RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9574
(783 letters)
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 1031 bits (2668), Expect = 0.0
Identities = 315/638 (49%), Positives = 438/638 (68%), Gaps = 9/638 (1%)
Query: 1 MISIQISNELKLQFSKPITVLDVASHISVNLAKTAIVGKLNGVLVDLSYVIDHDVNLIII 60
M I + + + + ++ +DVA I LAK I G++NG LVD +I++D L II
Sbjct: 1 MPVITLPDGSQRHYDHAVSPMDVALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSII 60
Query: 61 TEKDNIGLNIIRHSTAHLLAYAVKNLFPDSQIAIGPVIENGFYYDFLYKRSFTKEDLILI 120
T KD GL IIRHS AHLL +A+K L+P +++AIGPVI+NGFYYD R+ T+ED+ +
Sbjct: 61 TAKDEEGLEIIRHSCAHLLGHAIKQLWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEAL 120
Query: 121 EKKMIELSQKNELFLKKNITRDKAIAYFDSVNEQFKKKIIN-LIPNNQEISLYSIGSFVD 179
EK+M EL++KN +KK ++ +A F + E +K I++ I ++ + LY +VD
Sbjct: 121 EKRMHELAEKNYDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDKPGLYFHEEYVD 180
Query: 180 LCRGPHVFSTGKLKIFKLIKLAGSYWKGNQKNKKLQRIYGTAWSTKKDQEIYLHMIKEAE 239
+CRGPHV + FKL+K AG+YW+G+ NK LQRIYGTAW+ KK YL ++EA
Sbjct: 181 MCRGPHVPNMRFCHHFKLMKTAGAYWRGDSNNKMLQRIYGTAWADKKALNAYLQRLEEAA 240
Query: 240 KRDHRKLGKQLNLFHFQEESPGLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLD 299
KRDHRK+GKQL+L+H QEE+PG++FWH G+ I +E++ ++R K Y+E+K P M+D
Sbjct: 241 KRDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMD 300
Query: 300 LSLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQ 359
LW+KTGHW+NYKD MFTT SENR Y +KPMNCPGH+QI+N SYRDLPLR EFG
Sbjct: 301 RVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGS 360
Query: 360 CHRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKL 419
CHRNE SGSLHG+MR R F QDD HIFCT+ QI++E+ LV+ +Y+ FGF+KI +KL
Sbjct: 361 CHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKL 420
Query: 420 ALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQC 479
+ RP KRIG + +WD AE L A+ + + +E GEGAFYGPKIE+ L D + R+WQC
Sbjct: 421 STRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQC 480
Query: 480 GTIQIDFSMPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILVENYSGAMPLWLAPI 539
GT+Q+DFS+P RL A Y+ E+N RK PVM+HRAI+GS+ERFI IL E ++G P WLAP+
Sbjct: 481 GTVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPV 540
Query: 540 QVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLEKLPYIIIVGNKE 599
QV+I+NI+ Q EY ++ L + RV+ DLRNEKI +KIR H+L ++PY+++ G+KE
Sbjct: 541 QVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKE 600
Query: 600 LCENKITERE--------IIIDRPKHRINREIIAPELR 629
+ K+ R + ++ ++ +EI + L+
Sbjct: 601 VESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLK 638
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 988 bits (2557), Expect = 0.0
Identities = 256/645 (39%), Positives = 393/645 (60%), Gaps = 18/645 (2%)
Query: 1 MISIQISNELKLQFSKPITVLDVASHISVNLAKTAIVGKLNGVLVDLSYVIDHDVNLIII 60
I+IQ + K F K T D+A IS L K A+ GK NG LVDL+ ++ D ++ I+
Sbjct: 3 QINIQFPDGNKKAFDKGTTTEDIAQSISPGLRKKAVAGKFNGQLVDLTKPLETDGSIEIV 62
Query: 61 TEKDNIGLNIIRHSTAHLLAYAVKNLFPDSQIAIGPVIENGFYYDFLYKRSFTKEDLILI 120
T L ++RHSTAHL+A+A+K L+ + + +GPVIE GFYYDF ++ + +D I
