKAD 174
Query: 114 PNRAIDG----AFLLPVEDVFSISGRGTVVTGRVERGIVRVG 151
P A++G +F GRG V T ++RG +R G
Sbjct: 175 PTGAVEGTVIESFTDK--------GRGPVTTAIIQRGTLRKG 208
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 50.3 bits (121), Expect = 2e-07
Identities = 23/45 (51%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 4 GAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKAD 48
GA D ILV +A DG MPQT E I A+ VP I+V +NK D
Sbjct: 75 GAQVTDIVILVVAADDGVMPQTVEAINHAKAANVP-IIVAINKMD 118
>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 = 48.8 bits (117), Expect = 3e-06
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 4 GAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKAD 48
G A D AIL+ +G PQT+E + + R P VV NK D
Sbjct: 90 GGALADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANKID 133
>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 = 47.9 bits (115), Expect = 5e-06
Identities = 22/45 (48%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 4 GAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKAD 48
GA D +LV +A DG MPQT E I A+ VP +VV +NK D
Sbjct: 71 GAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVP-VVVAVNKID 114
>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 = 39.6 bits (92), Expect = 0.002
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLN 68
DGA++V +G QT + A + VV +NK D E L++ + ++ +
Sbjct: 123 DGALVVVDTIEGVCVQTETVLRQALGERIK-PVVVINKVDRALLE--LQVSKEDLYQTFA 179
Query: 69 K 69
+
Sbjct: 180 R 180
>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 = 0.003
Identities = 16/76 (21%), Positives = 28/76 (36%), Gaps = 11/76 (14%)
Query: 309 NKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTE 368
N +N K Y+ + + +KRW + KL NK G +
Sbjct: 10 NTLN---NKVYVGSAKDFEKRWKRHFKDLEKGCHSSIKLQRSFNKHGNVFEC-------- 58
Query: 369 EIVDVKKNQKSVIKKR 384
I++ +K +I +R
Sbjct: 59 SILEEIPYEKDLIIER 74
>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 = 18/86 (20%), Positives = 32/86 (37%), Gaps = 15/86 (17%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVDDEELLELV 59
+D A+LV SA P +L L + I+ K D+++D++ +
Sbjct: 84 ICNVDQAVLVFSAVQ---PSFSTALLDRFLVLVEANDIQPIICI-TKMDLIEDQDTED-- 137
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAK 85
I+ Y G + S+K
Sbjct: 138 --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 = 38.9 bits (91), Expect = 0.003
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 15/78 (19%)
Query: 9 DGAILVCSAADGPMPQTREHIL-LARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELL 67
D ILV +A P + ++ L +++ +P++VV +NK D++ ++ E++ L
Sbjct: 115 DCGILVTDSAPTP---YEDDVVNLFKEMEIPFVVV-VNKIDVLGEK------AEELKGLY 164
Query: 68 NKYEFPGNDIPIIKGSAK 85
++ SA
Sbjct: 165 ESRYE----AKVLLVSAL 178
>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 = 37.2 bits (87), Expect = 0.009
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 16/86 (18%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVDDEELLELV 59
A +D I+V + P+ ++L + V ++VF NK D++++EE
Sbjct: 77 VANVDRVIIVETLKM---PEFNNYLLDNMLVVYEYFKVEPVIVF-NKIDLLNEEEK---- 128
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAK 85
E+ ++ Y G ++K SAK
Sbjct: 129 -KELERWISIYRDAG--YDVLKVSAK 151
>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 = 0.015
Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 17/86 (19%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVDDEELLELV 59
AA +D ++V + P+ +I+ + V ++V NK D++DDE +
Sbjct: 128 AANIDQIVIVSAIL----PELSLNIIDRYLVGCETLQVEPLIVL-NKIDLLDDEGM---- 178
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAK 85
+ 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 = 0.017
Identities = 23/150 (15%), Positives = 46/150 (30%), Gaps = 18/150 (12%)
Query: 289 REGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLI 348
V I K ++ Y R + + + G EK + RKL
