RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16810
(755 letters)
>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 = 952 bits (2462), Expect = 0.0
Identities = 482/835 (57%), Positives = 563/835 (67%), Gaps = 84/835 (10%)
Query: 1 MMDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIK 60
+MDK N+RNMSVIAHVDHGKSTLTDSLV +AGII+ AKAGE RFTDTRKDEQER ITIK
Sbjct: 12 LMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIK 71
Query: 61 STAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALV 120
STAIS+Y E+ D+D+ I + FLINLIDSPGHVDFSSEVTAALRVTDGALV
Sbjct: 72 STAISLYSEMSDEDVKEIKQK----TDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALV 127
Query: 121 ----------------------------VVDCVSGVCVQTETVLRQAIAERIKPVLFMNK 152
V++ V ++ + + V +N
Sbjct: 128 VVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNV 187
Query: 153 M-----DRALLELQLDAED----LYQTFQRIVENVNVIIATYSDDSGPMGEV-------- 195
+ D L ++Q+ + Y+ G
Sbjct: 188 IVSTYADEVLGDVQVYPARGTVAFGSGLHGWAFTIRQFATRYAKKFGVDKAKMMDRLWGD 247
Query: 196 -----------------------------------RVFDSIMNYKKEEAESLLSKLGIEL 220
R+F +IMN+KK+E LL KL I L
Sbjct: 248 SFFNPKTKKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEIPVLLEKLEIVL 307
Query: 221 KPEDKEKDGKALLKVVMRTWLPAGEALLQMIAIHLPSPVVAQKYRMEMLYEGPHDDEAAI 280
K ++K+ +GKALLKVVMR +LPA +ALL+MI +HLPSPV AQ YR E LYEGP DD I
Sbjct: 308 KGDEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCI 367
Query: 281 GIKNCDPNAPLMMYVSKMVPTSDKGRFYAFGRVFSGKVATGQKARIMGPNYIPGKKEDLY 340
IKNCDP A LM+YVSKMVPTSDKGRFYAFGRVF+G V +GQK RI GPNY+PGKK+DL+
Sbjct: 368 AIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVPGKKDDLF 427
Query: 341 EKAIQRTILMMGRYVEAIEDVPSGNICGLVGVDQFLVKTGTITTFKDAHNLRVMKFSVSP 400
KAIQR +LMMGR+VE I+D P+GNI GLVG+DQFL+KTGT+TT + AHN++VMKFSVSP
Sbjct: 428 IKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGTLTTSETAHNMKVMKFSVSP 487
Query: 401 VVRVAVEPKNPADLPKLVEGLKRLSKSDPMVQCIIEESGEHIVAGAGELHLEICLKDLEE 460
VV+VAVE KN DLPKLVEGLKRLSKSDP V + ESGEHIVAG GELHLEICL+DLE
Sbjct: 488 VVQVAVEVKNANDLPKLVEGLKRLSKSDPCVLTYMSESGEHIVAGTGELHLEICLQDLEH 547
Query: 461 DHACIPIKKSDPVVSYRETVSEESDQVCLSKSPNKHNRLFMKAAPLPDGLPEDIDKGEVN 520
DHA +P+K S PVV+YRETV ES Q LSKSPNKHNR+++KA P+ + + I+ G +N
Sbjct: 548 DHAGVPLKISPPVVAYRETVESESSQTALSKSPNKHNRIYLKAEPIDEEVSLAIENGIIN 607
Query: 521 PRDDFKIRGRYLADKYEFDVTEARKIWSFGPDGTGPNLLIDCTKGVQYLNEIKDSVVAGF 580
PRDDFK R R +AD Y +DVT+ARKIW FGPDG GPNL+ID TK VQYL+EIKDSVVA F
Sbjct: 608 PRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQYLHEIKDSVVAAF 667
Query: 581 QWAAKEGVLSEENLRGVRFNIHDVTLHADAIHRGGGQIIPTTRRVLYASLLTACPRLMEP 640
QWA KEG + E +R VR NI DVTLHADAIHRGGGQIIPT RR YA L A P++ EP
Sbjct: 668 QWATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQIIPTMRRATYAGFLLADPKIQEP 727
Query: 641 VYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFGFTADLRSN 700
V+L EIQCPE AVGGIY VLN++RG V E Q GTP+F VKAYLPVNESFGFT +LR
Sbjct: 728 VFLVEIQCPEQAVGGIYSVLNKKRGQVVSEEQRPGTPLFTVKAYLPVNESFGFTGELRQA 787
Query: 701 TGGQAFPQCVFDHWQVLPGDPTDPGSKPYNVVQETRKRKGLKEGLPDLQSYLDKL 755
TGGQAFPQ VFDHW L DP DP SK +V RKR G+KE +P Q Y DKL
Sbjct: 788 TGGQAFPQMVFDHWSTLGSDPLDPTSKAGEIVLAARKRHGMKEEVPGWQEYYDKL 842
>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 = 209 bits (534), Expect = 3e-58
Identities = 206/789 (26%), Positives = 314/789 (39%), Gaps = 181/789 (22%)
Query: 6 KNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETR----FTDTRKDEQERCITIKS 61
RN+ + AH+D GK+T T+ ++ G+ K GE D + EQER ITI S
Sbjct: 8 ARYRNIGISAHIDAGKTTTTERILFYTGVNH--KIGEVHDGAATMDWMEQEQERGITITS 65
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVV 121
A + ++ AK + IN+ID+PGHVDF+ EV ++RV DGA++V
Sbjct: 66 AATTAFWS-------------GMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMV 112
Query: 122 VDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRA--------------------LLELQ 161
V GV Q+ETV RQA ++ + F+NKMDR L+L
Sbjct: 113 YCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRMGANFLKVVNQIKTRLGANPVPLQLA 172
Query: 162 LDAEDLYQTFQRIVENVNVIIATYSDDSGPMGEVRVFDSIMNYKKEEAESLLSKLGIELK 221
+ AE+ F +V+ V + ++D G ++ I E A L IE
Sbjct: 173 IGAEE---HFTGVVDLVKMKAINWNDAD--QGVTFEYEDIPADMVELANEWHQNL-IESA 226
Query: 222 PEDKEK------DGKAL----LKVVMRTWLPAGE----------------ALLQMIAIHL 255
E E+ G+ L +K +R + E A+L + +L
Sbjct: 227 AEASEELMEKYLGGEELTEAEIKGALRQRVLNNEIILVTCGSAFKNKGVQAMLDAVIDYL 286
Query: 256 PSPV-VAQKYRMEMLYEG--PHDDEAAIGIKNCDPNAPLMMYVSKMVPTSDK--GRFYAF 310
PSPV V G + + P K+ +D G F
Sbjct: 287 PSPVDVPA-------INGILDDGKDTPAERH-ASDDEPFSALAFKIA--TDPFVGNL-TF 335
Query: 311 GRVFSGKVATGQKARIMGPNYIPGKKEDLYEKAIQRTILMMGRYVEAIEDVPSGNICGLV 370
RV+SG V +G N + +E R + M E I++V +G+I +
Sbjct: 336 FRVYSGVVNSGDTVL----NSVKAARE-----RFGRIVQMHANKREEIKEVRAGDIAAAI 386
Query: 371 GVDQFLVKTG-TITTFKDAHNLRVMKFSVSPVVRVAVEPKNPADLPKLVEGLKRLSKSDP 429
G+ V TG T+ L M+F PV+ +AVEPK AD K+ L RL+K DP
Sbjct: 387 GLKD--VTTGDTLCDPDAPIILERMEFP-EPVISIAVEPKTKADQEKMGLALGRLAKEDP 443
Query: 430 MVQCII-EESGEHIVAGAGELHLEICLKDLEEDHACIPIKKSD-----PVVSYRETVSEE 483
+ EES + I+AG GELHL+I + ++ + + P V+YRET+ ++
Sbjct: 444 SFRVWTDEESNQTIIAGMGELHLDIIVDRMKREF------NVEANVGKPQVAYRETIRQK 497
Query: 484 SDQVCLSKSPNKHNRLFMKAAPLPDGLPEDIDKGEVNPRDDFKIRGRYLADKYEFDVTEA 543
++ KH + G G RG+Y
Sbjct: 498 -----VTDVEGKHAK--------QSG-------G----------RGQY-----------G 516
Query: 544 RKIWSFGPDGTGPNLLIDCTKGVQYLNEIKDSVV---------AGFQWAAKEGVLSEENL 594
+ P G N KG +++N+IK V+ G Q K G L+ +
Sbjct: 517 HVVIDMYPLEPGSN-----PKGYEFINDIKGGVIPGEYIPAVDKGIQEQLKAGPLAGYPV 571
Query: 595 RGVRFNI-----HDVTLHADAIHRGGGQIIPTTRRVLYASLLTACPRLMEPVYLCEIQCP 649
+ + HDV A A P L+EP+ E++ P
Sbjct: 572 VDMGIRLHFGSYHDVDSSELAFKLAA-------SIAFKEGFKKAKPVLLEPIMKVEVETP 624
Query: 650 EVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFGFTADLRSNTGGQAFPQC 709
E G + G L+RRRG + + + T + + A +P++E FG+ LRS T G+A
Sbjct: 625 EENTGDVIGDLSRRRGML-KGQESEVTGV-KIHAEVPLSEMFGYATQLRSLTKGRASYTM 682
Query: 710 VFDHWQVLP 718
F + P
Sbjct: 683 EFLKYDEAP 691
>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 = 197 bits (504), Expect = 3e-54
Identities = 109/537 (20%), Positives = 198/537 (36%), Gaps = 133/537 (24%)
Query: 6 KNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGE----TRFTDTRKDEQERCITIKS 61
IR ++++ H GK+TLT++L+ K G + G T TD + + T+++
Sbjct: 7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKE--RRGRVEEGTTTTDYTPEAKLHRTTVRT 64
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVV 121
+ F +G + L+D+PG+ DF E+ AL D ALV
Sbjct: 65 GVAPLLF--------------------RGHRVFLLDAPGYGDFVGEIRGALEAADAALVA 104
Query: 122 VDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDR----------------ALLELQL--D 163