Sbjct: 63 TPGSEEALEVLRHSTAHLMAHAIKRLYGNVKFGVGPVIEGGFYYDFDIDQNISSDDFEQI 122
Query: 121 EKKMIELSQKNELFLKKNITRDKAIAYFDSVNEQFKKKIINLIPNNQEISLYSIGSFVDL 180
EK M ++ +N +K ++RD+A F N+++K ++I+ IP ++ ++LYS G F DL
Sbjct: 123 EKTMKQIVNENMKIERKVVSRDEAKELFS--NDEYKLELIDAIPEDENVTLYSQGDFTDL 180
Query: 181 CRGPHVFSTGKLKIFKLIKLAGSYWKGNQKNKKLQRIYGTAWSTKKDQEIYLHMIKEAEK 240
CRG HV ST K+K FKL+ AG+YW+G+ NK LQRIYGTA+ KK+ + +L M++E ++
Sbjct: 181 CRGVHVPSTAKIKEFKLLSTAGAYWRGDSNNKMLQRIYGTAFFDKKELKAHLQMLEERKE 240
Query: 241 RDHRKLGKQLNLF-HFQEESPGLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLD 299
RDHRK+GK+L LF + Q GL W P G I +EI++Y+ GY + TP + +
Sbjct: 241 RDHRKIGKELELFTNSQLVGAGLPLWLPNGATIRREIERYIVDKEVSMGYDHVYTPVLAN 300
Query: 300 LSLWKKTGHWENYKDNMFTT--KSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEF 357
+ L+K +GHW++Y+++MF E L+PMNCP H+ IY + HSYR+LP+R E
Sbjct: 301 VDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPHSYRELPIRIAEL 360
Query: 358 GQCHRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKI 417
G HR E+SG++ G+ R R +D HIF QIK E ++ VY +FGF+
Sbjct: 361 GTMHRYEASGAVSGLQRVRGMTLNDSHIFVRPDQIKEEFKRVVNMIIDVYKDFGFEDYSF 420
Query: 418 KLALR----PNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSI 473
+L+ R K ++++W+ AEN L+EA G+++EE GE AFYGPK++ +K ++
Sbjct: 421 RLSYRDPEDKEKYFDDDDMWNKAENMLKEAADELGLSYEEAIGEAAFYGPKLDVQVKTAM 480
Query: 474 GRSWQCGTIQIDFSMPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILVENYSGAMP 533
G+ T Q+DF +P R YI ++ PV++HR ++ ++ERF+A L E GA P
Sbjct: 481 GKEETLSTAQLDFLLPERFDLTYIGQDGEHHRPVVIHRGVVSTMERFVAFLTEETKGAFP 540
Query: 534 LWLAPIQVMILNISKE-QIEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLEKLPYI 592
WLAP QV I+ ++ + +YA+++ + LKS+ RV +D RNEK+ YKIR ++K+PY
Sbjct: 541 TWLAPKQVQIIPVNVDLHYDYARQLQDELKSQGVRVSIDDRNEKMGYKIREAQMQKIPYQ 600
Query: 593 IIVGNKELCENKITERE--------IIIDRPKHRINREIIAPELR 629
I+VG+KE+ N++ R+ + D + EI + R
Sbjct: 601 IVVGDKEVENNQVNVRQYGSQDQETVEKDEFIWNLVDEIRLKKHR 645
>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION,
adenylate analog, deletion mutant, ligase; HET: TSB;
1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB:
1evk_A* 1fyf_A* 1kog_A*
Length = 401
Score = 687 bits (1774), Expect = 0.0
Identities = 208/397 (52%), Positives = 284/397 (71%), Gaps = 8/397 (2%)
Query: 241 RDHRKLGKQLNLFHFQEESPGLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDL 300
RDHRK+GKQL+L+H QEE+PG++FWH G+ I +E++ ++R K Y+E+K P M+D
Sbjct: 1 RDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDR 60
Query: 301 SLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQC 360
LW+KTGHW+NYKD MFTT SENR Y +KPMNCPGH+QI+N SYRDLPLR EFG C
Sbjct: 61 VLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSC 120
Query: 361 HRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLA 420
HRNE SGSLHG+MR R F QDD HIFCT+ QI++E+ LV+ +Y+ FGF+KI +KL+
Sbjct: 121 HRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLS 180
Query: 421 LRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCG 480
RP KRIG + +WD AE L A+ + + +E GEGAFYGPKIE+ L D + R+WQCG
Sbjct: 181 TRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCG 240