Sbjct: 63 WLSVDHSIAGMYAIKVDGRLPAEVVELLPHYKPRDGSGSATIWGVRCRPGKEKELIRKL- 121
Query: 349 ERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIKKRFFPGYVLIEMEMTDESWHLVKNTK 408
++KKF ++ + + S+ ++ + G + IE
Sbjct: 122 -------LKKKFNLDRAMGKKKLKIL----SIFQRDNYTGRIYIEAPKQSVIEKFCN--- 167
Query: 409 KVTGFIGGKSNRPTPISSKEIEEILKQIKK 438
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 = 0.020
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 6/33 (18%)
Query: 97 EQSILSLSKALDTYIP--TPNRAIDGAFLLPVE 127
+Q++ L +L Y P AI +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKAT----ME 47
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 35.8 bits (83), Expect = 0.028
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLN 68
D A++V AA G P+T + + + R P I+ F+NK D D +EL++ EI +L
Sbjct: 107 DSALMVIDAAKGVEPRTIKLMEVCRLRHTP-IMTFINKMDR-DTRPSIELLD-EIESILR 163
>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 = 0.029
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 17/86 (19%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHIL-----LARQVGVPYIVVFLNKADMVDDEELLELV 59
A +D ILV + P+T +I+ LA + + ++V NK D+ D+++L
Sbjct: 82 VANVDQVILVVTVKM---PETSTYIIDKFLVLAEKNELETVMVI-NKMDLYDEDDL---- 133
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAK 85
++REL Y PI+K SAK
Sbjct: 134 -RKVRELEEIYS---GLYPIVKTSAK 155
>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 = 35.1 bits (81), Expect = 0.050
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLN 68
D ++V AA G +TR+ + + R P I+ F+NK D D + +EL++ E+ L
Sbjct: 107 DCCLMVIDAAKGVEDRTRKLMEVTRLRDTP-ILTFMNKLDR-DIRDPMELLD-EVENELK 163
>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 = 34.1 bits (79), Expect = 0.092
Identities = 28/153 (18%), Positives = 54/153 (35%), Gaps = 45/153 (29%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 97
P +V LNK D++++E + L + + ++ SA L G L E
Sbjct: 271 PSLVA-LNKVDLLEEEAVKALAD----------ALAREGLAVLPVSA-LTGAG-LPALKE 317
Query: 98 Q--SILSLSKALDTYIPTPNRAIDGAF-LLPVED-VFSISGRGTVVTGRVERGIVR---- 149
+++ + + P P + + ++PV + V+ + VER + R
Sbjct: 318 ALHALVRSTPPPEMPKPVPRKEVQAGVEVVPVAEGVYEVRAP------EVERYLARIKGD 371
Query: 150 ----------------VGEELEIIGIK--DTVK 164
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 = 0.15
Identities = 7/42 (16%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPI 79
++ NK D + + L ++ I+++L+ + P
Sbjct: 144 SIVIG-FNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSF 184
>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 = 0.23
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 2 ITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLE 57
+ +DG I + A Q + + QVG ++ L K D+ + E L
Sbjct: 117 LCQRYLLDGVIALVDAVHA-DEQMNQFTIAQSQVGYADRIL-LTKTDVAGEAEKLH 170
>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 = 0.55
Identities = 11/87 (12%), Positives = 24/87 (27%), Gaps = 3/87 (3%)
Query: 279 AMEEGLRFAIREGVQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSG 338
+ E L I E F+ ++ E+ + K ++ N + G
Sbjct: 39 TIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKTLQPNKVAE---MIENQG 95
Query: 339 MEKNVQRKLIERINKLGMQKKFGRILV 365
+ K+ + + K
Sbjct: 96 LFKDHVEDVNFQPVKYSALTSNNEECT 122
>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 = 30.8 bits (70), Expect = 0.56
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 38 PYIVVFL--NKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 85
V L D+ D+++ + +ELLNK FP + +
Sbjct: 111 SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE 160
>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 = 0.62
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 12 ILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLEL 58
+++C GP + +A ++GV + FL D EL+ +
Sbjct: 279 VIICGGPSGPNATPDTYRHMAEELGVEKRIRFL---DPRPPSELVAV 322
