RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12559
(610 letters)
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 679 bits (1756), Expect = 0.0
Identities = 229/551 (41%), Positives = 331/551 (60%), Gaps = 13/551 (2%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
MD ME E+ RGITI SAAT W+ H +NIIDTPGHVDFTVEVER+LRVLDGA+ VL A
Sbjct: 50 MDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQ 109
Query: 61 GGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLG 120
GV+ QT TV RQ Y VP I F+NK+D+LGA+ ++ + ++ NAA +Q+PIG
Sbjct: 110 SGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYSVSTLHDRLQANAAPIQLPIGAE 169
Query: 121 SETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMF 180
E + IIDL++ K + LG + EIP D AE R LIE VAE + L E +
Sbjct: 170 DEFEAIIDLVEMKCFKYTNDLGTEIEEIEIPEDHLDRAEEARASLIEAVAETSDELMEKY 229
Query: 181 LEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNY-A 239
L ++ IS ++K+AIR++T +F PVL GTA KNKGVQ +LDAV+DYLP+P +V
Sbjct: 230 LGDEEISVSELKEAIRQATTNVEFYPVLCGTAFKNKGVQLMLDAVIDYLPSPLDVKPIIG 289
Query: 240 IENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTD 298
+++V+ F ALAFK+ + G+LT+ R Y G + G + N
Sbjct: 290 HRASNPEEEVIAKADDSA--EFAALAFKVMTDPYVGKLTFFRVYSGTMTSGSYVKNSTKG 347
Query: 299 KKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVADP 357
K+ RV RL+++H+N ++++ V +GDI A G+ D +GDT + + N I LES+ +P
Sbjct: 348 KRERVGRLLQMHANSRQEIDTVYSGDIAAAVGLKDTGTGDT-LCGEKNDIILESMEFPEP 406
Query: 358 VVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRME 417
V+ +S++ + D+D ++A+ + +EDPTFH D E+ + ++ GMGELHL+I RM+
Sbjct: 407 VIHLSVEPKSKADQDKMTQALVKLQEEDPTFHAHTDEETGQVIIGGMGELHLDILVDRMK 466
Query: 418 REYNCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEF 477
+E+N +G P V+++ET +QSGG GQYG V P A EF
Sbjct: 467 KEFNVECNVGAPMVSYRETFKSSAQVQGKFSRQSGGRGQYGDVHIEFTPNETGAG--FEF 524
Query: 478 IDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILA 537
+ VG VP+ ++P++ G K E G L+G + V+ L DG H VDS+E++F +A
Sbjct: 525 ENAIVGGVVPREYIPSVEAGLKDAMENGVLAGYPLIDVKAKLYDGSYHDVDSSEMAFKIA 584
Query: 538 AHDPVVSMSIK 548
A S+++K
Sbjct: 585 A-----SLALK 590
Score = 84.5 bits (210), Expect = 3e-17
Identities = 26/66 (39%), Positives = 46/66 (69%)
Query: 540 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 599
+PV+ +S++ + D+D ++A+ + +EDPTFH D E+ + ++ GMGELHL+I R
Sbjct: 405 EPVIHLSVEPKSKADQDKMTQALVKLQEEDPTFHAHTDEETGQVIIGGMGELHLDILVDR 464
Query: 600 MEREYN 605
M++E+N
Sbjct: 465 MKKEFN 470
>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 = 679 bits (1755), Expect = 0.0
Identities = 239/550 (43%), Positives = 354/550 (64%), Gaps = 12/550 (2%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
MD ME ER+RGITI +A T WKDH INIIDTPGHVDFT+EVER++RVLDGAI+V +
Sbjct: 52 MDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSS 111
Query: 61 GGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLG 120
GV+ Q+ TV RQ ++Y VP IAF NK+D+ GAD + VI M++++G +Q+PIG
Sbjct: 112 QGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQLPIGRE 171
Query: 121 SETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMF 180
GIID+++ KA + LG ++R IP + +A ++L+E A+ DE + +
Sbjct: 172 DTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVAADFDENIMLKY 231
Query: 181 LEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAI 240
LE + +E+++ AIR+ T+ K TPV +G+ALKNKGVQ LLDAV+DYLP+P ++ I
Sbjct: 232 LEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIP--PI 289
Query: 241 ENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDK 299
+ + +VV P ALAFK+ A + G+LT++R Y G L G +YN +
Sbjct: 290 KGTTPEGEVVEIHPDP-NGPLAALAFKIMADPYVGRLTFIRVYSGTLTSGSYVYNTTKGR 348
Query: 300 KVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVADPV 358
K RV+RL+R+H+N E+VEE+ AGD+ A+ G+ + +GDT V + + LESI V +PV
Sbjct: 349 KERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVILESIEVPEPV 408
Query: 359 VSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMER 418
+ ++I+ D++ S+A+ R +EDPTF PE+ +T++SGMGELHLEI R++R
Sbjct: 409 IDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDRLKR 468
Query: 419 EYNCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFI 478
E+ +GKP+VA++ET+ +P D + +Q+GG GQYG V +EPLP + EF+
Sbjct: 469 EFKVDANVGKPQVAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSG--FEFV 526
Query: 479 DETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAA 538
+ VG +PK ++PA+ KG ++ + G L G V +++ L DG H VDS+E++F +A
Sbjct: 527 NAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPVVDIKVTLYDGSYHEVDSSEMAFKIAG 586
Query: 539 HDPVVSMSIK 548
SM+IK
Sbjct: 587 -----SMAIK 591
Score = 84.1 bits (209), Expect = 4e-17
Identities = 28/66 (42%), Positives = 45/66 (68%)
Query: 540 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 599
+PV+ ++I+ D++ S+A+ R +EDPTF PE+ +T++SGMGELHLEI R
Sbjct: 406 EPVIDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDR 465
Query: 600 MEREYN 605
++RE+
Sbjct: 466 LKREFK 471
>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 = 666 bits (1721), Expect = 0.0
Identities = 242/561 (43%), Positives = 349/561 (62%), Gaps = 21/561 (3%)
Query: 1 MDSMELERQRGITIQSAATYTLWK-------DHNINIIDTPGHVDFTVEVERALRVLDGA 53
MD ME E++RGITI SAAT W H INIIDTPGHVDFT+EVER++RVLDGA
Sbjct: 50 MDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGA 109
Query: 54 ILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFL 113
++V CAVGGVQ Q+ TV RQ +Y VP IAF+NK+DR+GA+ +V+NQ++ ++G N L
Sbjct: 110 VMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRMGANFLKVVNQIKTRLGANPVPL 169
Query: 114 QIPIGLGSETKGIIDLIQRKAIYFEGP-LGDNLRIEEIPADLKKEAESKRQELIEHVAEG 172
Q+ IG G++DL++ KAI + G E+IPAD+ + A Q LIE AE
Sbjct: 170 QLAIGAEEHFTGVVDLVKMKAINWNDADQGVTFEYEDIPADMVELANEWHQNLIESAAEA 229
Query: 173 DEILGEMFLEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNP 232
E L E +L + ++E +IK A+R+ L + V G+A KNKGVQ +LDAV+DYLP+P
Sbjct: 230 SEELMEKYLGGEELTEAEIKGALRQRVLNNEIILVTCGSAFKNKGVQAMLDAVIDYLPSP 289
Query: 233 GEVTNY-AIENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGE 290
+V I + +D + S D PF ALAFK+ F G LT+ R Y G + G+
Sbjct: 290 VDVPAINGILDDGKDTPAERHASDDE--PFSALAFKIATDPFVGNLTFFRVYSGVVNSGD 347
Query: 291 MIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISL 349
+ N + R R+V++H+N+ E+++EV AGDI A G+ D +GDT + D + I L
Sbjct: 348 TVLNSVKAARERFGRIVQMHANKREEIKEVRAGDIAAAIGLKDVTTGDT-LCDPDAPIIL 406
Query: 350 ESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHL 409
E + +PV+S++++ D++ A+ R KEDP+F + D ES +T+++GMGELHL
Sbjct: 407 ERMEFPEPVISIAVEPKTKADQEKMGLALGRLAKEDPSFRVWTDEESNQTIIAGMGELHL 466
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKETLVQPF-DFDYLHKKQSGGSGQYGRVIGTLEPLP 468
+I RM+RE+N +GKP+VA++ET+ Q D + H KQSGG GQYG V+ + PL
Sbjct: 467 DIIVDRMKREFNVEANVGKPQVAYRETIRQKVTDVEGKHAKQSGGRGQYGHVVIDMYPLE 526
Query: 469 PSANTK-LEFIDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMV 527
P +N K EFI++ G +P ++PA+ KG ++ + G L+G V + + L G H V
Sbjct: 527 PGSNPKGYEFINDIKGGVIPGEYIPAVDKGIQEQLKAGPLAGYPVVDMGIRLHFGSYHDV 586
Query: 528 DSNEISFILAAHDPVVSMSIK 548
DS+E++F LAA S++ K
Sbjct: 587 DSSELAFKLAA-----SIAFK 602
Score = 84.1 bits (209), Expect = 4e-17
Identities = 28/66 (42%), Positives = 46/66 (69%)
Query: 540 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 599
+PV+S++++ D++ A+ R KEDP+F + D ES +T+++GMGELHL+I R
Sbjct: 413 EPVISIAVEPKTKADQEKMGLALGRLAKEDPSFRVWTDEESNQTIIAGMGELHLDIIVDR 472
Query: 600 MEREYN 605
M+RE+N
Sbjct: 473 MKREFN 478
>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 = 624 bits (1611), Expect = 0.0
Identities = 151/552 (27%), Positives = 264/552 (47%), Gaps = 43/552 (7%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
D + T+++ L++ H + ++D PG+ DF E+ AL D A++ + A
Sbjct: 49 TDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAE 108