Query: 481 TIQIDFSMPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILVENYSGAMPLWLAPIQ 540
T+Q+DFS+P RL A Y+ E+N RK PVM+HRAI+GS+ERFI IL E ++G P WLAP+Q
Sbjct: 241 TVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQ 300
Query: 541 VMILNISKEQIEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLEKLPYIIIVGNKEL 600
V+I+NI+ Q EY ++ L + RV+ DLRNEKI +KIR H+L ++PY+++ G+KE+
Sbjct: 301 VVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEV 360
Query: 601 CENKITER--------EIIIDRPKHRINREIIAPELR 629
K+ R + ++ ++ +EI + L+
Sbjct: 361 ESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLK 397
>3uh0_A Threonyl-tRNA synthetase, mitochondrial; threonine tRNA, threonyl
ADE threonyl sulfamoyl adenylate; HET: TSB; 2.00A
{Saccharomyces cerevisiae} PDB: 3ugt_A 3ugq_A* 4eo4_A*
Length = 460
Score = 653 bits (1686), Expect = 0.0
Identities = 153/430 (35%), Positives = 236/430 (54%), Gaps = 32/430 (7%)
Query: 210 KNKKLQRIYGTAWSTKKDQEIYLHMIKEAEKRDHRK-LGKQLNLFHFQEESPGLIFWHPK 268
+ G A + ++ +LF SPG +F+ P
Sbjct: 4 SHHHHHHSSGLVP-RGSHMASATKNASSATPATMTSMVSQRQDLFMTDPLSPGSMFFLPN 62
Query: 269 GYIILQEIKKYMRKIYKYN-GYKEIKTPQMLDLSLWKKTGHWENYKDNMF---TTKSENR 324
G I ++ ++M+ K+ G+ E+ TP + +LW+K+GHWENY D+MF TT E
Sbjct: 63 GAKIFNKLIEFMKLQQKFKFGFNEVVTPLIYKKTLWEKSGHWENYADDMFKVETTDEEKE 122
Query: 325 FYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQDDGH 384
Y LKPMNCPGH I+ SY +LPLRF +F HRNE+SG+L G+ R R F QDDGH
Sbjct: 123 EYGLKPMNCPGHCLIFGKKDRSYNELPLRFSDFSPLHRNEASGALSGLTRLRKFHQDDGH 182
Query: 385 IFCTKSQIKNEIVVFNELVHKVYNE-FGFK--------KIKIKLALRPNKRIGENNIWDL 435
IFCT SQ+K+EI +L+ VYN+ F F I + RP+ IG+ +W+
Sbjct: 183 IFCTPSQVKSEIFNSLKLIDIVYNKIFPFVKGGSGAESNYFINFSTRPDHFIGDLKVWNH 242
Query: 436 AENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTIQIDFSMPHRLGAE 495
AE L+E + SG W+ PG+GAFYGPK++ + D + ++ Q TIQ+DF +P R +
Sbjct: 243 AEQVLKEILEESGKPWKLNPGDGAFYGPKLDIMVTDHLRKTHQVATIQLDFQLPERFDLK 302
Query: 496 YIAENNTRKTPVMLHRAIIGSLERFIAILVENYSGAMPLWLAPIQVMILNIS---KEQIE 552
+ ++N+ K P+M+HRA GS+ERF+A+L+++ G P WL P Q +I+ ++ +Q++
Sbjct: 303 FKDQDNSYKRPIMIHRATFGSIERFMALLIDSNEGRWPFWLNPYQAVIIPVNTKNVQQLD 362
Query: 553 YAKKVFNFLKSKK--------------FRVEVDLRNEKIAYKIRLHSLEKLPYIIIVGNK 598
+ L+++ F V++D+RNE + Y+I+ L+ Y+IIVG++
Sbjct: 363 MCTALQKKLRNELEADDMEPVPLNDWHFNVDLDIRNEPVGYRIKSAILKNYSYLIIVGDE 422
Query: 599 ELCENKITER 608
E+ K R
Sbjct: 423 EVQLQKYNIR 432
>3a32_A Probable threonyl-tRNA synthetase 1; aeropyrum pernix K1, protein
biosynthesis, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; 2.30A {Aeropyrum pernix} PDB: 3a31_A
Length = 471
Score = 619 bits (1599), Expect = 0.0
Identities = 130/480 (27%), Positives = 217/480 (45%), Gaps = 54/480 (11%)
Query: 221 AWSTKKDQEIYLHMIKEAEKRDHRKLGKQLNLFHFQEESPGLIFWHPKGYIILQEIKKYM 280
A K Y + + K D R F G+ + G I + + +
Sbjct: 2 ASGQDKTHIDYAYELDITVKPDSRVPVFNREFATF--TGAGVPLFSLGGGPIRYALAEVL 59
Query: 281 RKIYKYNGYKEIKTPQMLDLSLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIY 340
K + GY ++TP + L+K +GH E Y++NM+ E +A+KPMNCP HI ++