V +GV V TE A + ++ + K+D+ +L + L
Sbjct: 105 VSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKGGDYYALLEDLRSTLGPILPIDLPLY 164
Query: 164 AEDLYQTFQRIVENVNVIIATYSDDSGPMGEVR--VFDSIMNYKKE--EA-----ESLLS 214
+ +++ + Y + EV + + +++E EA E LL
Sbjct: 165 EGG---KWVGLIDVFHGKAYRYENGEEREAEVPPEERERVQRFRQEVLEAIVETDEGLLE 221
Query: 215 KL--GIELKPEDKEKDGKALLKVVMRTWLPAGE----------------ALLQMIAIHLP 256
K G E+ E L+ + G LL++I LP
Sbjct: 222 KYLEGEEVTGEA--------LEKAFHEAVRRGLLYPVALASGEREIGVLPLLELILEALP 273
Query: 257 SPVVAQKYRMEMLYEGPHDDE--AAIGIK-NCDPNAPLMMYVSKMVPTSDKGRFYAFGRV 313
SP D A K DP ++ ++ A+ R+
Sbjct: 274 SPT------------ERFGDGPPLAKVFKVQVDP------FMGQV----------AYLRL 305
Query: 314 FSGKVATGQKARIMGPNYIPGKKEDLYEKAIQRTILMMGRYVEAIEDVPSGNICGLVGVD 373
+ G++ G + + + MG+ + +E+ +G + G+ +
Sbjct: 306 YRGRLKPGDSL------QSEAGQV-----RLPHLYVPMGKDLLEVEEAEAGFVLGVPKAE 354
Query: 374 QFLVKTG-TITTFKDAHNL--RVMKFSVSPVVRVAVEPKNPADLPKLVEGLKRLSKSDPM 430
+ G + + + + P V VA+ PK D +L E L++L + DP
Sbjct: 355 G--LHRGMVLWQGEKPESEEVPFARLPD-PNVPVALHPKGRTDEARLGEALRKLLEEDPS 411
Query: 431 VQCII-EESGEHIVAGAGELHLEICLKDLEEDHACIPIKKSDPVVSYRETVSEESDQ 486
++ EE+GE ++ G GELHL + L++ + P V YRET+ + ++
Sbjct: 412 LKLERQEETGELLLWGHGELHLATAKERLQDYGVEVEFSV--PKVPYRETIKKVAEG 466
Score = 67.9 bits (167), Expect = 7e-12
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 2/86 (2%)
Query: 633 ACPRLMEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFG 692
A P L+EP+Y ++ P+ VG + L RRG + M+ G + VV A +P+ E
Sbjct: 567 AHPVLLEPIYRLKVLAPQERVGDVLSDLQARRGRI-LGMEQEGA-LSVVHAEVPLAEVLE 624
Query: 693 FTADLRSNTGGQAFPQCVFDHWQVLP 718
+ L TGG F H+ +P
Sbjct: 625 YYKALPGLTGGAGAYTLEFSHYAEVP 650
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 176 bits (449), Expect = 7e-47
Identities = 153/543 (28%), Positives = 240/543 (44%), Gaps = 120/543 (22%)
Query: 6 KNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETR----FTDTRKDEQERCITIKS 61
+ RN+ ++AH+D GK+T T+ ++ G I K GET D + EQ+R ITI S
Sbjct: 8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIH--KIGETHEGASQMDWMEQEQDRGITITS 65
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVV 121
A + + +G +N+ID+PGHVDF+ EV +LRV DGA+ V
Sbjct: 66 AATTAAW--------------------EGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTV 105
Query: 122 VDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRA--------------------LLELQ 161
+D SGV QTETV RQA + ++F+NKMD+ ++L
Sbjct: 106 LDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYSVSTLHDRLQANAAPIQLP 165
Query: 162 LDAEDLYQTFQRIVENVNVIIATYSDDSGPMGEVRVFDSIMNYKKEEAESLLSKLGIELK 221
+ AED F+ I++ V + Y++D G E I + AE + L IE
Sbjct: 166 IGAED---EFEAIIDLVEMKCFKYTNDLGTEIEEI---EIPEDHLDRAEEARASL-IEAV 218
Query: 222 PEDKEK------DGKAL----LKVVMRTWLPAGE----------------ALLQMIAIHL 255
E ++ + + LK +R E +L + +L
Sbjct: 219 AETSDELMEKYLGDEEISVSELKEAIRQATTNVEFYPVLCGTAFKNKGVQLMLDAVIDYL 278
Query: 256 PSPV-VAQKYRMEMLYEG--PHDDEAAIGIKNCDPNAPLMMYVSKMVPTSDK--GRFYAF 310
PSP+ V G + E + K D +A K++ +D G+ F
Sbjct: 279 PSPLDVKP-------IIGHRASNPEEEVIAK-ADDSAEFAALAFKVM--TDPYVGKL-TF 327
Query: 311 GRVFSGKVATGQKARIMGPNYIPGKKEDLYEKAIQRTILMMGRYVEAIEDVPSGNICGLV 370
RV+SG + +G + N GK+E + R + M + I+ V SG+I V
Sbjct: 328 FRVYSGTMTSGSYVK----NSTKGKRE-----RVGRLLQMHANSRQEIDTVYSGDIAAAV 378
Query: 371 GVDQFLVKTG-TITTFKDAHNLRVMKFSVSPVVRVAVEPKNPADLPKLVEGLKRLSKSDP 429
G+ TG T+ K+ L M+F PV+ ++VEPK+ AD K+ + L +L + DP
Sbjct: 379 GLKD--TGTGDTLCGEKNDIILESMEFP-EPVIHLSVEPKSKADQDKMTQALVKLQEEDP 435
Query: 430 MVQCII-EESGEHIVAGAGELHLEICLKDLEEDHACIPIKKSD-----PVVSYRETVSEE 483
EE+G+ I+ G GELHL+I + ++++ + P+VSYRET
Sbjct: 436 TFHAHTDEETGQVIIGGMGELHLDILVDRMKKEF------NVECNVGAPMVSYRETFKSS 489
Query: 484 SDQ 486
+
Sbjct: 490 AQV 492
Score = 62.1 bits (152), Expect = 4e-10
Identities = 33/86 (38%), Positives = 48/86 (55%), Gaps = 2/86 (2%)
Query: 633 ACPRLMEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFG 692
P ++EP+ I+ PE +G I G + RRG V + M+ G VV AY+P++E FG
Sbjct: 596 CDPVILEPMMKVTIEMPEEYMGDIMGDVTSRRGRV-DGMEPRGNAQ-VVNAYVPLSEMFG 653
Query: 693 FTADLRSNTGGQAFPQCVFDHWQVLP 718
+ LRSNT G+ FDH+ +P
Sbjct: 654 YATSLRSNTQGRGTYTMYFDHYAEVP 679
>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 = 174 bits (445), Expect = 2e-46
Identities = 153/544 (28%), Positives = 240/544 (44%), Gaps = 123/544 (22%)
Query: 6 KNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETR----FTDTRKDEQERCITIKS 61
K +RN+ + AH+D GK+T T+ ++ G I K GE D + E+ER ITI +
Sbjct: 10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIH--KIGEVHEGAATMDFMEQERERGITITA 67
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVV 121
+ ++ K IN+ID+PGHVDF+ EV ++RV DGA+VV
Sbjct: 68 AVTTCFW--------------------KDHRINIIDTPGHVDFTIEVERSMRVLDGAIVV 107
Query: 122 VDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRA--------------------LLELQ 161
D GV Q+ETV RQA ++ + F NKMD+ +++L
Sbjct: 108 FDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQLP 167
Query: 162 LDAEDLYQTFQRIVENVNVIIATYSDDSGPMGEVRVFDSIMNYKKEEAESLLSKLGIELK 221
+ ED TF I++ + + TY +D G I ++A KL +E+
Sbjct: 168 IGRED---TFSGIIDVLRMKAYTYGNDLGTDIREI---PIPEEYLDQAREYHEKL-VEVA 220
Query: 222 PEDKEK------DGKAL----LKVVMRTWLPAGE----------------ALLQMIAIHL 255
+ E +G+ L +R + LL + +L
Sbjct: 221 ADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYL 280
Query: 256 PSPV-VAQKYRMEMLYEGPHDDEAAIGIKNCDPNAPLMMYVSKMVPTSDK--GRFYAFGR 312
PSP+ + +G + + I DPN PL K++ +D GR F R
Sbjct: 281 PSPLDIPP-------IKGTTPEGEVVEIH-PDPNGPLAALAFKIM--ADPYVGRL-TFIR 329
Query: 313 VFSGKVATGQKARIMGPNYIPGKKEDLYEKAIQRTILMMGRYVEAIEDVPSGNICGLVGV 372
V+SG + +G N G+KE + R + M + E +E++ +G++ +VG
Sbjct: 330 VYSGTLTSGSYVY----NTTKGRKE-----RVARLLRMHANHREEVEELKAGDLGAVVG- 379
Query: 373 DQFLVKTGTITTFKDAHNLRV----MKFSVSPVVRVAVEPKNPADLPKLVEGLKRLSKSD 428
L +T T T RV ++ PV+ VA+EPK AD KL + L RL++ D
Sbjct: 380 ---LKETITGDTLVGEDAPRVILESIEVP-EPVIDVAIEPKTKADQEKLSQALARLAEED 435
Query: 429 PMVQCII-EESGEHIVAGAGELHLEICLKDLEEDHACIPIKKSD-----PVVSYRETVSE 482
P + E+G+ I++G GELHLEI + L+ + K D P V+YRET+++
Sbjct: 436 PTFRVSTHPETGQTIISGMGELHLEIIVDRLKREF------KVDANVGKPQVAYRETITK 489
Query: 483 ESDQ 486
D
Sbjct: 490 PVDV 493
Score = 66.7 bits (164), Expect = 2e-11
Identities = 32/86 (37%), Positives = 49/86 (56%), Gaps = 2/86 (2%)
Query: 633 ACPRLMEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFG 692
P ++EP+ E+ PE +G + G LN RRG + M+ G V++A++P+ E FG
Sbjct: 597 GDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQI-LGMEPRGNAQ-VIRAFVPLAEMFG 654
Query: 693 FTADLRSNTGGQAFPQCVFDHWQVLP 718
+ DLRS T G+ FDH+Q +P
Sbjct: 655 YATDLRSKTQGRGSFVMFFDHYQEVP 680