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 31.5 bits (70), Expect = 0.80
Identities = 15/122 (12%), Positives = 33/122 (27%), Gaps = 19/122 (15%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEE-------------- 54
+ V A+ R ++ + + +N D V +
Sbjct: 202 HAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRESLIDPDDVEELQASEN 261
Query: 55 -LLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALE----GDTGPLGEQSILSLSKALDT 109
L ++ + E D + + S+ AL L +L+T
Sbjct: 262 RLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNT 321
Query: 110 YI 111
++
Sbjct: 322 FL 323
>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 = 0.87
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRE 65
P I+V NK DM + E LE + ++ +
Sbjct: 276 PQIIV-ANKMDMPEAAENLEAFKEKLTD 302
>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 = 1.2
Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 17/92 (18%)
Query: 1 MITGAAQMDGAILVCSAADGP------MPQTREHILL-ARQVGVPYIVVFLNKADMVDDE 53
M G +DG +L + G + ++ + P +VV L K D +
Sbjct: 156 MPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVV-LTKCDEGVER 214
Query: 54 ELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 85
+ L+K ++ +++ SA+
Sbjct: 215 Y----IRDAHTFALSKK-----NLQVVETSAR 237
>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 68
Score = 27.8 bits (61), Expect = 1.5
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 443 PRPKILYQLDELVRIKDGPFTDFSGNIEEVNYEKSRVRVS 482
P++ D L R DG + G I++V+ + V
Sbjct: 6 SGPRLWEGQDVLARWTDGLL--YLGTIKKVDSAREVCLVQ 43
>3h7h_B Transcription elongation factor SPT5; helices surrounding beta
sheet, activator, ME binding, nucleus, repressor,
transcription regulation; 1.55A {Homo sapiens}
Length = 106
Score = 28.7 bits (64), Expect = 1.5
Identities = 22/119 (18%), Positives = 40/119 (33%), Gaps = 19/119 (15%)
Query: 323 SINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSVIK 382
S + W V G E+ L+ + +I KSV+
Sbjct: 2 SHMDPNLWTV-KCKIGEERATAISLMRKFIAYQFTDTPLQI--------------KSVVA 46
Query: 383 KRFFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILKQIKKGVE 441
GY+ +E + H+ + + V G N + KE+ ++LK +K+
Sbjct: 47 PEHVKGYIYVE---AYKQTHVKQAIEGVGNLRLGYWN-QQMVPIKEMTDVLKVVKEVAN 101
>2nwh_A AGR_C_3442P, carbohydrate kinase; structural genomics, APC6199,
PSI-2, PR structure initiative 2; 1.86A {Agrobacterium
tumefaciens str}
Length = 317
Score = 30.2 bits (69), Expect = 1.7
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 6/54 (11%)
Query: 21 PMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV------EIEIRELLN 68
P L+AR P + ++ A V + L + E E R L
Sbjct: 145 PEDTLTALGLIARACEKPLAAIAISPAKAVKLKAALGDIDILFMNEAEARALTG 198
>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 = 29.8 bits (67), Expect = 2.1
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 24 QTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYE 71
+ +E A VG P I + + + ELV + ++LL
Sbjct: 103 EMKEISDFASWVGCPAIGLHIGFVPESSSPDYSELVRV-TQDLLTHAA 149
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 29.6 bits (66), Expect = 2.2
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 40 IVVFLNKADMVDD---EELLELVEIEIRELLNKYEFP 73
I V L+K D+V EEL +++ + E +++ FP
Sbjct: 118 IFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFP 154
>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 = 29.8 bits (68), Expect = 2.3
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKAD 48
D A++ SA G T +A ++G+P + V + K D
Sbjct: 99 DAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLD 137
>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 = 2.5
Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 6/97 (6%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 97
P I + + + D LL+ + ++ ELL K E + ++ + G+T P
Sbjct: 2 PLINIQASVPAVADANSLLQELSSKLAELLGKPEK--YVMTSLQCGVPMTFSGNTEP--- 56