Sbjct: 60 AKFHARRGYYVVETPIIASTELFKVSGHIEFYRNNMYLFDIEGHEFAVKPMNCPYHILLF 119
Query: 341 NSNFHSYRD---LPLRFGEFGQCHRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEI- 396
+ +R LP + EFG+ HR E SGS++G++R R F QDD HI ++ + +
Sbjct: 120 LNEVAKHRSKLPLPFKVFEFGRVHRYEPSGSIYGLLRVRGFTQDDAHIIVPGGRVIDVVY 179
Query: 397 --VVFNELVHKVYNEFGF--KKIKIKLALRPN-----KRIGENNIWDLAENSLREAIS-- 445
+LV + + G + K++L++ + +G W+ AE +LREA S
Sbjct: 180 DVFEEMKLVLERLFKLGVSSETFKVRLSMSDKSLIGKEFMGSKEEWEGAEEALREAASRI 239
Query: 446 --SSGVTWEEFPGEGAFYGPKIEYHL---KDSIGRSWQCGTIQIDFSMPHRLGA-EYIAE 499
G+ E GE AFYGPK+++ + + + + WQ GTIQ DF++P R + + E
Sbjct: 240 NEKYGIDIVELEGEAAFYGPKLDFIMMVEESGVSKEWQMGTIQFDFNLPRRFRLYDVVRE 299
Query: 500 NNTRKTPVMLHRAIIGSLERFIAILVENYSGAMPLWLAPIQVMILNIS------KEQIEY 553
+ ++HRA++GS+ERF+ + +E+ G MP LAPIQ ++ + +E +
Sbjct: 300 EFGIEEVYIIHRALLGSIERFLGVYLEHRRGRMPFTLAPIQFAVIAVKTGGEVDREIEDL 359
Query: 554 AKKVFNFLKSKKFRVEVDLRNEK-IAYKIRLHSLEKLPYI-IIVGNKELCENKITEREII 611
A + L K FRV V ++ ++ +R P + + +G KE+ E + R
Sbjct: 360 ASSIAKGLLDKGFRVAVKGSSKTGLSSDVRHIESTAKPAVNVFIGAKEVREKVLDVRV-- 417
Query: 612 IDRPKHRINREIIAPELRLSGIKNEPLGIVTLEKAFYLAEKENVDLVEIAPFAKPPVARL 671
E + L A+ A +L +A + PV L
Sbjct: 418 ---------------------FDLESMKRRRLAIAYGDAADAVENLAAVAEELESPVRSL 456
>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP:
d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*
Length = 224
Score = 339 bits (873), Expect = e-112
Identities = 100/224 (44%), Positives = 145/224 (64%), Gaps = 1/224 (0%)
Query: 1 MISIQISNELKLQFSKPITVLDVASHISVNLAKTAIVGKLNGVLVDLSYVIDHDVNLIII 60
M I + + + + ++ +DVA I LAK I G++NG LVD +I++D L II
Sbjct: 1 MPVITLPDGSQRHYDHAVSPMDVALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSII 60
Query: 61 TEKDNIGLNIIRHSTAHLLAYAVKNLFPDSQIAIGPVIENGFYYDFLYKRSFTKEDLILI 120
T KD GL IIRHS AHLL +A+K L+P +++AIGPVI+NGFYYD R+ T+ED+ +
Sbjct: 61 TAKDEEGLEIIRHSCAHLLGHAIKQLWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEAL 120
Query: 121 EKKMIELSQKNELFLKKNITRDKAIAYFDSVNEQFKKKIIN-LIPNNQEISLYSIGSFVD 179
EK+M EL++KN +KK ++ +A F + E +K I++ I ++ + LY +VD
Sbjct: 121 EKRMHELAEKNYDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDKPGLYFHEEYVD 180
Query: 180 LCRGPHVFSTGKLKIFKLIKLAGSYWKGNQKNKKLQRIYGTAWS 223
+CRGPHV + FKL+K AG+YW+G+ NK LQRIYGTAW+
Sbjct: 181 MCRGPHVPNMRFCHHFKLMKTAGAYWRGDSNNKMLQRIYGTAWA 224
>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase,
ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A
2zni_A
Length = 288
Score = 284 bits (729), Expect = 2e-90
Identities = 50/283 (17%), Positives = 96/283 (33%), Gaps = 44/283 (15%)
Query: 222 WSTKKDQE--IYLHMIKEAEKRDHRKLGKQLNLFHFQEESPGLIF--------------- 264
+ T++D + ++ ++ G+QL + S F
Sbjct: 2 FLTRRDPPLSSFWTKVQYQRLKELNASGEQLEMGFSDALSRDRAFQGIEHQLMSQGKRHL 61
Query: 265 ---WHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTG--HWENYKDNMFTT 319
K L E+++ + K G+ ++ TP ++ S K +F
Sbjct: 62 EQLRTVKHRPALLELEEKLAKALHQQGFVQVVTPTIITKSALAKMTIGEDHPLFSQVFWL 121
Query: 320 KSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFI 379
+ L+PM P ++ D P+R E G C+R ES G+ H F