>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 = 120 bits (304), Expect = 1e-28
Identities = 60/155 (38%), Positives = 89/155 (57%), Gaps = 21/155 (13%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKS 61
M++K N+RN +IAHVDHGKSTL D L+ G I+ + + DT E+ER IT+K
Sbjct: 1 MEQK-NVRNFCIIAHVDHGKSTLADRLLEYTGAIS-EREKREQLLDTLDVERERGITVKM 58
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVV 121
A+ M++ AK+ + ++LID+PGHVDFS EV+ AL +GAL++
Sbjct: 59 QAVRMFY---------------KAKDGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLL 103
Query: 122 VDCVSGVCVQTETVLRQAIAE--RIKPVLFMNKMD 154
+D G+ QT +A+ + I PV+ NK+D
Sbjct: 104 IDASQGIEAQTVANFWKAVEQDLVIIPVI--NKID 136
Score = 30.5 bits (70), Expect = 2.7
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 639 EPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNE-SFGFTADL 697
EP L I P+ VG I + +RG + + M ++ +P++E F +
Sbjct: 405 EPFVLVTIITPKEYVGPIIQLCQEKRG-IQKNMTYLDPNTVYLEYEMPLSEIIVDFHDKI 463
Query: 698 RSNTGGQA 705
+S + G A
Sbjct: 464 KSISRGFA 471
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 119 bits (302), Expect = 2e-28
Identities = 58/151 (38%), Positives = 87/151 (57%), Gaps = 20/151 (13%)
Query: 6 KNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAIS 65
KNIRN S+IAH+DHGKSTL+D ++ G ++ + E + D+ E+ER ITIK+ +++
Sbjct: 2 KNIRNFSIIAHIDHGKSTLSDRIIQICGGLS-DREMEAQVLDSMDLERERGITIKAQSVT 60
Query: 66 MYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCV 125
+ + A + + + +N ID+PGHVDFS EV+ +L +GAL+VVD
Sbjct: 61 LDY---------------KASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAG 105
Query: 126 SGVCVQTETVLRQAIAE--RIKPVLFMNKMD 154
GV QT A+ + PVL NK+D
Sbjct: 106 QGVEAQTLANCYTAMEMDLEVVPVL--NKID 134
>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 = 87.1 bits (216), Expect = 5e-18
Identities = 48/157 (30%), Positives = 75/157 (47%), Gaps = 34/157 (21%)
Query: 9 RNMSVIAHVDHGKSTLTDSL------VSKAGIIAGAKAGETRFTDTRKDEQERCITIKST 62
R ++I+H D GK+T+T+ + + AG + G + + +D + E++R I+I ++
Sbjct: 14 RTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTS 73
Query: 63 AISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVV 122
M F D L+NL+D+PGH DFS + L D L+V+
Sbjct: 74 V--MQFPYHD------------------CLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVI 113
Query: 123 DCVSGVCVQTE---TVLRQAIAERIKPVL-FMNKMDR 155
D GV +T V R R P+L FMNK+DR
Sbjct: 114 DAAKGVEDRTRKLMEVTRL----RDTPILTFMNKLDR 146
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 86.7 bits (215), Expect = 7e-18
Identities = 52/157 (33%), Positives = 77/157 (49%), Gaps = 34/157 (21%)
Query: 9 RNMSVIAHVDHGKSTLTDSLVSKAGII--AGA-KA-GETRFT--DTRKDEQERCITIKST 62
R ++I+H D GK+TLT+ L+ G I AG K+ R D + E++R I++ ++
Sbjct: 14 RTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTS 73
Query: 63 AISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVV 122
M F D +LINL+D+PGH DF+ + L D AL+V+
Sbjct: 74 V--MQFPYKD------------------YLINLLDTPGHADFTEDTYRTLTAVDSALMVI 113
Query: 123 DCVSGVCVQTE---TVLRQAIAERIKPVL-FMNKMDR 155
D GV +T V R R P++ F+NKMDR
Sbjct: 114 DAAKGVEPRTIKLMEVCRL----RHTPIMTFINKMDR 146
>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 = 70.8 bits (174), Expect = 6e-13
Identities = 51/180 (28%), Positives = 73/180 (40%), Gaps = 51/180 (28%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIA----------GAKAGETRFT----- 46
M K+K+ N+ VI HVD GKST T L+ K G I A+ G+ F
Sbjct: 1 MGKEKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVL 60
Query: 47 DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFS 105
D K E+ER ITI I++ FE T K + + +ID+PGH DF
Sbjct: 61 DKLKAERERGITID---IALWKFE--------------TPK----YQVTVIDAPGHRDFI 99
Query: 106 SEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKPVL-----------FMNKMD 154
+ D A++++ G E + + R +L +NKMD
Sbjct: 100 KNMITGTSQADCAILIIAGGVGE---FEAGISKDGQTREHALLAFTLGVRQLIVAVNKMD 156
>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 = 65.3 bits (158), Expect = 5e-11
Identities = 81/635 (12%), Positives = 158/635 (24%), Gaps = 215/635 (33%)
Query: 153 MDRALLELQLDAEDLYQTF-QRIVENVNVIIATYSDDSGPMGEV---RVFDSIMNYKKEE 208
MD E Q +D+ F V+N + D + D I+ K
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDC---KDVQDM--PKSILSKEEIDHIIMSKDAV 61
Query: 209 AES--LLSKLGIELKPEDKEKDG-KALLKVVMRT---WLPAGEALLQMIAIHLPSPVVAQ 262
+ + L L K+++ + ++ V+R +L M I Q
Sbjct: 62 SGTLRLFWTL------LSKQEEMVQKFVEEVLRINYKFL--------MSPIKTEQ---RQ 104
Query: 263 KYRMEMLYEGPHDD----------------EAAIGIKNC----DPNAPLMMY----VSKM 298
M +Y D + + ++ P +++ K
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164
Query: 299 VPTSDKGRFYAFGRVFSGKV---ATGQKAR-------------IMGPNY---------IP 333
D Y K+ + PN+ I
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 334 GKKEDLYEKAIQRTILMMGRYVEA---IEDVPSGNICGLVGVDQFLVKTGTITTFKDAHN 390
+ + + R +L Y + +V + + F + + T +
Sbjct: 225 LRIHSIQAE--LRRLLKSKPYENCLLVLLNVQNAKA-----WNAFNLSCKILLTTRFKQV 277
Query: 391 LRVMKFSVSPVVRVAVEPK-----------------NPADLPKLVEGLKRLSKSDPMVQC 433
+ + + + + P DLP+ V ++P
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV------LTTNPRRLS 331
Query: 434 IIEESGEHIVA--------GAGELH--LEICLKDLE--------------EDHACIPIKK 469
II ES +A +L +E L LE A IP
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI- 390
Query: 470 SDPVVS--YRETVSEESDQV---CLSKS---------------------------PNKHN 497
++S + + + + V S H
Sbjct: 391 ---LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 498 RL-----FMKAAPLPDGLPEDIDK----------GEVNPRDDFKI-RGRYLADKYEFDVT 541
+ K D +P +D+ + + + R +L D + F
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL-D-FRF--- 502
Query: 542 EARKIWSFGPDGTGP----NLLIDCTKGVQYLNEIKDSVVAGFQWAAKEGVLS--EENLR 595
+KI N L Y I D+ E +++ + L
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKF---YKPYICDND------PKYERLVNAILDFLP 553
Query: 596 GVRFNIHDVTLHADAIHRG----GGQIIPTTRRVL 626
+ N+ + + D + I + +
Sbjct: 554 KIEENLI-CSKYTDLLRIALMAEDEAIFEEAHKQV 587
Score = 61.4 bits (148), Expect = 1e-09
Identities = 60/471 (12%), Positives = 124/471 (26%), Gaps = 136/471 (28%)
Query: 20 GKSTLTDSLVSKAGIIAG-------AKAGETRFTDTRKDEQER-CITIKSTAISMYFELD 71
GK+ + + + +T + ++ I +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP----NWTSRS 217
Query: 72 DKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGV--- 128
D +N + + L L+ S + + L+V+ V
Sbjct: 218 DHS----SNIKLRIHSIQAELRRLLKSKPYEN--------------CLLVLLNVQNAKAW 259
Query: 129 ------C---VQT--ETVLRQAIAERIKPVLFMNKMDRALLE----------LQLDAEDL 167
C + T + V A + ++ L L +DL
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHI-SLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 168 -YQTFQRIVENVNVIIATYSDDSGPMGEVRVFDSIMNYKKEEAESLLS--KLGIE-LKPE 223