Query: 98 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 134
+ K++ + + + +E I
Sbjct: 57 -TCYVEVKSIGALDGSRTQEVSELVCGHIEQNLGIPA 92
>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 = 29.3 bits (66), Expect = 2.5
Identities = 9/40 (22%), Positives = 13/40 (32%), Gaps = 4/40 (10%)
Query: 24 QTREHILLARQVGVPYIVVF---LNKADMVDDEELLELVE 60
+ + +LA I F AD +E E V
Sbjct: 85 KCEQLAILANWFKTNKIRTFAGQKGSADF-SQQERQEYVN 123
>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 = 29.2 bits (65), Expect = 3.0
Identities = 13/78 (16%), Positives = 28/78 (35%), Gaps = 3/78 (3%)
Query: 12 ILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKYE 71
+ + D L R VG +++ NKAD++ + V+ +R +
Sbjct: 74 VKIVDIFDFNGSWLPG---LHRFVGNNKVLLVGNKADLIPKSVKHDKVKHWMRYSAKQLG 130
Query: 72 FPGNDIPIIKGSAKLALE 89
D+ +I + +
Sbjct: 131 LKPEDVFLISAAKGQGIA 148
>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 = 3.1
Identities = 8/63 (12%), Positives = 19/63 (30%)
Query: 11 AILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLNKY 70
I+ S A + + + +G ++ ++ E + + L
Sbjct: 345 GIVYDSVAFPEQDGSPPGLRVTVMLGGSWLQTLEASGCVLSQELFQQRAQEAAATQLGLK 404
Query: 71 EFP 73
E P
Sbjct: 405 EMP 407
>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 = 3.1
Identities = 13/97 (13%), Positives = 28/97 (28%), Gaps = 6/97 (6%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 97
P +V N + L + ++ + K + +A G + P
Sbjct: 1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQ--YIAVHVVPDQLMAFGGSSEPCAL 58
Query: 98 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 134
S+ ++ NR+ + + IS
Sbjct: 59 CSL----HSIGKIGGAQNRSYSKLLCGLLAERLRISP 91
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 29.4 bits (66), Expect = 3.1
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSA 84
P++VV +NK D+ D+E + L + + IK SA
Sbjct: 282 PFLVV-INKIDVADEENIKRLEK----------FVKEKGLNPIKISA 317
>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 = 29.0 bits (66), Expect = 3.2
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 11/61 (18%)
Query: 27 EHIL-LARQVGVPYIVVFLNKADMVDD-EELLELVEIEIRELLNKYEFPGNDIPIIKGSA 84
E +L R+ P I+ +NK D V + +LL ++ + +N + +PI SA
Sbjct: 106 EMVLNKLREGKAPVILA-VNKVDNVQEKADLLPHLQ-FLASQMNFLDI----VPI---SA 156
Query: 85 K 85
+
Sbjct: 157 E 157
>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 = 28.6 bits (64), Expect = 3.3
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 19/86 (22%)
Query: 9 DGAILVCSAADGPMPQTREHILLARQV---------GVPYIVVFLNKADMVDDEELLELV 59
DG + V +A + E + R+ VP V+ +NK D+ D L
Sbjct: 99 DGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPI-VIQVNKRDLPD-----ALP 152
Query: 60 EIEIRELLNKYEFPGNDIPIIKGSAK 85
+R +++ P P+++ A
Sbjct: 153 VEMVRAVVD----PEGKFPVLEAVAT 174
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 29.0 bits (66), Expect = 3.3
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 9/77 (11%)
Query: 11 AILVCSAADGPMPQTREHIL--LARQVGVPYIVVFLNKADMVDDEELLELVEIEIRELLN 68
IL A E I + + P IVV +NK D + + + + EI +
Sbjct: 95 VILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVV-INKIDKIGPAKNVLPLIDEIHKKHP 153
Query: 69 KYEFPGNDIPIIKGSAK 85
+ 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 = 29.1 bits (66), Expect = 3.7
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 6/38 (15%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVV 42
A +DG ++ A P HI R G+P ++
Sbjct: 126 NAAVDGVVIYSVAKGDP------HIDAIRARGLPAVIA 157
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 29.1 bits (65), Expect = 3.8
Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 5/79 (6%)
Query: 7 QMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIREL 66
+ + D L R I++ NKAD++ + +R +
Sbjct: 71 SKALVVNIVDIFDFNGSFIPG---LPRFAADNPILLVGNKADLLPRSVKYPKLLRWMRRM 127
Query: 67 LNKYEFPGNDIPIIKGSAK 85
E + + SA
Sbjct: 128 AE--ELGLCPVDVCLVSAA 144