Sbjct: 122 DGK---KCLRPMLAPNLYTLWRE-LERLWDKPIRIFEIGTCYRKESQGAQH----LNEFT 173
Query: 380 QDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLALRPNKRIGENNIWDLAENS 439
+ T + +++ + ++ V G ++ ++ + G+ D+ +
Sbjct: 174 MLNLTELGTPLEERHQRLE--DMARWVLEAAGIREFEL--VTESSVVYGDT--VDVMKGD 227
Query: 440 LREAISSSG-----VTWEEF-PGEGAFYGPKIEYHLKDSIGRS 476
L A + G WE F P G +G +E L G
Sbjct: 228 LELASGAMGPHFLDEKWEIFDPWVGLGFG--LERLLMIREGTQ 268
>2ife_A Protein (translation initiation factor IF3); gene regulation; NMR
{Escherichia coli} SCOP: d.68.1.1
Length = 100
Score = 166 bits (423), Expect = 7e-49
Identities = 66/99 (66%), Positives = 80/99 (80%), Gaps = 1/99 (1%)
Query: 686 HEVKMKQKVILIKEVKFRPCINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQDIG 745
K KQKVI +KE+KFRP +EGDY +KLR+LIRFLEEGDK KITLRFRGREM+HQ IG
Sbjct: 2 EFQKKKQKVIQVKEIKFRPGTDEGDYQVKLRSLIRFLEEGDKAKITLRFRGREMAHQQIG 61
Query: 746 FRVLERIKSDLELYSQIEQFP-KIEGRQMIMILSPRKKK 783
VL R+K DL+ + +E FP KIEGRQMIM+L+P+KK+
Sbjct: 62 MEVLNRVKDDLQELAVVESFPTKIEGRQMIMVLAPKKKQ 100
>1tig_A IF3-C, translation initiation factor 3; IF3 C-terminal domain,
ribosome binding factor; 2.00A {Geobacillus
stearothermophilus} SCOP: d.68.1.1
Length = 94
Score = 165 bits (420), Expect = 1e-48
Identities = 45/93 (48%), Positives = 66/93 (70%)
Query: 691 KQKVILIKEVKFRPCINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQDIGFRVLE 750
KQKVI +KEV+ P I E D+N KLRN +FLE+GDKVK T+RF+GR ++H++IG RVL+
Sbjct: 1 KQKVINVKEVRLSPTIEEHDFNTKLRNARKFLEKGDKVKATIRFKGRAITHKEIGQRVLD 60
Query: 751 RIKSDLELYSQIEQFPKIEGRQMIMILSPRKKK 783
R+ + +E PK++GR M ++L+P+
Sbjct: 61 RLSEACADIAVVETAPKMDGRNMFLVLAPKNDN 93
>1i96_V Translation initiation factor IF3; 30S ribosome; HET: WO2; 4.20A
{Thermus thermophilus} SCOP: d.68.1.1
Length = 89
Score = 161 bits (409), Expect = 3e-47
Identities = 40/87 (45%), Positives = 61/87 (70%)
Query: 697 IKEVKFRPCINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQDIGFRVLERIKSDL 756
+K +KFR I+E DY KL ++ RFL+EG KVK+T+ FRGRE++H ++G R+L R+ DL
Sbjct: 2 VKSIKFRVKIDEHDYQTKLGHIKRFLQEGHKVKVTIMFRGREVAHPELGERILNRVTEDL 61
Query: 757 ELYSQIEQFPKIEGRQMIMILSPRKKK 783
+ + +E P++ GR M M+L+P K
Sbjct: 62 KDLAVVEMKPEMLGRDMNMLLAPVKVS 88
>2crq_A Mitochondrial translational initiation factor 3; ribosome,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 112
Score = 140 bits (356), Expect = 1e-39
Identities = 17/101 (16%), Positives = 40/101 (39%), Gaps = 2/101 (1%)
Query: 685 AHEVKMKQKVILIKEVKFRPCINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQDI 744
+ K + KE+ F I + D + K + + +++E+ V++T++ R ++
Sbjct: 3 SGSSGPKTGPTMTKELVFSSNIGQHDLDTKSKQIQQWIEKKYHVQVTIKRRKDAEQSEEE 62
Query: 745 GFRVLERIKSDLELYSQIEQFPKI--EGRQMIMILSPRKKK 783
+ +I + + PK G + + KK
Sbjct: 63 TEEIFNQILQTMPDIATFSSRPKAIRGGTASMCVFRHLSKK 103
>2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A
{Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A
Length = 522
Score = 139 bits (351), Expect = 4e-35
Identities = 50/339 (14%), Positives = 104/339 (30%), Gaps = 61/339 (17%)
Query: 236 KEAEKRDHRKLGKQLNLFHFQEESPGLIFWHPKGYIILQEIKKYMRKIY-KYNGYKEIKT 294