Query: 61 GGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLG 120
GVQ T +R +P + + KLD+ G D Y ++ +R +G + +P+ G
Sbjct: 109 AGVQVGTERAWTVAERLGLPRMVVVTKLDK-GGDYYALLEDLRSTLG-PILPIDLPLYEG 166
Query: 121 SETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMF 180
+ G+ID+ KA +E R E+P + ++ + RQE++E + E DE L E +
Sbjct: 167 GKWVGLIDVFHGKAYRYE---NGEEREAEVPPEERERVQRFRQEVLEAIVETDEGLLEKY 223
Query: 181 LEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAI 240
LE + ++ + ++KA + PV + + + GV LL+ +L+ LP+P E
Sbjct: 224 LEGEEVTGEALEKAFHEAVRRGLLYPVALASGEREIGVLPLLELILEALPSPTE------ 277
Query: 241 ENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDK 299
R G P +A FK++ F GQ+ Y+R Y+G+L+ G+ + +
Sbjct: 278 --------------RFGDGPPLAKVFKVQVDPFMGQVAYLRLYRGRLKPGDSLQS--EAG 321
Query: 300 KVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVA--D 356
+VR+ L ++ +VEE AG + + G + S E + D
Sbjct: 322 QVRLPHLYVPMGKDLLEVEEAEAGFVLGVPKAEGLHRGMV-LWQGEKPESEEVPFARLPD 380
Query: 357 PVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRM 416
P V +++ D +A+++ +EDP+ E+ E L+ G GELHL +R+
Sbjct: 381 PNVPVALHPKGRTDEARLGEALRKLLEEDPSLKLERQEETGELLLWGHGELHLATAKERL 440
Query: 417 EREYNCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLE 476
++Y V PKV ++ET+ + + +KKQ+GG GQYG V LEP +
Sbjct: 441 -QDYGVEVEFSVPKVPYRETIKKVAEGQGKYKKQTGGHGQYGDVWLRLEPAS-----EYG 494
Query: 477 FIDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFIL 536
F G +P + AI +G K+ +KG L+G V G + ++ +G H VDS++++F +
Sbjct: 495 FEWRITGGVIPSKYQEAIEEGIKEAAKKGVLAGFPVMGFKAIVYNGSYHEVDSSDLAFQI 554
Query: 537 AAHDPVVSMSIK 548
AA S++ K
Sbjct: 555 AA-----SLAFK 561
Score = 82.2 bits (204), Expect = 1e-16
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 540 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 599
DP V +++ D +A+++ +EDP+ E+ E L+ G GELHL +R
Sbjct: 380 DPNVPVALHPKGRTDEARLGEALRKLLEEDPSLKLERQEETGELLLWGHGELHLATAKER 439
Query: 600 MEREYN 605
+ ++Y
Sbjct: 440 L-QDYG 444
>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 = 304 bits (780), Expect = 3e-93
Identities = 123/659 (18%), Positives = 233/659 (35%), Gaps = 127/659 (19%)
Query: 1 MDSMELERQRGITIQSAAT----------------YTLWKDHNINIIDTPGHVDFTVEVE 44
D+ + E++RGITI+S A T IN+ID+PGHVDF+ EV
Sbjct: 57 TDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVT 116
Query: 45 RALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 104
ALRV DGA++V+ + GV QT TV RQ + + INK+DR + + Q
Sbjct: 117 AALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQ 176
Query: 105 KVGHNAAFLQIPI--------------------GLGSETKGIIDLIQRKAI--------- 135
+ + + GS G I++ A
Sbjct: 177 TFARTVESVNVIVSTYADEVLGDVQVYPARGTVAFGSGLHGWAFTIRQFATRYAKKFGVD 236
Query: 136 -----------YFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEK 184
F P ++ A+ K + +++ + + +E
Sbjct: 237 KAKMMDRLWGDSFFNPKTKKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEI 296
Query: 185 SISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGV-QTLLDAVLDYLPNPGEVTNYAIEN- 242
+ + ++ ++ + +L K LL+ ++ +LP+P Y E
Sbjct: 297 PVLLEKLEIVLKGDEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQL 356
Query: 243 -----GQEDKKVVLNPSRDGKHPFIALAFKLEAGKF--GQLTYMRCYQGKLRKGEMIYNV 295
+ + N + K+ + R + G ++ G+ +
Sbjct: 357 YEGPADDANCIAIKNCDPKA--DLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQ 414
Query: 296 RTD---------KKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGVD-CASGDTFVTDKNN 345
+ + R+V + +E +++ AG+I L G+D +T
Sbjct: 415 GPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGTLTTSET 474
Query: 346 SISLESI-YVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGM 404
+ +++ + + PVV ++++ N D + ++R +K DP + ES E +V+G
Sbjct: 475 AHNMKVMKFSVSPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCVLTYMS-ESGEHIVAGT 533
Query: 405 GELHLEIYAQRMEREY-NCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGT 463
GELHLEI Q +E ++ P+ + P VA++ET+ L K + + Y +
Sbjct: 534 GELHLEICLQDLEHDHAGVPLKISPPVVAYRETVESESSQTALSKSPNKHNRIYLKA--- 590
Query: 464 LEPLPPSANTKLE-------------------------------------------FIDE 480
EP+ + +E ID+
Sbjct: 591 -EPIDEEVSLAIENGIINPRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQ 649
Query: 481 TVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH 539
T +++ F+ ++G + G + VR+ + D H + +
Sbjct: 650 TKAVQYLHEIKDSVVAAFQWATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQIIPT 708
Score = 57.7 bits (139), Expect = 7e-09
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 540 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 599
PVV ++++ N D + ++R +K DP + ES E +V+G GELHLEI Q
Sbjct: 486 SPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCVLTYMS-ESGEHIVAGTGELHLEICLQD 544
Query: 600 MEREYNC 606
+E ++
Sbjct: 545 LEHDHAG 551
>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 = 192 bits (489), Expect = 3e-54
Identities = 106/430 (24%), Positives = 185/430 (43%), Gaps = 29/430 (6%)
Query: 2 DSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVG 61
D ME+E+QRGI+I ++ + D +N++DTPGH DF+ + R L +D ++V+ A
Sbjct: 58 DWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAK 117
Query: 62 GVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGS 121
GV+ +T + + D P + F+NKLDR DP +++++ ++ A + PIG G
Sbjct: 118 GVEDRTRKLMEVTRLRDTPILTFMNKLDRDIRDPMELLDEVENELKIGCAPITWPIGCGK 177
Query: 122 ETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFL 181
KG+ L + + ++ G ++ I L +
Sbjct: 178 LFKGVYHLYKDETYLYQSGKGHTIQEVRIVKGLNNPDLDAAVGEDLA---------QQLR 228
Query: 182 EEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIE 241
+E + + + + L + TPV GTAL N GV +LD ++++ P P
Sbjct: 229 DELELVKGASNEFDKELFLAGEITPVFFGTALGNFGVDHMLDGLVEWAPAPM-------- 280
Query: 242 NGQEDKKVVLNPSRDGKHPFIALAFKLEAG----KFGQLTYMRCYQGKLRKGEMIYNVRT 297
++ + S D F FK++A ++ +MR GK KG + VRT
Sbjct: 281 -PRQTDTRTVEASED---KFTGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLRQVRT 336
Query: 298 DKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVAD 356
K V +S + + + VEE GDI L GDTF + + I
Sbjct: 337 AKDVVISDALTFMAGDRSHVEEAYPGDILGLHNHGTIQIGDTFTQGEM--MKFTGIPNFA 394
Query: 357 PVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRM 416
P + I+ + + K + + ++E F + + +V +G L ++ R+
Sbjct: 395 PELFRRIRLKDPLKQKQLLKGLVQLSEEGAV-QVFRPISNNDLIVGAVGVLQFDVVVARL 453
Query: 417 EREYNCPVVL 426
+ EYN V
Sbjct: 454 KSEYNVEAVY 463
Score = 35.1 bits (81), Expect = 0.062
Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 4/64 (6%)
Query: 550 VNNKD---RDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNC 606
+ KD + K + + ++E F + + +V +G L ++ R++ EYN
Sbjct: 401 IRLKDPLKQKQLLKGLVQLSEEGAV-QVFRPISNNDLIVGAVGVLQFDVVVARLKSEYNV 459
Query: 607 PVVL 610
V
Sbjct: 460 EAVY 463
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 192 bits (489), Expect = 3e-54
Identities = 108/431 (25%), Positives = 195/431 (45%), Gaps = 32/431 (7%)
Query: 2 DSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVG 61
D MELE+QRGI++ ++ +KD+ IN++DTPGH DFT + R L +D A++V+ A
Sbjct: 58 DWMELEKQRGISVTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAK 117
Query: 62 GVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGS 121
GV+ +T+ + + P + FINK+DR +++++ + + A + PIG+G
Sbjct: 118 GVEPRTIKLMEVCRLRHTPIMTFINKMDRDTRPSIELLDEIESILRIHCAPVTWPIGMGK 177
Query: 122 ETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADL-KKEAESKRQELIEHVAEGDEILGEMF 180
KGI LI+ ++ + + E + E + K +L + E++
Sbjct: 178 YFKGIYHLIEDAIYLYQPGKHERVGESERIEGINNPELDKKLGDLASELRNEIELVKGAS 237
Query: 181 LEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAI 240
+ + L + TP+ G+A+ N GV LLDA + P P
Sbjct: 238 ------HPFEREG-----YLKGELTPIFFGSAINNFGVGELLDAFVKEAPPPQ------- 279
Query: 241 ENGQEDKKVVLNPSRDGKHPFIALAFKLEAG----KFGQLTYMRCYQGKLRKGEMIYNVR 296
G+E ++ P + F FK++A ++ ++R G+ +KG Y+VR