>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 = 27.1 bits (60), Expect = 3.9
Identities = 24/114 (21%), Positives = 39/114 (34%), Gaps = 25/114 (21%)
Query: 321 ERSINNKKRWYVIHSYSGMEKNVQRKLIERINKLGMQKKFGRILVPTEEIVDVKKNQKSV 380
R+ + + + G EKN+ + R K + IL
Sbjct: 3 RRASVGAHMIFAVRTMVGQEKNIAGLMASRAEKEQLDVY--SILASES------------ 48
Query: 381 IKKRFFPGYVLIEMEMTDESWHLVKNTKKVTGFIGGKSNRPTPISSKEIEEILK 434
GYVL+E E + L+K +V + P I+ +EIE +L
Sbjct: 49 -----LKGYVLVEAETKGDVEELIKGMPRV------RGIVPGTIAIEEIEPLLT 91
>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 = 4.6
Identities = 11/97 (11%), Positives = 26/97 (26%), Gaps = 6/97 (6%)
Query: 38 PYIVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPIIKGSAKLALEGDTGPLGE 97
P + N + LL + ++ + K I ++ T P
Sbjct: 2 PVFTIRTNVCRDSVPDTLLSDLTKQLAKATGKPAE--YIAIHIVPDQIMSFGDSTDPCAV 59
Query: 98 QSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 134
S+ ++ N++ + +I
Sbjct: 60 CSL----CSIGKIGGPQNKSYTKLLCDILTKQLNIPA 92
>3v5n_A Oxidoreductase; structural genomics, PSI-biology, protein structure
initiati nysgrc, NEW YORK structural genomics research
consortium; 2.80A {Sinorhizobium meliloti}
Length = 417
Score = 28.7 bits (64), Expect = 4.7
Identities = 17/140 (12%), Positives = 46/140 (32%), Gaps = 24/140 (17%)
Query: 31 LARQVGVPYIVVF-------LNKA-DMVDDEEL--LELVEIEIRELLNKYEFPGNDIPII 80
A + +++ + +A +M+++ ++ + LV++E + +
Sbjct: 156 AADESDALFVLTHNYTGYPMVRQAREMIENGDIGAVRLVQMEYPQDWLTENIEQSGQKQA 215
Query: 81 KGSAKLALEGDTGPLGE--------------QSILSLSKALDTYIPTPNRAIDGAFLLPV 126
A G G G+ + L+ LD+++ + L+
Sbjct: 216 AWRTDPARSGAGGSTGDIGTHAYNLGCFVSGLELEELAADLDSFVGGRQLDDNAHVLMRF 275
Query: 127 EDVFSISGRGTVVTGRVERG 146
+ +G + +V G
Sbjct: 276 REKDGTRAKGMLWCSQVAPG 295
>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 = 28.4 bits (63), Expect = 4.7
Identities = 8/49 (16%), Positives = 15/49 (30%), Gaps = 3/49 (6%)
Query: 40 IVVFLNKADMVDDE---ELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 85
VF++K D + D+ E + + L + S
Sbjct: 132 FEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIY 180
>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 = 5.5
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 40 IVVFLNKADMVDDEELLELVEIEIRELLNKY 70
++V N MVD +++ + +E E+ E K+
Sbjct: 22 VMVLRN---MVDPKDIDDDLEGEVTEECGKF 49
>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 = 28.1 bits (62), Expect = 6.5
Identities = 8/81 (9%), Positives = 21/81 (25%), Gaps = 13/81 (16%)
Query: 12 ILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMV------------DDEELLELV 59
+ +A + + + V K D D E++L+ +
Sbjct: 151 FFIIISATRFKKNDIDIAKAISMMKKEFYFV-RTKVDSDITNEADGEPQTFDKEKVLQDI 209
Query: 60 EIEIRELLNKYEFPGNDIPII 80
+ + I ++
Sbjct: 210 RLNCVNTFRENGIAEPPIFLL 230
>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 = 6.7
Identities = 15/98 (15%), Positives = 32/98 (32%), Gaps = 8/98 (8%)
Query: 40 IVVFLNKADMVDDEELLELVEIEIRELLNKYEFPGNDIPII--KGS-AKLALEGDTGPLG 96
V+F + +D EL++ ++ + E + GS + T
Sbjct: 77 YVIFCH-----EDVELVDRGYDDLVAAIEALEEADPKWLVAGVAGSPWRPLNHSVTAQAL 131
Query: 97 EQSILSLSKALDTYIPTPNRAIDGAFLLPVEDVFSISG 134
S + + +P ++D FLL ++
Sbjct: 132 HISDVFGNDRRRGNVPCRVESLDECFLLMRRLKPVLNS 169
>2ftw_A Dihydropyrimidine amidohydrolase; (beta-alpha)8-barrel,
beta-sandwich; HET: KCX; 2.05A {Dictyostelium
discoideum} SCOP: b.92.1.3 c.1.9.6
Length = 521
Score = 28.4 bits (64), Expect = 7.1
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 18/79 (22%)
Query: 26 REHILLARQVGVPYIVVFLN--KADMVDDEELLELVEIEIRELLNKYEFPG--------N 75
RE +L ++ GV F+ + MV D+E+ + + +EL G N
Sbjct: 143 REMEILVKERGVNSFKCFMAYKNSFMVTDQEMYHIFK-RCKEL-------GAIAQVHAEN 194
Query: 76 DIPIIKGSAKLALEGDTGP 94
+ +G K+ G TGP
Sbjct: 195 GDMVFEGQKKMLEMGITGP 213