+ K D + + + + S G P+ I + +K + + + GY+E+
Sbjct: 198 EHPFKEDPTQAMMKE-GWLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIF 256
Query: 295 PQMLDLSLWKKTGHWENYKDNMFTTKSENRF----------------------------- 325
P+++ +W K+GH + ++
Sbjct: 257 PKLVTWEVWMKSGHAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAE 316
Query: 326 --YALKPMNCPGHIQIYNSNFHSYRDLPLRFGEF-GQCHRNESSGSLHGMMRTRSFIQDD 382
+ CP ++P++ + G HR E SG +HG+ R F + +
Sbjct: 317 PIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYE-SGGIHGIERVDEFHRIE 375
Query: 383 GHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLALRPNKRIGENNIWDLAENSLRE 442
TK ++ ++ ++N+ I+ + A + + + LAE +
Sbjct: 376 IVWIGTKEEVLKCAEELHDRYMHIFNDIL--DIEWRKARVTPWFMAQEGLLGLAEENTVG 433
Query: 443 AISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTIQIDFSMPHRLGAEYIAENNT 502
Y + Y D +Q +I D P +
Sbjct: 434 TTD---------------YEACLPYRGPDGEWLEFQNVSINGDK-YPKGFNVKL------ 471
Query: 503 RKTPVMLHRAIIG-SLERFIAILVENYSGAMPLWLAPIQ 540
++ L G LER+ A+ + W +
Sbjct: 472 -QSGDELWSGCSGVGLERWAAVFLAQKGLDPANWPEEFR 509
>1tif_A IF3-N, translation initiation factor 3; IF3 N-terminal domain,
ribosome binding factor; 1.80A {Geobacillus
stearothermophilus} SCOP: d.15.8.1
Length = 78
Score = 107 bits (270), Expect = 2e-28
Identities = 33/74 (44%), Positives = 49/74 (66%)
Query: 616 KHRINREIIAPELRLSGIKNEPLGIVTLEKAFYLAEKENVDLVEIAPFAKPPVARLMDYG 675
IN +I A E+RL + LGI + ++A +A + N+DLV +AP AKPPV R+MDYG
Sbjct: 4 DFIINEQIRAREVRLIDQNGDQLGIKSKQEALEIAARRNLDLVLVAPNAKPPVCRIMDYG 63
Query: 676 KFKYREKKKAHEVK 689
KF++ ++KK E +
Sbjct: 64 KFRFEQQKKEKEAR 77
>1wwt_A Threonyl-tRNA synthetase, cytoplasmic; TGS domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, ligase; NMR {Homo sapiens}
Length = 88
Score = 81.9 bits (203), Expect = 3e-19
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 1 MISIQISNELKLQF-SKPITVLDVASHISVNLAKTAIVGKLNGVLVDLSYVIDHDVNLII 59
I + + + ++ S T +A IS LA ++ K+N V+ DL ++ D L +
Sbjct: 11 PIKVTLPDGKQVDAESWKTTPYQIACGISQGLADNTVIAKVNNVVWDLDRPLEEDCTLEL 70
Query: 60 ITEKDNIGLNIIRHSTA 76
+ +D + ++
Sbjct: 71 LKFEDEEAQAVYSGPSS 87
>1nj1_A PROR, proline-tRNA synthetase, proline--tRNA ligase;
protein-aminoacyladenylate complex class-II tRNA
synthetase,; HET: 5CA; 2.55A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: c.51.1.1
d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A*
Length = 501
Score = 84.8 bits (210), Expect = 3e-17
Identities = 81/439 (18%), Positives = 156/439 (35%), Gaps = 108/439 (24%)
Query: 206 KGNQKNKKLQRIYGTAWSTKKDQ---EIYLHMIKEAEKRDHRKLGKQLNLFHFQEESPGL 262
QK K +K E + ++++EAE D R G+
Sbjct: 19 SHMQKPIKKDPNRYH---GEKMTEFSEWFHNILEEAEIIDQR------------YPVKGM 63
Query: 263 IFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTG-HWENYKDNMFT-TK 320
W P G++I + K +R+I ++E+ P ++ K H + ++D ++ T
Sbjct: 64 HVWMPHGFMIRKNTLKILRRI-LDRDHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVTH 122
Query: 321 ---------------SENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNES 365
SE Y PM + S+ DLP+RF + R E