Sbjct: 280 --GRETNSRLVKPEEE---KFSGFVFKIQANMDPGHRDRIAFLRIASGQYQKGMKAYHVR 334
Query: 297 TDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVA 355
K+++++ + + + E+ EE GDI L GDTF + I
Sbjct: 335 LKKEIQINNALTFMAGKRENAEEAWPGDIIGLHNHGTIQIGDTFTQGER--FKFTGIPNF 392
Query: 356 DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQR 415
+ ++ + + K + + ++E T F +S E ++ +G L ++ A R
Sbjct: 393 ASELFRLVRLKDPLKQKALLKGLTQLSEEGAT-QLFRPLDSNELILGAVGLLQFDVVAYR 451
Query: 416 MEREYNCPVVL 426
+E EYN V
Sbjct: 452 LENEYNVKCVY 462
Score = 35.4 bits (82), Expect = 0.048
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 550 VNNKD---RDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNC 606
V KD + K + + ++E T F +S E ++ +G L ++ A R+E EYN
Sbjct: 400 VRLKDPLKQKALLKGLTQLSEEGAT-QLFRPLDSNELILGAVGLLQFDVVAYRLENEYNV 458
Query: 607 PVVL 610
V
Sbjct: 459 KCVY 462
>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 = 100 bits (253), Expect = 1e-22
Identities = 42/112 (37%), Positives = 70/112 (62%), Gaps = 5/112 (4%)
Query: 1 MDSMELERQRGITIQSAATYTLWK-----DHNINIIDTPGHVDFTVEVERALRVLDGAIL 55
+D++++ER+RGIT++ A +K + +++IDTPGHVDF+ EV RAL +GA+L
Sbjct: 43 LDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSYEVSRALAACEGALL 102
Query: 56 VLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 107
++ A G+++QT+ + D+ I INK+D AD RV Q+ + +G
Sbjct: 103 LIDASQGIEAQTVANFWKAVEQDLVIIPVINKIDLPSADVDRVKKQIEEVLG 154
Score = 58.6 bits (143), Expect = 3e-09
Identities = 43/173 (24%), Positives = 80/173 (46%), Gaps = 16/173 (9%)
Query: 274 GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV- 331
G + ++R + G+++ G+ I + T K+ V+ V + +M +++ AGD+ + +
Sbjct: 207 GAVAFVRIFDGEVKPGDKIMLMSTGKEYEVTE-VGAQTPKMTKFDKLSAGDVGYIAASIK 265
Query: 332 ---DCASGDTFVTDKNNSIS--LESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDP 386
D GDT +T N + A P+V I + + A++++ D
Sbjct: 266 DVRDIRIGDT-ITHAKNPTKEPVPGFQPAKPMVYAGIYPAEDTTYEELRDALEKYAINDA 324
Query: 387 TFHFFYDPESKETLVSG-----MGELHLEIYAQRMEREYNCPVVLGKPKVAFK 434
Y+PES L G +G LH+EI +R+EREY ++ P V ++
Sbjct: 325 AI--VYEPESSPALGMGFRVGFLGLLHMEIVQERLEREYGVKIITTAPNVIYR 375
Score = 35.9 bits (84), Expect = 0.042
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 7/70 (10%)
Query: 541 PVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSG-----MGELHLEI 595
P+V I + + A++++ D Y+PES L G +G LH+EI
Sbjct: 295 PMVYAGIYPAEDTTYEELRDALEKYAINDAAI--VYEPESSPALGMGFRVGFLGLLHMEI 352
Query: 596 YAQRMEREYN 605
+R+EREY
Sbjct: 353 VQERLEREYG 362
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 100 bits (252), Expect = 2e-22
Identities = 47/112 (41%), Positives = 69/112 (61%), Gaps = 5/112 (4%)
Query: 1 MDSMELERQRGITIQSAATYTLWK-----DHNINIIDTPGHVDFTVEVERALRVLDGAIL 55
+DSM+LER+RGITI++ + +K + +N IDTPGHVDF+ EV R+L +GA+L
Sbjct: 41 LDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALL 100
Query: 56 VLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 107
V+ A GV++QTL D+ + +NK+D ADP RV ++ VG
Sbjct: 101 VVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAADPERVAEEIEDIVG 152
Score = 58.6 bits (143), Expect = 3e-09
Identities = 44/173 (25%), Positives = 80/173 (46%), Gaps = 16/173 (9%)
Query: 274 GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV- 331
G ++ +R G LRKG+ + + T + R + + + + D E+ G++ + + +
Sbjct: 205 GVVSLIRIKNGTLRKGDKVKVMSTGQTYNADR-LGIFTPKQVDRTELKCGEVGWLVCAIK 263
Query: 332 ---DCASGDTFVTDKNNSIS--LESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDP 386
GDT +T N L P V + V++ D + F A+ + + D
Sbjct: 264 DIHGAPVGDT-LTLARNPAEKALPGFKKVKPQVYAGLFPVSSDDYEAFRDALGKLSLNDA 322
Query: 387 TFHFFYDPESKETLVSG-----MGELHLEIYAQRMEREYNCPVVLGKPKVAFK 434
+ FY+PES L G +G LH+EI +R+EREY+ ++ P V ++
Sbjct: 323 SL--FYEPESSSALGFGFRCGFLGLLHMEIIQERLEREYDLDLITTAPTVVYE 373
Score = 36.3 bits (85), Expect = 0.032
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 7/70 (10%)
Query: 541 PVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSG-----MGELHLEI 595
P V + V++ D + F A+ + + D + FY+PES L G +G LH+EI
Sbjct: 293 PQVYAGLFPVSSDDYEAFRDALGKLSLNDASL--FYEPESSSALGFGFRCGFLGLLHMEI 350
Query: 596 YAQRMEREYN 605
+R+EREY+
Sbjct: 351 IQERLEREYD 360
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 65.4 bits (160), Expect = 1e-12
Identities = 36/95 (37%), Positives = 50/95 (52%), Gaps = 2/95 (2%)
Query: 11 GITIQSAATYTLWKDHN-INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 69
GIT Q Y + + I +DTPGH FT R +V D ILV+ A GV QT+
Sbjct: 40 GIT-QHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVE 98
Query: 70 VNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 104
K +VP I INK+D+ A+P RV+ ++ +
Sbjct: 99 AINHAKAANVPIIVAINKMDKPEANPDRVMQELME 133
>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 = 64.7 bits (157), Expect = 7e-11
Identities = 64/347 (18%), Positives = 109/347 (31%), Gaps = 117/347 (33%)
Query: 64 Q-SQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSE 122
Q SQ M Y A + +R AD + + G +
Sbjct: 1624 QGSQE--QGMGMDLYKTSKAAQ-DVWNR--ADNH-----FKDTYGFS------------- 1660
Query: 123 TKGIIDLIQ----RKAIYFEGPLGDNLR------IEEIPADLKKEAESKRQELIEHVA-- 170
I+D++ I+F G G +R I E D K + E +E+ EH
Sbjct: 1661 ---ILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
Query: 171 --EGD-EILGE-------MFLEEKSISEDDIKKAIRRSTLTRKFTPV----------LVG 210
+ +L + L EK+ ED ++ L L
Sbjct: 1718 TFRSEKGLLSATQFTQPALTLMEKAAFED-----LKSKGLIPADATFAGHSLGEYAALAS 1772
Query: 211 TALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVV----LNPSRDGKHPFIALAF 266
A V ++ V + + G A+ + + +NP R +A +F
Sbjct: 1773 LA----DVMSIESLV-EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGR------VAASF 1821
Query: 267 KLEAGKFGQLTYMRCYQGKLRKGEMI----YNVRTDKKVRVSRLVRLHSNEMEDVEEVLA 322
EA ++ + R G ++ YNV +++ V A
Sbjct: 1822 SQEALQYV------VERVGKRTGWLVEIVNYNVE-NQQY------------------VAA 1856
Query: 323 GDIFALFGVDCASGDTFVTDKNNSISLESIYVADPVVSMSIKAVNNK 369
GD+ AL D + N I L+ I + + S+S++ V
Sbjct: 1857 GDLRAL---DTVTNVL------NFIKLQKIDIIELQKSLSLEEVEGH 1894
Score = 52.0 bits (124), Expect = 6e-07
Identities = 82/525 (15%), Positives = 150/525 (28%), Gaps = 188/525 (35%)
Query: 201 TRKFT--------PVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVV-L 251
TR T +LV TA Q L + LP P E +A ++ E L
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFFIASQ-LQEQFNKILPEPTE--GFAADD--EPTTPAEL 60
Query: 252 NPSRDGKHPFIA-LAFKLEAGKFGQLTYM---------RCY-QGK--------------- 285
+ F+ ++ +E K GQ + CY +G
Sbjct: 61 -VGK-----FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 286 --LRKGEMI---YNV-----RTDKKVRVSRLVRLHSNEMEDVEEVLAGD--IFALFGVDC 333
++ E+I R K S L R V G+ + A+FG
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFR----------AVGEGNAQLVAIFG--- 161
Query: 334 ASG----DTFVTDKNNSISLESIYVA-DPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTF 388
G D + + L +Y +V IK ++ + +
Sbjct: 162 --GQGNTDDYFEE------LRDLYQTYHVLVGDLIKFS--------AETLSELIRTTLDA 205
Query: 389 HFFY-----------DPESK---ETLVSGMGELHLEIYAQRMEREYNCPVV----LGKPK 430
+ +P + + L+S +CP++ L
Sbjct: 206 EKVFTQGLNILEWLENPSNTPDKDYLLSI---------------PISCPLIGVIQLAHYV 250
Query: 431 VAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDET--------- 481
V K P + L G +G ++ + ++ F
Sbjct: 251 VTAKLLGFTPGE---LRSYLKGATGHSQGLVTAV--AIAETDSWESFFVSVRKAITVLFF 305
Query: 482 VGT----NVPKPFLPAIIKGFKQMCEKGC------LSGSRVAGVRM--VLK--DGDNHMV 527
+G P LP I + E LS ++ + V + N +
Sbjct: 306 IGVRCYEAYPNTSLPPSI--LEDSLENNEGVPSPMLS---ISNLTQEQVQDYVNKTNSHL 360
Query: 528 DSNE---IS-------FILAAHDPVVSM--------SIKAVNNKDRDN--FSKAVQRFTK 567
+ + IS +++ P S+ KA + D+ FS+ +F+
Sbjct: 361 PAGKQVEISLVNGAKNLVVSG--PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 568 E-DPT---FHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPV 608
P FH + + + + + ++ A+ + PV