+ +++I + D + N+K + L + + + L+P
Sbjct: 319 PREVLTTNPRRLSIIAESIRDG---------LATWDNWKHVNCDKLTTIIESSLNVLEPA 369
Query: 224 DK----------EKDGKALLKVVMRTWLPAGEALLQMIAIHLPSPVVAQKYRMEMLYEGP 273
+ ++ W ++ + ++ L + +K E P
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429
Query: 274 H---------DDEAAI---------GIKNCDPNAPLMMYVSK---------MVPTSDKGR 306
++E A+ K D + + Y+ + + R
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER 489
Query: 307 FYAFGRVFSGKVATGQKARIMGPNY-IPGKKEDL------YEKAIQRTILMMGRYVEAIE 359
F VF QK R + G + Y+ I R V AI
Sbjct: 490 MTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL 549
Query: 360 DVPSGNICGLVGVDQFLVKTGTITTFKDAHNLRVMKFSVSPVVRVAVEPKN 410
D FL K NL K+ + ++R+A+ ++
Sbjct: 550 D--------------FLPKIEE--------NLICSKY--TDLLRIALMAED 576
Score = 54.5 bits (130), Expect = 1e-07
Identities = 89/652 (13%), Positives = 167/652 (25%), Gaps = 224/652 (34%)
Query: 18 DHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFE-LDDKDMV 76
D KS L+ + + A +G R T +QE + + E + +
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE-------MVQKFVEEVLRINYK 92
Query: 77 FI-----TNPDQTAKNEKGF------LINLID--SPGHVDFSSEV----TAALRVTDGAL 119
F+ T Q + + + L N + +V A L +
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 120 VVVDCVSG---------VCVQTETVLRQA--------IAERIKPVLFMNKMDRALLELQL 162
V++D V G VC + V + + P + + + L Q+
Sbjct: 153 VLIDGVLGSGKTWVALDVC-LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK--LLYQI 209
Query: 163 D----------------AEDLYQTFQRI---------------VENVNV---------II 182
D + +R+ V+N I+
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269
Query: 183 ATYSD-------DSGPMGEVRVFDSIMNYKKEEAESLLSKLGIELKPEDKEKDGKALLKV 235
T + + + M +E +SLL K ++ +P+D
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-LDCRPQD----------- 317
Query: 236 VMRTWLPAGEA------LLQMIAIHLPSPVVAQKYRMEMLYEGPH---------DDEAAI 280
LP E L +IA E + +G D+
Sbjct: 318 -----LPR-EVLTTNPRRLSIIA--------------ESIRDGLATWDNWKHVNCDKLTT 357
Query: 281 GIKNCDPNAPLMMYVSKMVPTSDKGRFYAFGRVFSGKVATGQKARIMGPNYIPGKKEDLY 340
I++ ++ + P + F VF +IP
Sbjct: 358 IIESS---------LNVLEPAEYRKMFDRLS-VFPPSA------------HIP------- 388
Query: 341 EKAIQRTILMMGRYVEAIEDVPSGNICGLVGVDQFLVKTGTITTFKDAHNLRVMKFSVSP 400
+ ++ + + I+ + L LV+ K + S+
Sbjct: 389 TILLS--LI----WFDVIKSDVMVVVNKL--HKYSLVE-------KQPKESTISIPSIY- 432
Query: 401 VVRVAVEPKNPADL-PKLVEGLKRLSKSDPMVQCIIEESG---EHIVAGAGELHLEICLK 456
+ + V+ +N L +V+ D HI HL+
Sbjct: 433 -LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG-----HHLKNI-- 484
Query: 457 DLEEDHACIPIKKSDPVVSYRETVSEESDQVCLSKSPNKHNRLFMKAAPLPDGLPEDIDK 516
+ E + D +R F++ D +
Sbjct: 485 EHPERMTLFRMVFLD----FR----------------------FLEQKIRHDSTAWNASG 518
Query: 517 GEVNPRDDFKIRGRYLADKYEFDVTEARKIWSFGPDGTGPNLLI-DCTKGVQ 567
+N K Y+ D I F P NL+ T ++
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP-KIEENLICSKYTDLLR 569
Score = 42.1 bits (98), Expect = 7e-04
Identities = 53/353 (15%), Positives = 106/353 (30%), Gaps = 103/353 (29%)
Query: 7 NIRNMSVIAHVDHGKSTL--------TDSLVSKAGIIAGAKAGETRFTDTRKDEQERCIT 58
N++N + L TD L + T DE +
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT---PDEVK---- 304
Query: 59 IKSTAISMYFELDDKDMVFITNPDQTAKNEKGFLINLI-----DSPGHVDFSSEVTAALR 113
+ + Y + +D+ P + +++I D D V +
Sbjct: 305 ---SLLLKYLDCRPQDL-----PRE-VLTTNPRRLSIIAESIRDGLATWDNWKHVNCD-K 354
Query: 114 VTDGALVVVDCVSGVCVQTETVLRQ-----AI------------------AERIKPVLFM 150
+T ++ ++ V R+ ++ + ++ +
Sbjct: 355 LTT---IIESSLN---VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408
Query: 151 NKM-DRALLE------------LQLD----AEDLYQTFQRIVENVNVIIATYSDDSGPMG 193
NK+ +L+E + L+ E+ Y + IV++ N+ SDD P
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 194 EVRVFDSIMNY---KKEEAE--SLLSKLGIELK-PEDK-EKDGKALLKVVMRTWLPAGEA 246
+ F S + + E E +L + ++ + E K D A W +G
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA--------WNASGSI 520
Query: 247 L--LQMIAIHLPSPVVAQKYRMEMLYEGPHDDEAAIGIKNCDPNAPLMMYVSK 297
L LQ + + Y+ + P + I + P + SK
Sbjct: 521 LNTLQQL----------KFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
Score = 37.9 bits (87), Expect = 0.015
Identities = 27/189 (14%), Positives = 62/189 (32%), Gaps = 28/189 (14%)
Query: 441 HIVAGAGELH------LEICLKDLEEDHACIPIKKS-DPVVSYRETVSEESDQVCLSKSP 493
H+ GE L + ++ C ++ ++S EE D + +SK
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS-----KEEIDHIIMSKDA 60
Query: 494 -NKHNRLFMKAAPLPDGLPEDIDKGEVNPRDDF---KIRGRYL--ADKYEFDVTEARKIW 547
+ RLF + + + + + F I+ + + + +++
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 548 S----FGPDG-TGPNLLIDCTKGVQYLNEIKDSVV---AGF--QWAAKEGVLSEENLRGV 597
+ F + + + + L K+ ++ G W A + LS + +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 598 RFNIHDVTL 606
F I + L
Sbjct: 181 DFKIFWLNL 189
>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 = 63.5 bits (155), Expect = 1e-10
Identities = 49/180 (27%), Positives = 70/180 (38%), Gaps = 52/180 (28%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIA----------GAKAGETRFT----- 46
M +K ++ N+ VI HVDHGKSTL L+ G I K G+
Sbjct: 1 MSQKPHL-NLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLL 59
Query: 47 DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFS 105
D K+E+ER +TI ++ FE T K + +ID+PGH DF
Sbjct: 60 DRLKEERERGVTI---NLTFMRFE--------------TKK----YFFTIIDAPGHRDFV 98
Query: 106 SEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKPVL-----------FMNKMD 154
+ D A++VV G + E + R +L +NKMD
Sbjct: 99 KNMITGASQADAAILVVSAKKG---EYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMD 155
>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 = 62.8 bits (153), Expect = 2e-10
Identities = 31/142 (21%), Positives = 58/142 (40%), Gaps = 38/142 (26%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGII----------AGAKAGETRFT----- 46
M K+++ N+ I HVD GKSTL +++ G++ +AG+ +
Sbjct: 38 MYGKEHV-NIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWAL 96
Query: 47 DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFS 105
D+ +E+E+ T+ + YFE T +L+D+PGH +
Sbjct: 97 DSTSEEREKGKTV---EVGRAYFE--------------TEH----RRFSLLDAPGHKGYV 135
Query: 106 SEVTAALRVTDGALVVVDCVSG 127
+ + D ++V+ G
Sbjct: 136 TNMINGASQADIGVLVISARRG 157
>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 = 62.3 bits (152), Expect = 3e-10
Identities = 42/173 (24%), Positives = 64/173 (36%), Gaps = 44/173 (25%)
Query: 3 DKKKNIRNMSVIAHVDHGKSTL-------TDSL----------VSKAGIIAGAKAGETRF 45
++K + +VD GKSTL + + SK G
Sbjct: 19 HERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALL 78
Query: 46 TDTRKDEQERCITIKSTAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFS 105