Sbjct: 123 GGLSKLQRKLALRPTSETVMY---PM--------FALWVRSHTDLPMRFYQVVNTFRYE- 170
Query: 366 SGSLHGMMRTRSFI-------QDDGH-IFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKI 417
TR I + H I T S+ + ++ E+ + +N G +
Sbjct: 171 ------TKHTRPLIRVREITTFKEAHTIHATASEAEEQVERAVEIYKEFFNSLGIPYLIT 224
Query: 418 KLALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSW 477
+ RP W++FPG + Y + + D G++
Sbjct: 225 R---RPP--------------------------WDKFPG--SEYTVAFDTLMPD--GKTL 251
Query: 478 QCGTIQIDFS-MPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILV----ENYSGAM 532
Q GT+ ++ + H+ G +R IA ++ + +
Sbjct: 252 QIGTVHNLGQTFARTFEIKFETPEGDHEYV---HQTCYGLSDRVIASVIAIHGDESGLCL 308
Query: 533 PLWLAPIQVMILNISKEQ-----IEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLE 587
P +A QV+I+ I ++ +E +++ + L++ FRV +D R+ + K +
Sbjct: 309 PPDVAAHQVVIVPIIFKKAAEEVMEACRELRSRLEAAGFRVHLDDRDIRAGRKYYEWEMR 368
Query: 588 KLPYIIIVGNKELCENKIT 606
+P + +G ++L +
Sbjct: 369 GVPLRVEIGPRDLEKGAAV 387
>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline
+ tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A
{Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1
PDB: 1h4q_A* 1h4t_A 1h4s_A
Length = 477
Score = 83.6 bits (207), Expect = 5e-17
Identities = 81/382 (21%), Positives = 144/382 (37%), Gaps = 91/382 (23%)
Query: 261 GLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTG-HWENYKDNMFT- 318
G I P GY I + I++ + +++K G++ P + +S +K H E + +
Sbjct: 35 GTIVVRPYGYAIWENIQQVLDRMFKETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVV 94
Query: 319 TK---------------SENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRN 363
T SE M ++ S+RDLP ++G R
Sbjct: 95 THAGGEELEEPLAVRPTSETVIG---YM--------WSKWIRSWRDLPQLLNQWGNVVRW 143
Query: 364 ESSGSLHGMMRTRSFI-------QDDGH-IFCTKSQIKNEIVVFNELVHKVYNEFGFKKI 415
E MRTR F+ Q+ GH T+ + + E+ + ++ E+ I
Sbjct: 144 E--------MRTRPFLRTSEFLWQE-GHTAHATREEAEEEVRRMLSIYARLAREYA--AI 192
Query: 416 KIKLALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGR 475
+ L+ E+F G A Y IE +KD G+
Sbjct: 193 PVIEGLKTE--------------------------KEKFAG--AVYTTTIEALMKD--GK 222
Query: 476 SWQCGTIQIDF-SMPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILV----ENYSG 530
+ Q GT + ++ + K G RFI ++ ++
Sbjct: 223 ALQAGTSHYLGENFARAFDIKFQDRDLQVKYVHTTS---WGLSWRFIGAIIMTHGDDRGL 279
Query: 531 AMPLWLAPIQVMILNISKEQ-----IEYAKKVFNFLKSKKFRVEVDLRNEKIA-YKIRLH 584
+P LAPIQV+I+ I K++ +E A+ + L ++ RV +D R++ YK
Sbjct: 280 VLPPRLAPIQVVIVPIYKDESRERVLEAAQGLRQALLAQGLRVHLDDRDQHTPGYKFHEW 339
Query: 585 SLEKLPYIIIVGNKELCENKIT 606
L+ +P+ + +G K+L +
Sbjct: 340 ELKGVPFRVELGPKDLEGGQAV 361
>1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA
synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP:
c.51.1.1 d.68.5.1 d.104.1.1
Length = 459
Score = 79.3 bits (196), Expect = 1e-15
Identities = 75/375 (20%), Positives = 139/375 (37%), Gaps = 78/375 (20%)
Query: 261 GLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTG-HWENYKDNMFT- 318
G + P G+ I + + +R + +G+ E P ++ L K H + ++D ++
Sbjct: 29 GCGVYLPYGFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWV 88