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI----QIPV 459
Score = 47.0 bits (111), Expect = 2e-05
Identities = 55/316 (17%), Positives = 94/316 (29%), Gaps = 126/316 (39%)
Query: 205 TPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIAL 264
+P+L + L + VQ ++ +LP G+ ++ NG VV P + L
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLP-AGKQVEISLVNGA-KNLVVSGPPQS----LYGL 389
Query: 265 AFKLEAGKFGQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSR--L---VRLHSNEMEDVEE 319
L K Q ++ +++K++ S L HS+ + +
Sbjct: 390 NLTLRKAKAP----SGLDQSRIP--------FSERKLKFSNRFLPVASPFHSHLLVPASD 437
Query: 320 VLAGDIFALFGVDCASGD-------TF----VTDKNNSISLESIYVADPVVSMSIKAVNN 368
++ D+ V + D TF + + SI E I D ++ + +
Sbjct: 438 LINKDL-VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI-SERI--VDCIIRLPV----- 488
Query: 369 KDRDNFSKAVQRFTKEDPTFHF--FYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVL 426
+ T+ T H F P SG+G L
Sbjct: 489 ----KWETT----TQFKAT-HILDF-GPGG----ASGLGVL------------------- 515
Query: 427 GKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVI--GTLEPLPPSANTKLEFIDETVGT 484
T + G+G RVI GTL+ N ++
Sbjct: 516 ---------T-----------HRNKDGTGV--RVIVAGTLDI-----NPDDDY------- 541
Query: 485 NVPKPFLPAIIKGFKQ 500
GFKQ
Sbjct: 542 ------------GFKQ 545
Score = 37.7 bits (87), Expect = 0.014
Identities = 33/158 (20%), Positives = 54/158 (34%), Gaps = 48/158 (30%)
Query: 2 DSMELERQRGITIQSAATYTLWKDHNINIID-TPGHVDFTVEVERALRVLDGAILVLCAV 60
+E+ RG+T+Q A N +I PG V + E A+ +
Sbjct: 1781 SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE--------ALQYVVER 1832
Query: 61 GGVQSQTL--TVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKV--GHNAAFLQIP 116
G ++ L VN Y+V NQ Q V G A L
Sbjct: 1833 VGKRTGWLVEIVN-----YNVE-------------------NQ--QYVAAGDLRA-LDT- 1864
Query: 117 IGLGSETKGIIDLIQRKAIYFEGPLGDNLRIEEIPADL 154
+ + +++ I+ + I L +L +EE+ L
Sbjct: 1865 --VTN----VLNFIKLQKIDII-ELQKSLSLEEVEGHL 1895
Score = 37.0 bits (85), Expect = 0.023
Identities = 19/107 (17%), Positives = 33/107 (30%), Gaps = 30/107 (28%)
Query: 510 SRVAGVRMVLKDGDNHMVDSNEISFILA--AHDPVV----------------SMSIKAVN 551
S+ A + V DNH D+ S IL ++PV ++
Sbjct: 1639 SKAA--QDVWNRADNHFKDTYGFS-ILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 552 NKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQ 598
D ++ + + E T + F + G L + Q
Sbjct: 1696 IVDGKLKTEKIFKEINEHSTSYTFRSEK---------GLLSATQFTQ 1733
Score = 36.6 bits (84), Expect = 0.031
Identities = 35/223 (15%), Positives = 66/223 (29%), Gaps = 74/223 (33%)
Query: 59 AVGG-----VQSQTLTVNRQMKRYDVPCIAFIN------------KLDRL---------- 91
++ VQ N + I+ +N L L
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 92 -GADPYRVINQMRQKVGHNAAFLQIPIG-------LGSETKGIIDLIQRKAIYFEGPLGD 143
G D R+ R+ N FL P+ L + I + + + F
Sbjct: 400 SGLDQSRIPFSERKLKFSNR-FL--PVASPFHSHLLVPASDLINKDLVKNNVSFNAK--- 453
Query: 144 NLRIEEIP-------ADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIR 196
+++I P +DL+ + S + ++ D I+ + + +
Sbjct: 454 DIQI---PVYDTFDGSDLRVLSGSISERIV------DCII------RLPV---KWETTTQ 495
Query: 197 -RSTLTRKFTP-------VLVGTALKNKGVQTLLDAVLDYLPN 231
++T F P VL GV+ ++ LD P+
Sbjct: 496 FKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
Score = 32.3 bits (73), Expect = 0.64
Identities = 39/261 (14%), Positives = 66/261 (25%), Gaps = 105/261 (40%)
Query: 361 MSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREY 420
++ D ++ + + E T + F + G L + Q
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK---------GLLSATQFTQ------ 1733
Query: 421 NCPVVLGKPKVAF---KETLVQPFDFDYL--HKKQSGGS-GQYGRVIGTLEPLPPSANTK 474
P + K AF K + P D H S G+Y +A
Sbjct: 1734 --PALTLMEKAAFEDLKSKGLIPAD-ATFAGH------SLGEY------------AA--- 1769
Query: 475 LEFIDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGD--NHMVDSNEI 532
L +S + V +V G V +E+
Sbjct: 1770 L-------------------------ASLADVMSIE--SLVEVVFYRGMTMQVAVPRDEL 1802
Query: 533 SFILAAHDPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELH 592
+ + A+N + F++E + + K T G L
Sbjct: 1803 G--------RSNYGMIAINP------GRVAASFSQEA--LQYVVERVGKRT-----GWL- 1840
Query: 593 LEIYAQRMEREYNCP---VVL 610
+EI YN V
Sbjct: 1841 VEI-VN-----YNVENQQYVA 1855
>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 = 57.8 bits (140), Expect = 5e-09
Identities = 32/142 (22%), Positives = 53/142 (37%), Gaps = 13/142 (9%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 65
++RGITI + + L I ++D PGH D V A ++D A++V+ A G ++
Sbjct: 54 SQKRGITIDIGFSAFKLENYR-ITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKT 112
Query: 66 QT---LTVNRQMKRYDVPCIAFINKLDRLGADPY--RVINQMRQKVGHNAAFLQIPIGLG 120
QT + + ++P I I K D R M+ + I
Sbjct: 113 QTGEHMLILDHF---NIPIIVVITKSDNA-GTEEIKRTEMIMKSILQSTHNLKNSSIIPI 168
Query: 121 SETK--GIIDLIQRKAIYFEGP 140
S G+ +L
Sbjct: 169 SAKTGFGVDELKNLIITTLNNA 190
Score = 38.2 bits (89), Expect = 0.007
Identities = 24/129 (18%), Positives = 44/129 (34%), Gaps = 40/129 (31%)
Query: 205 TPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPF--- 261
+ ++ +A GV L + ++ L N R+ + F
Sbjct: 163 SSIIPISAKTGFGVDELKNLIITTLNNA-------------------EIIRNTESYFKMP 203
Query: 262 IALAFKLEAGKFGQLTYM--RCYQGKLRKGE--MIYNVRTDKKVRVSRLVRLHSNEM--E 315
+ AF ++ G T + +G ++ G+ + + KVR S + E
Sbjct: 204 LDHAFPIK----GAGTVVTGTINKGIVKVGDELKVLPINMSTKVR--------SIQYFKE 251
Query: 316 DVEEVLAGD 324
V E AGD
Sbjct: 252 SVMEAKAGD 260
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 55.7 bits (135), Expect = 3e-08
Identities = 35/94 (37%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 11 GITIQS--AATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTL 68
GIT Q A +L I +DTPGH F+ R +V D ILV+ A GV QT+
Sbjct: 36 GIT-QHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTV 94
Query: 69 TVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 102
+ K VP + INK D+ ADP +V ++
Sbjct: 95 ESIQHAKDAHVPIVLAINKCDKAEADPEKVKKEL 128
>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 = 54.1 bits (131), Expect = 8e-08
Identities = 35/95 (36%), Positives = 50/95 (52%), Gaps = 2/95 (2%)
Query: 11 GITIQSAATYTLWKDHN-INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 69
GIT Q Y + ++ I +DTPGH FT R + D +LV+ A GV QT+
Sbjct: 36 GIT-QHIGAYHVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIE 94
Query: 70 VNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 104
+ K VP + +NK+D+ ADP RV N++ Q
Sbjct: 95 AIQHAKAAQVPVVVAVNKIDKPEADPDRVKNELSQ 129
>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 = 51.2 bits (123), Expect = 6e-07
Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 20/103 (19%)
Query: 1 MDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDFTVEVERALRVLDGAILV 56
+D ++ ER+RGITI A LWK + + +ID PGH DF + D AIL+
Sbjct: 60 LDKLKAERERGITIDIA----LWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILI 115
Query: 57 LCAVGGVQSQTLTVNRQMKRYDVPCIAF----------INKLD 89
+ G ++ + Q + + +AF +NK+D
Sbjct: 116 IAGGVGEFEAGISKDGQTREH--ALLAFTLGVRQLIVAVNKMD 156
>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 = 51.1 bits (123), Expect = 6e-07
Identities = 25/67 (37%), Positives = 36/67 (53%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
+D ++ ER++GITI A Y I DTPGH +T + D AI+++ A
Sbjct: 79 VDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDAR 138
Query: 61 GGVQSQT 67
GVQ+QT
Sbjct: 139 YGVQTQT 145
>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 = 50.7 bits (122), Expect = 1e-06
Identities = 24/110 (21%), Positives = 38/110 (34%), Gaps = 36/110 (32%)
Query: 24 KDHNINIIDTPGHVDFTVEVERALR-----VLDGAILVLCAVGGVQSQTLTVNRQMKRYD 78
+ IDTPGH FT LR + D AIL++ G + QT ++ Y
Sbjct: 68 TLPGLFFIDTPGHEAFT-----TLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYR 122
Query: 79 VPCIAFINKLDRLG--------------------------ADPYRVINQM 102
P + NK+DR+ Y ++ ++