D + E+E+ ITI YF + FI + D+PGH ++
Sbjct: 79 VDGLQAEREQGITIDVA--YRYFSTAKRK--FI----------------IADTPGHEQYT 118
Query: 106 SEVTAALRVTDGALVVVDCVSGVCVQTETVLRQA-IAE--RIKPVLF-MNKMD 154
+ D A+++VD GV QT R + IA IK ++ +NKMD
Sbjct: 119 RNMATGASTCDLAIILVDARYGVQTQTR---RHSYIASLLGIKHIVVAINKMD 168
>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 = 61.3 bits (149), Expect = 6e-10
Identities = 46/186 (24%), Positives = 78/186 (41%), Gaps = 44/186 (23%)
Query: 10 NMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFE 69
N+ + H+DHGK+TL+ K + + T D + Q+R ITI S F+
Sbjct: 21 NLGIFGHIDHGKTTLS-----KV--LTEIAS--TSAHDKLPESQKRGITI-DIGFS-AFK 69
Query: 70 LDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVC 129
L++ I L+D+PGH D V +A + D AL+VVD G
Sbjct: 70 LENYR------------------ITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPK 111
Query: 130 VQT-ETVLRQAIAER--IKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVNVIIATYS 186
QT E +L I + I ++ + K D E++ +T + + +T++
Sbjct: 112 TQTGEHML---ILDHFNIPIIVVITKSD------NAGTEEIKRTEMIMKSILQ---STHN 159
Query: 187 DDSGPM 192
+ +
Sbjct: 160 LKNSSI 165
>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 = 60.4 bits (147), Expect = 9e-10
Identities = 41/176 (23%), Positives = 76/176 (43%), Gaps = 32/176 (18%)
Query: 10 NMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFE 69
N+ ++ HVDHGK++LT KA + G TD +E R I+I+
Sbjct: 10 NIGMVGHVDHGKTSLT-----KA--LTGVW------TDRHSEELRRGISIRLGYADCEIR 56
Query: 70 LDDKDMVFITNPDQTAKNEKGFL---INLIDSPGHVDF-SSEVTAALRVTDGALVVVDCV 125
+ + T P + ++ +DSPGH ++ ++ A + DGA++V+
Sbjct: 57 KCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMATMLSGA-SLMDGAILVIAAN 115
Query: 126 SGVCVQTET-----VLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVE 176
C Q +T L ++I ++ NK+D +D + + +++I E
Sbjct: 116 EP-CPQPQTKEHLMALEILGIDKI--IIVQNKID------LVDEKQAEENYEQIKE 162
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 59.8 bits (145), Expect = 2e-09
Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 37/119 (31%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGII----------AGAKAGETRFT----- 46
K + ++ V HVD GKST+ ++ + G I A +G+ F+
Sbjct: 171 QSNPKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLL 230
Query: 47 DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDF 104
DT ++E+ R +T+ ++ FE + K + + D+PGH DF
Sbjct: 231 DTTEEERARGVTMD---VASTTFE--------------SDK----KIYEIGDAPGHRDF 268
>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 = 58.8 bits (143), Expect = 3e-09
Identities = 45/190 (23%), Positives = 83/190 (43%), Gaps = 37/190 (19%)
Query: 10 NMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFE 69
N+ ++ HVDHGK+TLT KA + G TDT +E R ITIK
Sbjct: 12 NIGMVGHVDHGKTTLT-----KA--LTGVW------TDTHSEELRRGITIKIGFADAEIR 58
Query: 70 LDDKDMVFITNPDQTAKNEKGFL---INLIDSPGHVDF-SSEVT-AALRVTDGALVVVDC 124
+ T+P + ++ ID+PGH ++ + A+ + DGA++V+
Sbjct: 59 RCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGAS--LMDGAILVIAA 116
Query: 125 VSGVCVQTET-----VLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVN 179
C + +T L+ + I ++ NK++ +D E + +++I E +
Sbjct: 117 NEP-CPRPQTREHLMALQIIGQKNI--IIAQNKIE------LVDKEKALENYRQIKEFIE 167
Query: 180 VIIATYSDDS 189
T ++++
Sbjct: 168 ---GTVAENA 174
>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 = 59.6 bits (144), Expect = 3e-09
Identities = 54/172 (31%), Positives = 75/172 (43%), Gaps = 36/172 (20%)
Query: 2 MDKKKNIR-----NMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERC 56
M K+K R N+ I HVDHGK+TLT ++ + G A D +E+ R
Sbjct: 285 MSKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARG 344
Query: 57 ITIKSTAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSE-VTAALRVT 115
ITI +T+ Y T +D PGH D+ +T A ++
Sbjct: 345 ITI-NTSHVEY---------------DTPTRHYAH----VDCPGHADYVKNMITGAAQM- 383
Query: 116 DGALVVVDCVSGVCVQT-ETVL--RQAIAERIKPVLFMNKMDRA----LLEL 160
DGA++VV G QT E +L RQ I ++F+NK D LLEL
Sbjct: 384 DGAILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCDMVDDEELLEL 433
>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 = 58.8 bits (143), Expect = 3e-09
Identities = 27/120 (22%), Positives = 44/120 (36%), Gaps = 37/120 (30%)
Query: 1 MMDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGII----------AGAKAGETRFT---- 46
+ + V+ HVD GKSTL L+ I+ G++ F
Sbjct: 26 FVKSALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWI 85
Query: 47 -DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDF 104
D +E+ER +T+ +I +F T + ++D+PGH DF
Sbjct: 86 MDQTNEERERGVTV---SICTSHFS--------------THR----ANFTIVDAPGHRDF 124
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 57.8 bits (140), Expect = 9e-09
Identities = 27/119 (22%), Positives = 44/119 (36%), Gaps = 37/119 (31%)
Query: 2 MDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGII----------AGAKAGETRFT----- 46
+ + V+ HVD GKSTL L+ I+ G++ F
Sbjct: 161 VKSALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIM 220
Query: 47 DTRKDEQERCITIKSTAISM-YFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDF 104
D +E+ER +T+ +I +F T + ++D+PGH DF
Sbjct: 221 DQTNEERERGVTV---SICTSHFS--------------THR----ANFTIVDAPGHRDF 258
>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 = 57.2 bits (139), Expect = 1e-08
Identities = 55/166 (33%), Positives = 75/166 (45%), Gaps = 44/166 (26%)
Query: 10 NMSVIAHVDHGKSTLTDSLVSKAGI--IAGAKAGETRFT-----DTRKDEQERCITIKST 62
N+ I HVDHGK+TLT A + +A A+ D +E+ R ITI +T
Sbjct: 13 NVGTIGHVDHGKTTLT------AALTYVAAAENPNVEVKDYGDIDKAPEERARGITI-NT 65
Query: 63 AISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSE-VTAALRVTDGALVV 121
A Y +TAK +D PGH D+ +T A ++ DGA++V
Sbjct: 66 AHVEY---------------ETAKRHYSH----VDCPGHADYIKNMITGAAQM-DGAILV 105
Query: 122 VDCVSGVCVQT-ETVL--RQAIAERIKPVLFMNKMDRA----LLEL 160
V G QT E +L RQ I V+FMNK+D LL+L
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYI--VVFMNKVDMVDDPELLDL 149
>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 = 56.8 bits (138), Expect = 1e-08
Identities = 48/159 (30%), Positives = 68/159 (42%), Gaps = 31/159 (19%)
Query: 10 NMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFE 69
N+ I HVDHGK+TLT ++ GAK + D +E+ R ITI + A Y
Sbjct: 5 NVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITI-NAAHVEY-- 61
Query: 70 LDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSE-VTAALRVTDGALVVVDCVSGV 128
TA D PGH D+ +T + DG ++VV G
Sbjct: 62 -------------STAARHYAH----TDCPGHADYVKNMITGTAPL-DGCILVVAANDGP 103
Query: 129 CVQT-ETVL--RQAIAERIKPVLFMNKMDRA----LLEL 160
QT E +L RQ E + V+++NK D ++EL
Sbjct: 104 MPQTREHLLLARQIGVEHV--VVYVNKADAVQDSEMVEL 140