>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 = 27.8 bits (62), Expect = 7.3
Identities = 12/63 (19%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 5 AAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELVEIEIR 64
A +D I V + LA +G+ + +NK + +E+L++ +
Sbjct: 151 AKAVDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRNIKEEKLIKK-HLPED 209
Query: 65 ELL 67
++L
Sbjct: 210 KIL 212
>1g4y_B Calcium-activated potassium channel RSK2; small-conductance
calcium-activated potassium channel, channel gating,
signalin; 1.60A {Rattus norvegicus} SCOP: f.15.1.1 PDB:
1kkd_A 1qx7_D
Length = 101
Score = 26.7 bits (58), Expect = 7.9
Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 7/90 (7%)
Query: 292 VQQFIQDNLLTKEIVNSNKINIDKGKEYIERSINNKKRWYVIHSYSGMEKNVQRKLIERI 351
V F+ D LTK + N+ E + K V + QRK ++ I
Sbjct: 14 VHNFMMDTQLTKRVKNA------AANVLRETWLIYKNTKLVKKIDHAKVRKHQRKFLQAI 67
Query: 352 NKLGMQK-KFGRILVPTEEIVDVKKNQKSV 380
++L K + ++ +VD+ K Q
Sbjct: 68 HQLRSVKMEQRKLNDQANTLVDLAKTQLEH 97
>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 = 27.9 bits (63), Expect = 8.0
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 40 IVVFLNKADMVD-DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 85
VV NK D+V E+ + RE L + P+I SA
Sbjct: 295 SVVVFNKWDLVVHREKRYDEFTKLFREKLY----FIDYSPLIFTSAD 337
>1p99_A Hypothetical protein PG110; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.70A {Staphylococcus aureus subsp}
SCOP: c.94.1.1
Length = 295
Score = 27.7 bits (62), Expect = 8.1
Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 38 PYIVVFLNKADMVDDEELLELVEI----EIRELLNKYEFPGNDIPIIKGSAKL 86
PYI + +D++ ++VE+ E ++ L + + + P+ ++
Sbjct: 235 PYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE-DVKDGEKPVNLSKDEI 286
>3dc8_A Dihydropyrimidinase; TIM-barrel, hydrolase; HET: KCX; 1.85A
{Sinorhizobium meliloti}
Length = 490
Score = 28.0 bits (63), Expect = 8.1
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 18/76 (23%)
Query: 31 LARQVGVPYIVVFLN--KADMVDDEELLELVEIEIRELLNKYEFPG--------NDIPII 80
+ + G+ F+ A MVDD+E+ + L G N +
Sbjct: 137 IVKDKGINTFKHFMAYKGALMVDDDEMFSSFQ-RCAAL-------GALPLVHAENGDVVA 188
Query: 81 KGSAKLALEGDTGPLG 96
+ AKL EG++GP
Sbjct: 189 QLQAKLLAEGNSGPEA 204
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 27.8 bits (61), Expect = 8.8
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 12 ILVCSAADGP-MPQTREHILLARQVGVPYIVVFLNKADMVDDEELLELV 59
I++ A + + A + I V LNKADMV+ ++L+ +
Sbjct: 192 IILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRVY 240
>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 = 9.1
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 40 IVVFLNKADMVD-DEELLELVEIEIRELLNKYEFPGNDIPIIKGSAK 85
+V+ +NK D VD DE ++ E IR+ + PI+ SA
Sbjct: 289 VVIVVNKWDAVDKDESTMKEFEENIRDHFQ----FLDYAPILFMSAL 331
>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 = 27.2 bits (61), Expect = 9.8
Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 11/82 (13%)
Query: 9 DGAILVCSAAD-GPMPQTRE--HILLARQ--VGVPYIVVFLNKADMVDDEELLELVEIEI 63
+ I+V + D + TRE + +LA + +++F NK D+ + + EI
Sbjct: 90 EFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQDVKEC-----MTVAEI 143
Query: 64 RELLNKYEFPGNDIPIIKGSAK 85
+ L + I A
Sbjct: 144 SQFLKLTSIKDHQWHIQACCAL 165
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
0.318 0.138 0.390
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: 8,020,311
Number of extensions: 535968
Number of successful extensions: 1921
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1793
Number of HSP's successfully gapped: 131
Length of query: 502
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 404
Effective length of database: 3,965,535
Effective search space: 1602076140
Effective search space used: 1602076140
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 (26.4 bits)