Sbjct: 123 TPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVYELVGKL 172
>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 = 46.8 bits (110), Expect = 2e-05
Identities = 52/322 (16%), Positives = 95/322 (29%), Gaps = 73/322 (22%)
Query: 311 SNEME----DVEEVLAGDIFALFGVDCASGDTFVTDKNNSI----SLESIYVADPVVSMS 362
+ E + D+ V F DC V D SI ++ I ++ VS +
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNF--DCKD----VQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 363 IKAVNNKDRDNFSKAVQRFTKE--DPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREY 420
++ + VQ+F +E + F P E + +Y ++ +R Y
Sbjct: 65 LRLFW-TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP---SMMTRMYIEQRDRLY 120
Query: 421 NCPVVLGK-------PKVAFKETL--VQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSA 471
N V K P + ++ L ++P + GSG+ + S
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV--LGSGKTWVALDVCL----SY 174
Query: 472 NTKLEFIDE----TVGT-NVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHM 526
+ + + + N P+ L + K Q+ + +++ +
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ--- 231
Query: 527 VDSNEISFILAAH---------DPVVSMS-IKAVNNK------DRDNFSKAVQRFTKEDP 570
E+ +L + V + A N R K V F
Sbjct: 232 ---AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF---KQVTDFLSAAT 285
Query: 571 TFHF--------FYDPESKETL 584
T H E K L
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLL 307
Score = 36.4 bits (83), Expect = 0.028
Identities = 41/281 (14%), Positives = 87/281 (30%), Gaps = 81/281 (28%)
Query: 48 RVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINK--LDRLGADPYRVINQMRQK 105
VL L + L K + + I + L+ L +P + R+
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL--EP----AEYRKM 374
Query: 106 VGHNAAF---LQIPIGL---------GSETKGIIDLIQRKAIYFEGPLGDNLRIEEIPAD 153
+ F IP L S+ +++ + + ++ + P + I I +
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 154 LKKEAESKRQ---ELIE----------------------------HVAEGDEILGEMFLE 182
LK + E++ +++ H+ + E
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE--HPERMTL 492
Query: 183 EKSISEDD--IKKAIRRSTLTRKFTPVLVGTAL----------KNKGV-QTLLDAVLDYL 229
+ + D +++ IR + + ++ T N + L++A+LD+L
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
Query: 230 PNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIALAFKLEA 270
P E ++ + D IAL + EA
Sbjct: 553 PKIEE-------------NLICSKYTDLLR--IALMAEDEA 578
>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 = 45.3 bits (107), Expect = 5e-05
Identities = 33/97 (34%), Positives = 45/97 (46%), Gaps = 27/97 (27%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRV---------LDGAILV 56
E+ RGITI ++ Y H ++ D PGH D+ V +DGAILV
Sbjct: 340 EKARGITINTSHVEYDTPTRHYAHV-DCPGHADY---------VKNMITGAAQMDGAILV 389
Query: 57 LCAVGGVQSQT---LTVNRQMKRYDVPCIA-FINKLD 89
+ A G QT + + RQ+ VP I F+NK D
Sbjct: 390 VAATDGPMPQTREHILLGRQV---GVPYIIVFLNKCD 423
Score = 29.1 bits (65), Expect = 4.9
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 8/36 (22%)
Query: 205 TPVLVGTALK-----NKGVQT---LLDAVLDYLPNP 232
TP++ G+ALK + L + Y+P P
Sbjct: 452 TPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEP 487
>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 = 44.5 bits (106), Expect = 6e-05
Identities = 33/97 (34%), Positives = 43/97 (44%), Gaps = 27/97 (27%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRV---------LDGAILV 56
ER RGITI +A Y+ H + D PGH D+ V LDG ILV
Sbjct: 47 ERARGITINAAHVEYSTAARHYAHT-DCPGHADY---------VKNMITGTAPLDGCILV 96
Query: 57 LCAVGGVQSQT---LTVNRQMKRYDVPCIA-FINKLD 89
+ A G QT L + RQ+ V + ++NK D
Sbjct: 97 VAANDGPMPQTREHLLLARQI---GVEHVVVYVNKAD 130
>3e3x_A BIPA; MCSG,PSI2, structural genomics, protein struct initiative,
midwest center for structural genomics, GTP-BIN
nucleotide-binding; HET: MLZ MLY; 1.95A {Vibrio
parahaemolyticus}
Length = 332
Score = 44.1 bits (104), Expect = 8e-05
Identities = 43/174 (24%), Positives = 70/174 (40%), Gaps = 37/174 (21%)
Query: 336 GDTFVTDKNNSISLESIYVADPVVSMSIKAVNN-------KDRDNFSKAVQRFTKE---- 384
DT + +N +L ++ V +P V+M+ VN ++R KE
Sbjct: 12 SDT-ICAQNAVEALPALSVDEPTVTMTF-QVNTSPFAGXEGXFVTSRNILERLEKELVHN 69
Query: 385 -----DPTFHFFYDPESKET-LVSGMGELHLEIYAQRMERE-YNCPVVLGKPKVAFKE-- 435
+ T + + VSG GELHL I + M RE + V +P+V E
Sbjct: 70 VALRVEQT-------DDPDKFRVSGRGELHLSILIENMRREGFELAV--SRPEVIIXEED 120
Query: 436 -TLVQPFD---FDYLHKKQSGGSGQYGRVIGTLEPLPPSAN--TKLEFIDETVG 483
L++PF+ D + + Q G G G L + P +++FI + G
Sbjct: 121 GQLMEPFETVTIDVMEEHQGGIMENIGLRXGELXDMAPDGKGRVRMDFIMPSRG 174
Score = 29.4 bits (66), Expect = 3.4
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 584 LVSGMGELHLEIYAQRMERE 603
VSG GELHL I + M RE
Sbjct: 84 RVSGRGELHLSILIENMRRE 103
>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 = 43.9 bits (104), Expect = 1e-04
Identities = 17/75 (22%), Positives = 31/75 (41%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
+DS ER++G T++ Y + +++D PGH + + D +LV+ A
Sbjct: 96 LDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISAR 155
Query: 61 GGVQSQTLTVNRQMK 75
G Q +
Sbjct: 156 RGEFEAGFERGGQTR 170
>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 = 43.8 bits (104), Expect = 1e-04
Identities = 29/97 (29%), Positives = 44/97 (45%), Gaps = 8/97 (8%)
Query: 1 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 60
+D ++ ER+RG+TI K + IID PGH DF + D AILV+ A
Sbjct: 59 LDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAK 118
Query: 61 GGVQSQTLTVNRQMKRYDVPC--------IAFINKLD 89
G ++V Q + + + I +NK+D
Sbjct: 119 KGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMD 155
>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 = 43.7 bits (104), Expect = 1e-04
Identities = 35/97 (36%), Positives = 47/97 (48%), Gaps = 27/97 (27%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRV---------LDGAILV 56
ER RGITI +A Y K H ++ D PGH D+ + +DGAILV
Sbjct: 56 ERARGITINTAHVEYETAKRHYSHV-DCPGHADY---------IKNMITGAAQMDGAILV 105
Query: 57 LCAVGGVQSQT---LTVNRQMKRYDVPCIA-FINKLD 89
+ A G QT + + RQ+ VP I F+NK+D
Sbjct: 106 VSAADGPMPQTREHILLARQV---GVPYIVVFMNKVD 139
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 43.6 bits (103), Expect = 2e-04
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 1 MDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDF 39
+D+ E ER RG+T+ A I D PGH DF
Sbjct: 230 LDTTEEERARGVTMDVA----STTFESDKKIYEIGDAPGHRDF 268
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 43.6 bits (103), Expect = 2e-04
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 1 MDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDF 39
MD ER+RG+T+ N I+D PGH DF
Sbjct: 220 MDQTNEERERGVTVSIC----TSHFSTHRANFTIVDAPGHRDF 258
>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 = 43.4 bits (103), Expect = 2e-04
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 1 MDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDF 39
MD ER+RG+T+ N I+D PGH DF
Sbjct: 86 MDQTNEERERGVTVSIC----TSHFSTHRANFTIVDAPGHRDF 124
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 41.8 bits (99), Expect = 4e-04
Identities = 14/160 (8%), Positives = 36/160 (22%), Gaps = 42/160 (26%)
Query: 7 ERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRV---------LDGAILVL 57
++G + + N+ +D + + D A+L
Sbjct: 41 LGKKGTSSDITMYNNDKEGRNMVFVDAHSYPKT---------LKSLITALNISDIAVLC- 90
Query: 58 CAVGGVQSQT---LTVNRQMKRYDVP-CIAFINKLDRLGADPYR---VINQMRQKVGHNA 110
G+ + T + + I + + D + + +++
Sbjct: 91 IPPQGLDAHTGECIIALDLL---GFKHGIIALTRSDS--THMHAIDELKAKLKVIT-SGT 144
Query: 111 AFLQIPIGLGSETKG----------IIDLIQRKAIYFEGP 140
+ K + I A E
Sbjct: 145 VLQDWECISLNTNKSAKNPFEGVDELKARINEVAEKIEAE 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 = 37.8 bits (87), Expect = 0.010
Identities = 12/117 (10%), Positives = 29/117 (24%), Gaps = 13/117 (11%)