>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 = 52.7 bits (126), Expect = 5e-07
Identities = 91/551 (16%), Positives = 164/551 (29%), Gaps = 212/551 (38%)
Query: 155 RALLELQLDAEDLYQTFQRIV---ENVNVIIATYSDDSGPMGEVRVFDSIMNYKKEEAES 211
+L L L F+ +++ + A ++ V+ + I NY A
Sbjct: 81 DQVLNLCLTE------FENCYLEGNDIHALAAKLLQEN-DTTLVKTKELIKNYI--TARI 131
Query: 212 LLSKLGIELKPEDKEKDGKALLKVVMRTWLPAGEALLQMIAIHLPSPVVAQ--------K 263
+ + P DK+ + AL + V G A +VA
Sbjct: 132 MAKR------PFDKKSNS-ALFRAV-----GEGNA-----------QLVAIFGGQGNTDD 168
Query: 264 YRMEM--LYEGPHDDEAAIGIKNCDPNAPLMMYVSKMVPTSDKGRFYAFGRVFSGKVATG 321
Y E+ LY+ H + IK A + + + ++K F + +
Sbjct: 169 YFEELRDLYQTYHVLVGDL-IKFS---AETLSELIRTTLDAEK----VFTQGLN------ 214
Query: 322 QKARIM----GPNYIPGKKEDLYEKAI---QRTILMMGRYVEAIE--DVPSGN----ICG 368
I+ P+ P K + L I ++ + YV + G + G
Sbjct: 215 ----ILEWLENPSNTPDK-DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 369 LVGVDQFLV------KTGTITTFKDAHN--LRVMKFSV-------SPVVRVAVEPKNPAD 413
G Q LV +T + +F + + V+ F + P ++ P D
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL-FFIGVRCYEAYP--NTSLPPSILED 326
Query: 414 LPKLVEG-------LKRLSKSDPMVQCIIEE------SGEHI------------VAG-AG 447
+ EG + L++ VQ + + +G+ + V+G
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQ--VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 448 ELH-LEICLKDL----EEDHACIPIKKSDPVVSYR-ETVSEESDQVCLSKSPNKHNRLFM 501
L+ L + L+ D + IP + S R V+ SP H+ L +
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA----------SP-FHSHL-L 432
Query: 502 KAAPLPDGLPEDIDKGEVNPRDDFKIRGRYLA----------D--KYEFDVTE--ARKI- 546
A D + +D+ +++ + + D ++E I
Sbjct: 433 VPAS--DLINKDL------VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII 484
Query: 547 -----W------------SFGPDGTGPNLLIDCTKGVQYLNEIKDSVVAGFQWAAKEGVL 589
W FGP G G+ GVL
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGG---------ASGL--------------------GVL 515
Query: 590 SEENL--RGVR 598
+ N GVR
Sbjct: 516 THRNKDGTGVR 526
Score = 40.0 bits (93), Expect = 0.003
Identities = 38/219 (17%), Positives = 66/219 (30%), Gaps = 81/219 (36%)
Query: 75 MVFITNPDQTAKNEKGFLINLIDSPGHVDFSS--------EVT---------AALRV--- 114
M+F T D K EK F + + F S + T AA
Sbjct: 1691 MIFETIVDGKLKTEKIFK-EINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 115 -----TD----G-------ALVVVDCVSGVCVQTETVLR---------QAIAERIKPVLF 149
D G AL ++ V + E+++ Q R +
Sbjct: 1750 KGLIPADATFAGHSLGEYAALA---SLADV-MSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 150 MNKM---DRALLELQLDAEDLYQTFQRI-------VENVN-------VIIATYSDDSGPM 192
M + + E L +R+ VE VN + A
Sbjct: 1806 NYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA--------- 1856
Query: 193 GEVRVFD---SIMNYKKEEAESLLSKLGIELKPED-KEK 227
G++R D +++N+ K + ++ +L L E+ +
Sbjct: 1857 GDLRALDTVTNVLNFIKLQKIDII-ELQKSLSLEEVEGH 1894
Score = 38.1 bits (88), Expect = 0.014
Identities = 71/442 (16%), Positives = 131/442 (29%), Gaps = 141/442 (31%)
Query: 375 FLVKTGTITTFKDAHNLRVMKFSVS---PVVRVAV--EPKNPADL--------PKLVEGL 421
LV T + F A L+ +F+ P A EP PA+L LVE
Sbjct: 20 LLVPTAS---FFIASQLQ-EQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP- 74
Query: 422 KRLSKSDPMVQCIIEESGEHIVAGAGELHLEICLKDLEEDHACIPIKKSDPVVSYRETVS 481
++ + D ++ + E + G ++H L +++ +K + + +Y
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEG-NDIHALAA--KLLQENDTTLVKTKELIKNYIT--- 128
Query: 482 EESDQVCLSKSPNKHNRLFMKAAPLPDGLPEDIDKGEV----------NPRDDFK-IRGR 530
+ + K N +A +G N D F+ +R
Sbjct: 129 --ARIMAKRPFDKKSNSALFRAV----------GEGNAQLVAIFGGQGNTDDYFEELRDL 176
Query: 531 YLADKYE------------------FDVTEARKIWSFGPD----GTGPNLLIDCTKGVQY 568
Y Y +A K+++ G + P T Y
Sbjct: 177 Y--QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP----SNTPDKDY 230
Query: 569 LNEIKDSV-------VAGFQWAAKEGVLSEENLRGVRFNIHDVTLHADAIHRGGGQIIPT 621
L I S +A + AK + LR + T H+ + +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS---YLKGATGHSQGL------VTA- 280
Query: 622 TRRVLYA------SLLTACPRLMEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVA- 674
V A S + + + ++ ++C E Y + + + ++
Sbjct: 281 ---VAIAETDSWESFFVSVRKAITVLFFIGVRCYEA-----YPNTSLPPSILEDSLENNE 332
Query: 675 G--TPMFVVK---------------AYLPVNESFGFTADLRSNTGGQAFPQCVFDHWQVL 717
G +PM + ++LP + + L N G + V+
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS--LV-N-GAKNL---------VV 379
Query: 718 PGDPTDPGSKPYNVVQETRKRK 739
G P Y + RK K
Sbjct: 380 SGPPQS----LYGLNLTLRKAK 397
Score = 37.3 bits (86), Expect = 0.020
Identities = 45/309 (14%), Positives = 94/309 (30%), Gaps = 105/309 (33%)
Query: 229 GKALLK---VVMRTWLPA--------GEALLQMI-------AIHLPSPV---VAQKYRME 267
G L K W A G ++L ++ IH + + Y
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY-SA 1690
Query: 268 MLYEGPHDDEAAIGIKNCDPNAPLMMYVSKMVPTSDKGRFYAFGRVFSGKVATGQKARIM 327
M++E D + + ++ Y F
Sbjct: 1691 MIFETIVD--------GKLKTEKIFKEI------NEHSTSYTFR---------------- 1720
Query: 328 GPNYIPGKKEDLYEKAI-QRTILMMGR-YVEAIED---VPSGNI-CGL-VGVDQF--LVK 378
K L Q + +M + E ++ +P+ G +G ++ L
Sbjct: 1721 SE------KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLG--EYAALAS 1772
Query: 379 TGTITTFKDAHNL-----RVMKFSV-------SPVVRVAVEPK------NPADLPKLVEG 420
+ + + + M+ +V S +A+ P + L +VE
Sbjct: 1773 LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER 1832
Query: 421 LKRLSKSDPMVQ-----CIIEESGEHIVAGAGELH-LEICLKDLEEDHACIPIKKSDPVV 474
+ + ++ +V+ + VA AG+L L+ L I ++K D ++
Sbjct: 1833 VGK--RTGWLVEIVNYNV----ENQQYVA-AGDLRALDTVTNVLNF----IKLQKID-II 1880
Query: 475 SYRETVSEE 483
++++S E
Sbjct: 1881 ELQKSLSLE 1889
Score = 35.0 bits (80), Expect = 0.11
Identities = 46/286 (16%), Positives = 76/286 (26%), Gaps = 105/286 (36%)
Query: 387 DAHNLRVMKFSVSPVVRVAVEPKNPADLPKLVEGLK--RL----------------SKSD 428
D H FS+ +V NP +L G K R+ K++
Sbjct: 1650 DNHFKDTYGFSILDIVI-----NNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 429 PMVQCIIEESGEHIVAG-AGELHL-----------EI-CLKDLEED-----------H-- 462
+ + I E S + G L E +DL+ H
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL 1764
Query: 463 ------AC----IPIKKSD--PVVSYRETVSEESDQVCLSKSPNKHNRLFMKAAPLPDGL 510
A + I VV YR A P +
Sbjct: 1765 GEYAALASLADVMSI--ESLVEVVFYR-------------------GMTMQVAVPRDELG 1803
Query: 511 PEDIDKGEVNPRDDFKIRGRYLADKYEFDVTEARKIWSFGPDGTGPNLLI--DCTKGVQY 568
+ +NP ++ + + ++ V K TG + I + QY
Sbjct: 1804 RSNYGMIAINPG---RVAASFSQEALQYVVERVGK-------RTGWLVEIVNYNVENQQY 1853
Query: 569 LNEIKDSVVAGFQWAAKE---GVLSEENLRGVRFNIHDVTLHADAI 611
V AG A + VL+ L+ + +L + +
Sbjct: 1854 -------VAAG-DLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 29.2 bits (65), Expect = 6.5
Identities = 24/143 (16%), Positives = 44/143 (30%), Gaps = 37/143 (25%)
Query: 28 LVSKAGII---AGAKA----GETRFTDTRKDEQER----CITIKSTAISMYFELDDKDMV 76