Query: 13 TIQSAATYTLWKDHNINIIDTPGHVDFTVEVERAL---RVLDGAILVLCAVGGVQSQTLT 69
Y N+ D PG + L + + ++ + + +
Sbjct: 107 VTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDID 166
Query: 70 VNRQMKRYDVPCIAFINKLDRLGA----------DPYRVINQMRQKVGHNAAFLQIP 116
+ + + K+D D +V+ +R + I
Sbjct: 167 IAKAISMMKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIA 223
>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 = 36.4 bits (85), Expect = 0.026
Identities = 23/111 (20%), Positives = 37/111 (33%), Gaps = 31/111 (27%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALR----------------- 48
E +RGITI+ A + + N T + +R
Sbjct: 41 ELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTM 100
Query: 49 -----VLDGAILVLCAVGGV-QSQT---LTVNRQMKRYDVPCIA-FINKLD 89
++DGAILV+ A + QT L + + I NK++
Sbjct: 101 LAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG---QKNIIIAQNKIE 148
>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 = 36.1 bits (84), Expect = 0.030
Identities = 21/89 (23%), Positives = 32/89 (35%), Gaps = 9/89 (10%)
Query: 7 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGV-Q 64
+ +S + I+ ID PGH + ++DGAILV+ A Q
Sbjct: 55 AYVTEPSCKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQ 114
Query: 65 SQT---LTVNRQMKRYDVPCIA-FINKLD 89
QT + V + NK+D
Sbjct: 115 PQTREHFVALGIIG---VKNLIIVQNKVD 140
>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 = 35.7 bits (83), Expect = 0.040
Identities = 26/111 (23%), Positives = 41/111 (36%), Gaps = 31/111 (27%)
Query: 7 ERQRGITIQSA-ATYTLWKDHN----------------------INIIDTPGHVDFTVEV 43
E +RGI+I+ A + K ++ +D+PGH +
Sbjct: 39 ELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMATM 98
Query: 44 ERALRVLDGAILVLCAVGGV-QSQT---LTVNRQMKRYDVPCIA-FINKLD 89
++DGAILV+ A Q QT L + + I NK+D
Sbjct: 99 LSGASLMDGAILVIAANEPCPQPQTKEHLMALEILG---IDKIIIVQNKID 146
Score = 28.0 bits (63), Expect = 9.9
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 205 TPVLVGTALKNKGVQTLLDAVLDYLPNP 232
P++ +A + LL A+ D++P P
Sbjct: 172 APIIPISAHHEANIDVLLKAIQDFIPTP 199
>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 = 33.4 bits (75), Expect = 0.10
Identities = 7/28 (25%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 342 DKNNSIS-LES---IYVADPVVSMSIKA 365
+K ++ L++ +Y D +++IKA
Sbjct: 18 EKQ-ALKKLQASLKLYADDSAPALAIKA 44
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 32.7 bits (75), Expect = 0.34
Identities = 32/201 (15%), Positives = 60/201 (29%), Gaps = 32/201 (15%)
Query: 28 INIIDTPGHVDFTV-------EVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVP 80
+ ++DTPG D + R D ILV + + K ++P
Sbjct: 85 VTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVV--NLFKEMEIP 142
Query: 81 CIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGI-IDLIQRKAIYFEG 139
+ +NK+D LG + + + + S + D I K I
Sbjct: 143 FVVVVNKIDVLGEKAEELKGLYESRYEAKV----LLV---SALQKKGFDDI-GKTISEIL 194
Query: 140 PLGDNLRIEEIPADLKKEAESKR-QELIEHVAEGDEILGEMFLEEK--------SISEDD 190
P + + DL + I+ A ++ + ++ +
Sbjct: 195 PGDEEIP---YLGDLIDGGDLVILVVPIDLGAPKGRLIMPQVHAIREALDREAIALVVKE 251
Query: 191 IKKAIRRSTLTRKFTPVLVGT 211
+ + K P LV T
Sbjct: 252 RELRYVMENIGMK--PKLVIT 270
Score = 30.8 bits (70), Expect = 1.4
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 189 DDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVT 236
+ + ++ +R VL+ +AL+ KG + + + LP E+
Sbjct: 154 GEKAEELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPGDEEIP 201
>1y42_X Tyrosyl-tRNA synthetase, mitochondrial; CYT-18, tRNA ligase, group
I intron; HET: TYR; 1.95A {Neurospora crassa} PDB:
2rkj_A
Length = 392
Score = 32.3 bits (74), Expect = 0.44
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 17/57 (29%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYG 458
+ +M + V+F E ++Q +D+ L + Q GGS QYG
Sbjct: 197 DTVKNKMTQGDG---------VSFAEFTYPIMQGWDWFELFYQQGVQMQIGGSDQYG 244
>2ctp_A DNAJ homolog subfamily B member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 78
Score = 29.5 bits (67), Expect = 0.55
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
EILG + S++D+KKA RR L KF P
Sbjct: 11 EILGV----SRGASDEDLKKAYRR--LALKFHP 37
>2w84_A Peroxisomal membrane protein PEX14; zellweger syndrome, alternative
splicing, phosphoprotein, protein complex, disease
mutation, peroxisome; NMR {Homo sapiens} PDB: 2w85_A
Length = 70
Score = 28.8 bits (64), Expect = 0.81
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 157 EAESKRQELIE---------HVAEGDEILGEMFLEEKSISEDDIKKAIRRS 198
E R+ LI V + FL++K +++++I A ++S
Sbjct: 9 ENVLPREPLIATAVKFLQNSRVRQSPLATRRAFLKKKGLTDEEIDMAFQQS 59
>2yxn_A Tyrosyl-tRNA synthetase; tRNA synthetases class I, structural
genomics, NPPSFA, natio project on protein structural
and functional analyses; HET: AZY; 1.80A {Escherichia
coli str} PDB: 1wq3_A* 1wq4_A* 1x8x_A* 1vbn_A* 1vbm_A*
Length = 322
Score = 31.4 bits (72), Expect = 0.81
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 16/64 (25%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYGRVI 461
E QR+ RE ++F E L+Q +DF L+K+ GGS Q+G +
Sbjct: 155 EAVKQRLNREDQ--------GISFTEFSYNLLQGYDFACLNKQYGVVLCIGGSDQWGNIT 206
Query: 462 GTLE 465
++
Sbjct: 207 SGID 210
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA
synthetase, tyrrs, ligase, tyrosine, RNA-binding,
ATP-binding; 2.9A {Mycobacterium tuberculosis}
Length = 432
Score = 31.4 bits (72), Expect = 0.85
Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 18/57 (31%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYG 458
+ +R+ E +++ E L+Q D+ LH++ Q GG+ Q+G
Sbjct: 153 DTIRRRLAGE----------GISYTEFSYLLLQANDYVELHRRHGCTLQIGGADQWG 199
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 31.7 bits (71), Expect = 0.87
Identities = 20/94 (21%), Positives = 33/94 (35%), Gaps = 13/94 (13%)
Query: 27 NINIIDTPGHVD-------FTVEVERALRVL----DGAILVLCAVGGVQSQTL-TVNRQM 74
+I+IIDTPG + + LR D IL+ A S +
Sbjct: 155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGAL 214
Query: 75 KRYDVPCIAFINKLDRLGA-DPYRVINQMRQKVG 107
+ ++ +NK D + RV + +G
Sbjct: 215 RGHEDKIRVVLNKADMVETQQLMRVYGALMWALG 248
>2ctr_A DNAJ homolog subfamily B member 9; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 88
Score = 29.2 bits (66), Expect = 0.89
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+ILG KS SE IKKA + L K+ P
Sbjct: 11 DILGV----PKSASERQIKKAFHK--LAMKYHP 37
>2dn9_A DNAJ homolog subfamily A member 3; J-domain, TID1, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 79
Score = 28.7 bits (65), Expect = 1.1
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+ILG ++ S+ +IKKA + L +K+ P
Sbjct: 11 QILGV----PRNASQKEIKKAYYQ--LAKKYHP 37
>3ff5_A PEX14P, peroxisomal biogenesis factor 14; protein import, peroxin,
3 helices bundle, protein transport; HET: DPW; 1.80A
{Rattus norvegicus}
Length = 54
Score = 27.8 bits (62), Expect = 1.2
Identities = 10/51 (19%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 157 EAESKRQELIE---------HVAEGDEILGEMFLEEKSISEDDIKKAIRRS 198
+ R+ LI V + FL++K +++++I A ++S
Sbjct: 4 GSPEFREPLIATAVKFLQNSRVRQSPLATRRAFLKKKGLTDEEIDLAFQQS 54
>2cug_A Mkiaa0962 protein; DNAJ-like domain, structural genomics, molecular
chaperone, NPPSFA; NMR {Mus musculus}
Length = 88
Score = 28.9 bits (65), Expect = 1.2
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+LG ++ S+ DIKKA ++ L R++ P
Sbjct: 21 RVLGV----SRTASQADIKKAYKK--LAREWHP 47
>1iur_A KIAA0730 protein; DNAJ like domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 88
Score = 28.9 bits (65), Expect = 1.3
Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 4/24 (16%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRR 197
++ + + E + KK IRR
Sbjct: 20 SVVEQ----AWKLPESERKKIIRR 39
>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer,
alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A
{Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A*
2gja_A* 1rfl_A
Length = 172
Score = 29.8 bits (68), Expect = 1.5
Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 11/79 (13%)
Query: 28 INIIDTPG--HVDFTVE---VERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY----- 77
++IIDT G VE +ERA + ++ A VL V G + + +
Sbjct: 54 LHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLP 113
Query: 78 -DVPCIAFINKLDRLGADP 95
+P NK D G
Sbjct: 114 AKLPITVVRNKADITGETL 132
>2pid_A Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase,
protein-substrate complex, ATP-BI ligase, mitochondrion,
nucleotide-binding, protein biosynth; HET: YSA; 2.20A
{Homo sapiens} PDB: 3zxi_A*
Length = 356
Score = 30.7 bits (70), Expect = 1.6
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 17/57 (29%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYG 458
+ R++ ++ E ++Q +DF YL ++ Q GGS Q G
Sbjct: 175 QSVQLRLKSPEG---------MSLAEFFYQVLQAYDFYYLFQRYGCRVQLGGSDQLG 222
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 30.6 bits (70), Expect = 1.7
Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 14/130 (10%)
Query: 28 INIIDTPG---HVDFTVE---VERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY-DVP 80
I+DT G + VE +ER L+ ++ A +VL + + ++R +
Sbjct: 293 FRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKR 352
Query: 81 CIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQI----PIGLGSETKGIIDLIQRKAIY 136
+ INK+D + +++ K+G + ++I GL + I Q
Sbjct: 353 YLVVINKVDVVEKIN---EEEIKNKLGTDRHMVKISALKGEGLEKLEESIYRETQEIFER 409
Query: 137 FEGPLGDNLR 146
L NLR
Sbjct: 410 GSDSLITNLR 419
>1wjz_A 1700030A21RIK protein; J-domain, DNAJ like protein, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, chaperone; NMR {Mus musculus} SCOP:
a.2.3.1
Length = 94
Score = 28.5 bits (64), Expect = 1.9
Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
ILG + S + D+K+ ++ L + P
Sbjct: 20 SILGA----DPSANMSDLKQKYQK--LILLYHP 46
>1hdj_A Human HSP40, HDJ-1; molecular chaperone; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 77
Score = 27.9 bits (63), Expect = 2.1
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+ LG + S+++IK+A RR ++ P
Sbjct: 7 QTLGL----ARGASDEEIKRAYRR--QALRYHP 33
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 30.2 bits (69), Expect = 2.4
Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 6/74 (8%)
Query: 28 INIIDTPG--HVDFTVE---VERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY-DVPC 81
+ ++DT G VE VER+ + + A LVL + T ++ P
Sbjct: 274 VQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVKHRPL 333
Query: 82 IAFINKLDRLGADP 95
I +NK+D +
Sbjct: 334 ILVMNKIDLVEKQL 347
>2ej7_A HCG3 gene; HCG3 protein, DNAJ domain, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens}
Length = 82
Score = 27.6 bits (62), Expect = 2.5
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
E+L + S + IKKA R+ L K+ P
Sbjct: 13 EVLDV----PRQASSEAIKKAYRK--LALKWHP 39
>3qtg_A Pyruvate kinase, PK; TIM barrel, glycolysis, transferase; 2.20A
{Pyrobaculum aerophilum}
Length = 461
Score = 29.8 bits (68), Expect = 2.5
Identities = 11/86 (12%), Positives = 25/86 (29%), Gaps = 26/86 (30%)
Query: 142 GDNLRIEEIPADLKKEAESKR-----QELIEHVAEGDEIL---GEMFLEEKSISEDDIKK 193
G+ ++ L +++ + V + D IL G + L+ + D I+
Sbjct: 99 GEVVKF-----KLSDKSDGTYIPVPNKAFFSAVEQNDVILMLDGRLRLKVTNTGSDWIE- 152
Query: 194 AIRRSTLTRKFTPVLVGTALKN-KGV 218
+ K +
Sbjct: 153 -----------AVAESSGVITGGKAI 167
>2ctw_A DNAJ homolog subfamily C member 5; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Mus
musculus}
Length = 109
Score = 28.1 bits (63), Expect = 2.6
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+LG +K+ + DDIKK+ R+ L K+ P
Sbjct: 21 HVLGL----DKNATSDDIKKSYRK--LALKYHP 47
>2dmx_A DNAJ homolog subfamily B member 8; DNAJ J domain, helix-turn-helix
motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 28.0 bits (63), Expect = 2.7
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
E+LG + S S +DIKKA R+ L ++ P
Sbjct: 13 EVLGV----QASASPEDIKKAYRK--LALRWHP 39
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 30.0 bits (66), Expect = 2.8
Identities = 30/195 (15%), Positives = 56/195 (28%), Gaps = 22/195 (11%)
Query: 25 DHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT----VNRQMKRYDVP 80
I I+D+PG D E +L ++ +L + Q TL + +K +
Sbjct: 173 QKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLT 232
Query: 81 CIAFINKLDRLGADPY---------RVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQ 131
+N D++ N++RQ N A G + + +L
Sbjct: 233 VFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSS 292
Query: 132 RKA----IYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGD-----EILGEMFLE 182
+A + D + L +R E
Sbjct: 293 IQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRERAIAELRQVRTLARLACNHTREAVAR 352
Query: 183 EKSISEDDIKKAIRR 197
+ E D+ + +R
Sbjct: 353 RIPLLEQDVNELKKR 367
>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 = 29.8 bits (68), Expect = 2.9
Identities = 25/123 (20%), Positives = 49/123 (39%), Gaps = 22/123 (17%)
Query: 8 RQRGITIQSAATYTLWKDHNINIIDTPG-HVDFTVE------VERALRVLDGAILVLCAV 60
R G+ + + I +DTPG + + VE A + L+ A ++L +
Sbjct: 48 RVLGV-------KNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMI 100
Query: 61 GGVQSQT----LTVNRQMKRYDVPCIAFINKLDRLG--ADPYRVINQMRQKVGHNAAFLQ 114
+ +K + P I INK+D++G + +I+++ +K
Sbjct: 101 DATEGWRPRDEEIYQNFIKPLNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEI-- 158
Query: 115 IPI 117
+PI
Sbjct: 159 VPI 161
Score = 28.2 bits (64), Expect = 6.9
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 212 ALKNKGVQTLLDAVLDYLP 230
ALK + L+ +L YLP
Sbjct: 163 ALKGANLDELVKTILKYLP 181
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 2.9
Identities = 10/62 (16%), Positives = 26/62 (41%), Gaps = 17/62 (27%)
Query: 144 NLRIEEIPA-------DLKKEAE-------SKRQELIEHVAEGDEILGEMFLEEKSISED 189
R++E+ A + +++A+ ++ E +E + I + F ++ +
Sbjct: 95 RKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQP---DA 151
Query: 190 DI 191
DI
Sbjct: 152 DI 153
Score = 27.8 bits (61), Expect = 8.2
Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 143 DNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRR 197
D L +E P ++K E +R+ L E D M E + ++ D+++ +R
Sbjct: 78 DRLT-QE-PESIRKWREEQRKRL----QELDAASKVMEQEWREKAKKDLEEWNQR 126
>3kdg_A DNA mismatch repair protein MUTL; endonuclease, DNA damage, DNA
repair, hydrolase; HET: DNA; 2.00A {Bacillus subtilis}
PDB: 3gab_A* 3kdk_A*
Length = 197
Score = 29.0 bits (66), Expect = 3.0
Identities = 22/98 (22%), Positives = 36/98 (36%), Gaps = 20/98 (20%)
Query: 140 PLGDN-LRIEEIPADLKK-EAESKRQELIEHVAEGDEILGEMFLEEKSISEDDI--KKAI 195
G N + PA K E +E+I+ V + I + EE +I + K +I
Sbjct: 91 SFGSNSYIVRCHPAWFPKGEEAELIEEIIQQVLDSKNIDIKKLREEAAIM---MSCKGSI 147
Query: 196 RRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPG 233
+ L+N ++ LLD L +P
Sbjct: 148 KA------------NRHLRNDEIKALLDD-LRSTSDPF 172
>2lgw_A DNAJ homolog subfamily B member 2; J domain, HSJ1A, CO-chaperon,
chaperone; NMR {Homo sapiens}
Length = 99
Score = 27.7 bits (62), Expect = 3.3
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
EIL +S S DDIKKA RR ++ P
Sbjct: 6 EILDV----PRSASADDIKKAYRR--KALQWHP 32
>2yua_A Williams-beuren syndrome chromosome region 18 protein; J domain,
all helix protein, chaperone, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 99
Score = 27.8 bits (62), Expect = 3.4
Identities = 7/33 (21%), Positives = 13/33 (39%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
++LG + ++ IK A R + P
Sbjct: 21 DLLGV----PSTATQAQIKAAYYR--QCFLYHP 47
>1bq0_A DNAJ, HSP40; chaperone, heat shock, protein folding, DNAK; NMR
{Escherichia coli} SCOP: a.2.3.1 PDB: 1xbl_A 1bqz_A
Length = 103
Score = 28.0 bits (63), Expect = 3.5