L S A ++ + + G T +DE R I I ++ F + V
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
Query: 77 FITNPDQTAKNEKGFL--INLIDSPGH-VDFSSEVTAALRVTDGALVVVDCVSGVC---- 129
++ K + +N + V A G L +D V+ V
Sbjct: 1830 V----ERVGKRTGWLVEIVNY-NVENQQY-----VAA------GDLRALDTVTNVLNFIK 1873
Query: 130 ---VQTETVLRQAIAERIKPVLF 149
+ + + E ++ LF
Sbjct: 1874 LQKIDIIELQKSLSLEEVEGHLF 1896
>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 = 51.5 bits (124), Expect = 5e-07
Identities = 38/185 (20%), Positives = 67/185 (36%), Gaps = 43/185 (23%)
Query: 3 DKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFT------DTRKDEQERC 56
K + N+ V+ HVDHGK+TL ++ GI K G + +
Sbjct: 3 PKVQPEVNIGVVGHVDHGKTTLVQAI---TGIWTSKKLGYAETNIGVCESCKKPEAYVTE 59
Query: 57 ITIKSTAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDF-SSEVTAALRVT 115
+ KS + + I+ ID+PGH ++ ++ A +
Sbjct: 60 PSCKSCGSDDEPKFLRR-------------------ISFIDAPGHEVLMATMLSGA-ALM 99
Query: 116 DGALVVVDCVSGVCVQTET-----VLRQAIAERIKPVLFMNKMD-----RALLELQLDAE 165
DGA++VV Q +T L + + ++ NK+D AL + + +
Sbjct: 100 DGAILVVAANEP-FPQPQTREHFVALGIIGVKNL--IIVQNKVDVVSKEEALSQYRQIKQ 156
Query: 166 DLYQT 170
T
Sbjct: 157 FTKGT 161
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 45.7 bits (109), Expect = 1e-05
Identities = 36/144 (25%), Positives = 60/144 (41%), Gaps = 38/144 (26%)
Query: 13 VIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMY-FELD 71
++ HVDHGK+TL D++ + + G T+ I Y ++
Sbjct: 13 IMGHVDHGKTTLLDAI-RHSKVTEQEAGGITQ------------------HIGAYQVTVN 53
Query: 72 DKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQ 131
DK + F +D+PGH F++ +VTD ++VV GV Q
Sbjct: 54 DKKITF------------------LDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQ 95
Query: 132 TETVLRQAIAERIKPVLFMNKMDR 155
T + A A + ++ +NKMD+
Sbjct: 96 TVEAINHAKAANVPIIVAINKMDK 119
>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 = 47.3 bits (113), Expect = 1e-05
Identities = 41/151 (27%), Positives = 64/151 (42%), Gaps = 32/151 (21%)
Query: 12 SVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCIT--IKSTAISMYFE 69
SV+ HVDHGK+TL D + + + + +AG IT I +T
Sbjct: 9 SVLGHVDHGKTTLLDHI-RGSAVASR-EAGG--------------ITQHIGAT----EIP 48
Query: 70 LDDKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALR-----VTDGALVVVDC 124
+D + + + + E + ID+PGH F+ LR + D A+++VD
Sbjct: 49 MDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFT-----TLRKRGGALADLAILIVDI 103
Query: 125 VSGVCVQTETVLRQAIAERIKPVLFMNKMDR 155
G QT+ L R V+ NK+DR
Sbjct: 104 NEGFKPQTQEALNILRMYRTPFVVAANKIDR 134
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 45.6 bits (109), Expect = 4e-05
Identities = 19/155 (12%), Positives = 44/155 (28%), Gaps = 38/155 (24%)
Query: 16 HVDHGKSTLTDSL--VSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFELDDK 73
H H S L ++ II K+G T + ++ + +
Sbjct: 6 HHHHHSSGLVPRGSHMANVAIIGTEKSGR---TSLAANLGKKGTSS-DITMYNN------ 55
Query: 74 DMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVV--DCVSGVCVQ 131
F +D+ + + AL ++D A++ + G+
Sbjct: 56 ---------DKEGRNMVF----VDAHSYPKTLKSLITALNISDIAVLCIPPQ---GLDAH 99
Query: 132 TE---TVLRQAIAERIKPVLFMNKMDRA---LLEL 160
T L + ++ + + D ++
Sbjct: 100 TGECIIALDLLGFKHG--IIALTRSDSTHMHAIDE 132
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 45.0 bits (105), Expect = 1e-04
Identities = 49/280 (17%), Positives = 83/280 (29%), Gaps = 42/280 (15%)
Query: 13 VIAHVDHGKSTLTDSLVSKAGIIAGAKAGET--RFTDTRKDEQERCITIKSTAISMYFEL 70
V+ + GKST ++L+ + + + T R +++ + S
Sbjct: 74 VLGDMKRGKSTFLNALIGEN--LLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLD 131
Query: 71 DDKDMVFITNPDQTAKNEKGFL----------------------INLIDSPGHVDFSSEV 108
T AK + I ++DSPG D +
Sbjct: 132 FQNFKYKYTIDPAEAKKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARN 191
Query: 109 TAALRVT---DGALVVVDCVSGVCVQTETVLRQAIAERIKPVLF-MNKMD--RALLELQL 162
+L L V+ + L I R V F +N D R L
Sbjct: 192 ELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRESLIDPD 251
Query: 163 DAEDLYQTFQRIVENVNVIIATYSDDSGPMG-EVRVF---------DSIMNYKKEEAESL 212
D E+L + R+ + N +A Y G + RVF + N + + +
Sbjct: 252 DVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTG 311
Query: 213 LSKLGIELKPEDKEKDGKALLKVVMRTWLPAGEALLQMIA 252
K L + A L+ V A + +A
Sbjct: 312 FPKFMDSLNTFLTRERAIAELRQVRTLARLACNHTREAVA 351
>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 = 37.5 bits (87), Expect = 0.013
Identities = 29/115 (25%), Positives = 42/115 (36%), Gaps = 3/115 (2%)
Query: 636 RLMEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEEMQVAGTPMFVVKAYLPVNESFGFTA 695
+LMEP I E GGI + R G + + M G + +P GF
Sbjct: 122 QLMEPFETVTIDVMEEHQGGIMENIGLRXGELXD-MAPDGKGRVRMDFIMPSRGLIGFQT 180
Query: 696 DLRSNTGGQAFPQCVFDHWQVLPGDPTDPGSKPYNVVQETRKRKGLKEGLPDLQS 750
+ + T G FDH+ P + G + V+ K L L +LQ
Sbjct: 181 EFMTLTSGSGLLYHTFDHYG--PHXGGNIGQRVNGVLIANAAGKALTNALFNLQE 233
>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 = 36.7 bits (86), Expect = 0.028
Identities = 35/149 (23%), Positives = 61/149 (40%), Gaps = 48/149 (32%)
Query: 13 VIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMY-FELD 71
++ HVDHGK++L + + + +G G IT I Y E +
Sbjct: 9 IMGHVDHGKTSLLEYI-RSTKVASGEAGG---------------IT---QHIGAYHVETE 49
Query: 72 DKDMVFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALR-----VTDGALVVVDCVS 126
+ + F +D+PGH F+ ++R TD ++VV
Sbjct: 50 NGMITF------------------LDTPGHAAFT-----SMRARGAQATDIVVLVVAADD 86
Query: 127 GVCVQTETVLRQAIAERIKPVLFMNKMDR 155
GV QT ++ A A ++ V+ +NK+D+
Sbjct: 87 GVMPQTIEAIQHAKAAQVPVVVAVNKIDK 115
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 36.8 bits (86), Expect = 0.029
Identities = 47/170 (27%), Positives = 61/170 (35%), Gaps = 61/170 (35%)
Query: 16 HVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFELDDKDM 75
HVDHGK+TL D L K + A G IT I +
Sbjct: 12 HVDHGKTTLLDKL-RKTQVAAMEAGG---------------IT---QHIGAF-------- 44
Query: 76 VFITNPDQTAKNEKGFLINLIDSPGHVDFSSEVTAALR-----VTDGALVVV---DCVSG 127
G I +D+PGH FS A+R VTD ++VV D G
Sbjct: 45 --------LVSLPSGEKITFLDTPGHAAFS-----AMRARGTQVTDIVILVVAADD---G 88
Query: 128 VCVQTETVLRQAIAERIKPVLFMNKMDRA----------LLELQLDAEDL 167
V QT ++ A + VL +NK D+A LL + ED
Sbjct: 89 VMKQTVESIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDY 138
>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 = 32.2 bits (72), Expect = 0.27
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 4/31 (12%)
Query: 534 DKYEFDVTEAR-KIWSFGPDGTGPNLLIDCT 563
+K +A K+++ D + P L I T
Sbjct: 18 EKQALKKLQASLKLYA--DD-SAPALAIKAT 45
Score = 29.5 bits (65), Expect = 2.0
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 16/44 (36%)