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
EILG K+ E +I+KA +R L K+ P
Sbjct: 7 EILGV----SKTAEEREIRKAYKR--LAMKYHP 33
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 29.3 bits (65), Expect = 3.7
Identities = 16/87 (18%), Positives = 26/87 (29%), Gaps = 10/87 (11%)
Query: 24 KDHNINIIDTPG------HVDFTVEVERALRVLDGAILV----LCAVGGVQSQTLTVNRQ 73
K+++ +IDTPG +F V + L + L
Sbjct: 107 KENDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLI 166
Query: 74 MKRYDVPCIAFINKLDRLGADPYRVIN 100
R I +NK+D L +
Sbjct: 167 DLRLGATTIPALNKVDLLSEEEKERHR 193
>2ys8_A RAB-related GTP-binding protein RABJ; DNAJ domain, RAS-associated
protein RAP1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 90
Score = 27.4 bits (61), Expect = 3.9
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
++LG + S D++ KA R+ L P
Sbjct: 31 DMLGV----KPGASRDEVNKAYRK--LAVLLHP 57
>2ctq_A DNAJ homolog subfamily C member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 112
Score = 27.8 bits (62), Expect = 4.0
Identities = 5/33 (15%), Positives = 11/33 (33%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+LG ++ S + I + + P
Sbjct: 24 TLLGC----DELSSVEQILAEFKV--RALECHP 50
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.5 bits (66), Expect = 4.2
Identities = 16/80 (20%), Positives = 30/80 (37%), Gaps = 5/80 (6%)
Query: 153 DLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRSTLTRKFT-----PV 207
+LK+ R+EL+E + E LE K ++ + A + + + P
Sbjct: 736 ELKEFTAKLRKELVETSEVRKAVSIETALEHKVVNGNSADAAYAQVEIQPRANIQLDFPE 795
Query: 208 LVGTALKNKGVQTLLDAVLD 227
L + L+ +LD
Sbjct: 796 LKPYKQVKQIAPAELEGLLD 815
>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP-
binding, hydrolase, magnesium, metal-binding,
nucleotide- binding, potassium; HET: GDP FON; 2.95A
{Chlorobium tepidum} PDB: 3gei_A*
Length = 476
Score = 29.0 bits (66), Expect = 5.6
Identities = 13/78 (16%), Positives = 25/78 (32%), Gaps = 10/78 (12%)
Query: 28 INIIDTPG--HVDFTVE---VERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY----- 77
+ DT G +E + R+ + A L+L + + +++
Sbjct: 283 FRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP 342
Query: 78 DVPCIAFINKLDRLGADP 95
+ NKLDR
Sbjct: 343 AAKFLTVANKLDRAANAD 360
>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 = 28.6 bits (65), Expect = 5.9
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 212 ALKNKGVQTLLDAVLDYLP 230
A V T+ V +LP
Sbjct: 156 AETGLNVDTIAAIVRKHLP 174
>2qsa_A DNAJ homolog DNJ-2; J-domain, HSP40, APC90001.8, structural
genomics, PSI-2, Pro structure initiative; 1.68A
{Caenorhabditis elegans}
Length = 109
Score = 27.4 bits (61), Expect = 6.1
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
++L + + + + KA R L RK P
Sbjct: 19 DVLE---VNREEFDKQKLAKAYRA--LARKHHP 46
>1sql_A Dihydroneopterin aldolase; tetrahydrofolate biosynthesis, aldolase
classes, retroaldol reaction, purin binding, schiff
base, lyase; HET: GUN; 2.20A {Arabidopsis thaliana}
SCOP: d.96.1.3
Length = 146
Score = 27.7 bits (62), Expect = 6.4
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 149 EIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIK 192
+I + K+ E + L+E VAE I + + I+ +K
Sbjct: 75 DIFSLAKEIVEGSPRNLLETVAE--LIASKTLEKFHQINAVRVK 116
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus
stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E*
1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A
Length = 419
Score = 28.7 bits (65), Expect = 6.4
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 19/57 (33%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYG 458
E R+E ++F E ++Q +DF L++ Q GGS Q+G
Sbjct: 152 ESVQSRIETG-----------ISFTEFSYMMLQAYDFLRLYETEGCRLQIGGSDQWG 197
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design,
ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP:
c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A*
Length = 420
Score = 28.7 bits (65), Expect = 6.7
Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 19/57 (33%)
Query: 410 EIYAQRMEREYNCPVVLGKPKVAFKE---TLVQPFDFDYLHKK-----QSGGSGQYG 458
+ R+E +++ E T++Q DF +L+++ Q GGS Q+G
Sbjct: 153 DSIQSRLEHG-----------ISYTEFTYTILQAIDFGHLNRELNCKIQVGGSDQWG 198
>1dhn_A DHNA, 7,8-dihydroneopterin aldolase; pterin binding, folate
biosynthesis, antibiotic target, beta; 1.65A
{Staphylococcus aureus} SCOP: d.96.1.3 PDB: 1rri_A*
1rrw_A* 1rry_A* 1rs2_A* 1rs4_A* 1rsd_A* 1rsi_A* 1u68_A*
2dhn_A* 2nm2_A* 2nm3_A*
Length = 121
Score = 27.2 bits (61), Expect = 7.2
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 149 EIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISE 188
E+ ++K E K L+EH+AE I + + + E
Sbjct: 56 EVFEEVKSIMEGKAVNLLEHLAE--RIANRINSQYNRVME 93
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 28.2 bits (64), Expect = 7.4
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 212 ALKNKGVQTLLDAVLDYLP 230
AL + V L +L +P
Sbjct: 154 ALDERQVAELKADLLALMP 172
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 28.4 bits (64), Expect = 7.7
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
ILG + + IK A RR L RK+ P
Sbjct: 32 AILGV----QPTDDLKTIKTAYRR--LARKYHP 58
>1l6w_A Fructose-6-phosphate aldolase 1; alpha-beta barrel, domain
swapping, lyase; 1.93A {Escherichia coli} SCOP: c.1.10.1
Length = 220
Score = 28.0 bits (63), Expect = 8.1
Identities = 12/61 (19%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 45 RALRVL-DGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMR 103
A+++L I L +Q L Y P ++N++D G + + +
Sbjct: 94 AAIKMLKAEGIPTLGTAVYGAAQGLLSALAGAEYVAP---YVNRIDAQGGSGIQTVTDLH 150
Query: 104 Q 104
Q
Sbjct: 151 Q 151
>3apq_A DNAJ homolog subfamily C member 10; thioredoxin fold, DNAJ domain,
endoplasmic reticulum, oxidor; 1.84A {Mus musculus}
Length = 210
Score = 27.9 bits (62), Expect = 8.1
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
+LG K+ S +I++A ++ L K P
Sbjct: 6 SLLGV----SKTASSREIRQAFKK--LALKLHP 32
>2o37_A Protein SIS1; HSP40, J-domain, cochaperone, APC90055.5, structural
genomics, PSI-2, protein structure initiative; 1.25A
{Saccharomyces cerevisiae}
Length = 92
Score = 26.5 bits (59), Expect = 8.9
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 174 EILGEMFLEEKSISEDDIKKAIRRSTLTRKFTP 206
++LG S +E ++KK R+ K+ P
Sbjct: 12 DLLGV----SPSANEQELKKGYRK--AALKYHP 38
>1nbu_A DHNA, probable dihydroneopterin aldolase; anti-parallel,
beta-sheet, two alpha helices, structural genomics, PSI;
HET: PH2; 1.60A {Mycobacterium tuberculosis} SCOP:
d.96.1.3 PDB: 1nbu_B* 1nbu_C*
Length = 119
Score = 26.8 bits (60), Expect = 9.3
Identities = 6/41 (14%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 148 EEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISE 188
+ + + ++LIE V EI + ++++ +
Sbjct: 55 VRLASRAAEIVAGPPRKLIETVGA--EIA-DHVMDDQRVHA 92
>1z9w_A DHNA, dihydroneopterin aldolase; FOLB, structural genomics, TB ST
genomics; 2.50A {Mycobacterium tuberculosis H37RV} SCOP:
d.96.1.3
Length = 133
Score = 27.2 bits (61), Expect = 9.6
Identities = 6/41 (14%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 148 EEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISE 188
+ + + ++LIE V EI + ++++ +
Sbjct: 55 VRLASRAAEIVAGPPRKLIETVGA--EIA-DHVMDDQRVHA 92
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
0.319 0.137 0.393
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,559,446
Number of extensions: 609925
Number of successful extensions: 1749
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1664
Number of HSP's successfully gapped: 128
Length of query: 610
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 511
Effective length of database: 3,937,614
Effective search space: 2012120754
Effective search space used: 2012120754
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.0 bits)