Query: 226 EKDGKALLKVVMRTWLPAGEALLQMIAIHLP--SPVVAQKYRME 267
EK +AL K+ +A L++ A +P +A K ME
Sbjct: 18 EK--QALKKL---------QASLKLYA---DDSAPALAIKATME 47
Score = 29.5 bits (65), Expect = 2.2
Identities = 6/23 (26%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 169 QTFQRIVENVNVIIATYSDDSGP 191
Q +++ ++ + Y+DDS P
Sbjct: 20 QALKKLQASLKL----YADDSAP 38
>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 = 1.0
Identities = 24/185 (12%), Positives = 65/185 (35%), Gaps = 28/185 (15%)
Query: 20 GKSTLTDSLVSKAGIIAGAKAG---ET-RFTDTRKDEQERCITIKSTAIS---MYFELDD 72
GK++ L+ + + G++ G T F E E + + + + +L+
Sbjct: 77 GKTSFIQYLLEQE--VPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNP 134
Query: 73 KDMVFITNPD-QTAKNEKGFLINLIDSPGHVDFSSEVTAA----LRVTDG------ALVV 121
F+ N+ I++ID+PG + + + + V +++
Sbjct: 135 FGNTFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIIL 194
Query: 122 VDCVSG--VCVQTETVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVN 179
+ + + + K + +NK D ++ + L + + ++ +
Sbjct: 195 LFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKAD------MVETQQLMRVYGALMWALG 248
Query: 180 VIIAT 184
++ T
Sbjct: 249 KVVGT 253
>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 = 30.5 bits (70), Expect = 2.1
Identities = 26/139 (18%), Positives = 51/139 (36%), Gaps = 31/139 (22%)
Query: 20 GKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFELDDKDMVFIT 79
GKSTL +++++K + G TR D + +D + VF+
Sbjct: 192 GKSTLFNAILNKERALVSPIPGTTR--D---------------PVDDEVFIDGRKYVFV- 233
Query: 80 NPDQTA---KNEKGFLINLIDSPGHVDFSSEVT-AALRVTDGALVVVDCVSGVCVQTETV 135
D TA + + ++ +S+ ++ D ++V+D G+ Q + +
Sbjct: 234 --D-TAGLRRKSR------VEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRM 284
Query: 136 LRQAIAERIKPVLFMNKMD 154
V+ NK D
Sbjct: 285 AGLMERRGRASVVVFNKWD 303
>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP,
signaling protein; HET: GNP; 2.00A {Thermotoga maritima}
PDB: 3cnn_A* 3cno_A*
Length = 262
Score = 29.9 bits (68), Expect = 2.5
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 4 KKKNIRNMSV-IAHVDHGKSTLTDSLVSKAGIIAGAKAGETR 44
+ R + V + + GKST+ + L K GA+ G T+
Sbjct: 96 FDRLARVLIVGVPNT--GKSTIINKLKGKRASSVGAQPGITK 135
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 29.8 bits (68), Expect = 3.3
Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 38/142 (26%)
Query: 20 GKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIKSTAISMYFELDDKDMVFIT 79
GKS+L ++++ + +I AG TR D A+ F + ++ V +
Sbjct: 187 GKSSLVNAMLGEERVIVSNVAGTTR--D---------------AVDTSFTYNQQEFVIV- 228
Query: 80 NPDQTAKNEKGFLINLIDSPGHVD-----FSSEVT-AALRVTDGALVVVDCVSGVCVQTE 133
D TA G + G V +S A+ ++ VV+D G+ Q +
Sbjct: 229 --D-TA----G-----MRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDK 276
Query: 134 TVLRQAIAERIKP-VLFMNKMD 154
+ A E K V+ +NK D
Sbjct: 277 RIAGYAH-EAGKAVVIVVNKWD 297
>1p0z_A Sensor kinase CITA; transferase; HET: FLC MO7; 1.60A {Klebsiella
pneumoniae} SCOP: d.110.6.1 PDB: 2v9a_A 2j80_A*
Length = 131
Score = 28.3 bits (63), Expect = 5.0
Identities = 7/36 (19%), Positives = 18/36 (50%)
Query: 396 FSVSPVVRVAVEPKNPADLPKLVEGLKRLSKSDPMV 431
S P + AV+ ++ A + L++ ++ S + +
Sbjct: 19 ISAMPELVEAVQKRDLARIKALIDPMRSFSDATYIT 54
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 28.6 bits (64), Expect = 6.8
Identities = 23/126 (18%), Positives = 43/126 (34%), Gaps = 23/126 (18%)
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHV----DFSSEVTAALRVTDG 117
T++ D ++ +A + G + L+D PGHV S + + G
Sbjct: 26 TSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG 85
Query: 118 ALVVVDCVSGVCVQTET------VLR--QAIAERIKPVL-FMNKMD----------RALL 158
+ +VD T T +L ++ E +L NK + + L
Sbjct: 86 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL 145
Query: 159 ELQLDA 164
E ++
Sbjct: 146 ESEIQK 151
>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 = 28.7 bits (65), Expect = 7.7
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 141 AERIKPVLFMNKMDRALLELQLDAEDLYQTFQRI 174
+++PV+ NK+D E + + E ++
Sbjct: 108 YFKVEPVIVFNKIDLLNEEEKKELERWISIYRDA 141
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 28.2 bits (63), Expect = 8.1
Identities = 23/125 (18%), Positives = 43/125 (34%), Gaps = 23/125 (18%)
Query: 62 TAISMYFELDDKDMVFITNPDQTAKNEKGFLINLIDSPGHV----DFSSEVTAALRVTDG 117
T++ D ++ +A + G + L+D PGHV S + + G
Sbjct: 62 TSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG 121
Query: 118 ALVVVDCVSGVCVQTET------VLR--QAIAERIKPVL-FMNKMD----------RALL 158
+ +VD T T +L ++ E +L NK + + L
Sbjct: 122 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL 181
Query: 159 ELQLD 163
E ++
Sbjct: 182 ESEIQ 186
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 28.2 bits (63), Expect = 8.9
Identities = 20/99 (20%), Positives = 33/99 (33%), Gaps = 19/99 (19%)
Query: 84 TAKNEKGFLINLIDSPGHVDFSSEVTAA-LRVTDGALVVVDCVSGVCVQTET------VL 136
N +G + LID PGH ++ + VVD + + VL
Sbjct: 47 KVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVL 106
Query: 137 RQA-IAERIKPVL-FMNKMD----------RALLELQLD 163
+ + +L NK D + LE +L+
Sbjct: 107 IDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELN 145
>1esw_A Amylomaltase; (beta,alpha)8-barrel, glucanotransferase,
alpha-amylase FAMI acarbose, transferase; HET: ACR;
1.90A {Thermus aquaticus} SCOP: c.1.8.1 PDB: 1cwy_A*
1fp8_A 1fp9_A 2owc_A* 2oww_A* 2owx_A* 2x1i_A*
Length = 500
Score = 28.4 bits (64), Expect = 9.1
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 711 FDHWQVLPGDPTDPGSKPYN 730
+WQVLP PT G PY
Sbjct: 41 GRYWQVLPLGPTGYGDSPYQ 60
>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 = 28.2 bits (63), Expect = 9.2
Identities = 19/119 (15%), Positives = 39/119 (32%), Gaps = 29/119 (24%)
Query: 89 KGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKP-- 146
+L PG V +++ LR DG + V D +R +
Sbjct: 72 FKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL 131
Query: 147 -------VLFMNKMD----------RALLELQ----------LDAEDLYQTFQRIVENV 178
V+ +NK D RA+++ + + + +++T + + V
Sbjct: 132 TLDDVPIVIQVNKRDLPDALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLV 190
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 0.137 0.400
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: 11,944,197
Number of extensions: 776058
Number of successful extensions: 1897
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1812
Number of HSP's successfully gapped: 79
Length of query: 755
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 654
Effective length of database: 3,881,772
Effective search space: 2538678888
Effective search space used: 2538678888
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: 61 (27.4 bits)