Query: 319 TK---------------SENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRN 363
T SE Y M + DLP++ + R
Sbjct: 89 THGGKTQLDVKLALRPTSETPIY---YM--------MKLWVKVHTDLPIKIYQIVNTFRY 137
Query: 364 ESSGSLHGMMRTRSF-IQDDGH-IFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLAL 421
E+ + ++R R + H TK + +N++ + K ++ G + K
Sbjct: 138 ETKHT-RPLIRLREIMTFKEAHTAHSTKEEAENQVKEAISIYKKFFDTLGIPYLISK--- 193
Query: 422 RPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGT 481
RP W++FPG A Y + D GR+ Q T
Sbjct: 194 RPE--------------------------WDKFPG--AEYTMAFDTIFPD--GRTMQIAT 223
Query: 482 IQIDF-SMPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILV----ENYSGAMPLWL 536
+ + + + ++ G +R IA ++ + +P +
Sbjct: 224 VHNLGQNFSKTFEIIFETPTGDKDYA---YQTCYGISDRVIASIIAIHGDEKGLILPPIV 280
Query: 537 APIQVMILNISKEQ-----IEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLEKLPY 591
APIQV+I+ + + +E AK+++ LK K FRV +D R+ + K ++ +P
Sbjct: 281 APIQVVIVPLIFKGKEDIVMEKAKEIYEKLKGK-FRVHIDDRDIRPGRKFNDWEIKGVPL 339
Query: 592 IIIVGNKELCENKIT 606
I VG K++ KIT
Sbjct: 340 RIEVGPKDIENKKIT 354
>3ial_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, prors, cysrs, RS, translation, ATP-binding,
nucleotide-binding; HET: PR8; 2.20A {Giardia lamblia
atcc 50803}
Length = 518
Score = 70.6 bits (173), Expect = 8e-13
Identities = 74/421 (17%), Positives = 146/421 (34%), Gaps = 83/421 (19%)
Query: 261 GLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTG-HWENYKDNMFT- 318
G + + P G+ + I + + Y G +I P ++ S KK H + ++ F
Sbjct: 46 GCVVFRPYGFFMENAIMRLCEEEYAKVGISQILFPTVIPESFLKKESDHIKGFEAECFWV 105
Query: 319 TK---------------SENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRN 363
K SE Y M ++ SY+DLPL+ + R+
Sbjct: 106 EKGGLQPLEERLALRPTSETAIY---SM--------FSKWVRSYKDLPLKIHQTCTIFRH 154
Query: 364 ESSGSLHGMMRTRSFIQDDGH-IFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLALR 422
E+ + ++R R ++ H T +++ + +++ ++++ L
Sbjct: 155 ETKNT-KPLIRVREIHWNEAHCCHATAEDAVSQLSDYWKVIDTIFSDE--------LCF- 204
Query: 423 PNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTI 482
+ V W+ FPG A Y + + GR Q I
Sbjct: 205 -------------------KGQKLRRVCWDRFPG--ADYSEVSDVVMPC--GRVLQTAGI 241
Query: 483 QIDFS-MPHRLGAEYIAENNTRKTPVMLHRAIIGSLERFIAILV----ENYSGAMPLWLA 537
Y + N P + G R +A + ++ +P +A
Sbjct: 242 HNLGQRFSSTFDILYANKANESVHP---YLTCAGISTRVLACALSIHGDSGGLVLPPLIA 298
Query: 538 PIQVMILNI---------SKEQI-EYAKKVFNFLKSKK-FRVEVDLR-NEKIAYKIRLHS 585
PI V+I+ I S +Q+ ++ + LKSK RV +D ++ + K+ +
Sbjct: 299 PIHVVIIPIGCGKKNNQESDQQVLGKVNEIADTLKSKLGLRVSIDDDFSKSMGDKLYYYE 358
Query: 586 LEKLPYIIIVGNKELCENKIT-EREIIIDRPKHRINREIIAPELRLSGIKNEPLGIVTLE 644
L+ +P I VG ++L + + K I + + +E + ++
Sbjct: 359 LKGVPLRIEVGQRDLANGQCIVVPRDVGKDQKRVIPITEVMKVSSHTTENHELVVKNVIK 418
Query: 645 K 645
Sbjct: 419 D 419
>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 = 67.6 bits (164), Expect = 1e-11
Identities = 104/668 (15%), Positives = 206/668 (30%), Gaps = 173/668 (25%)
Query: 46 DLSYVIDHDVNLIIITEKDNIGLNIIRHSTAHLLAYAVKNLFPDSQ-----IAIGPVIEN 100
D V D +++ E D+I I A + Q + V+
Sbjct: 34 DCKDVQDMPKSILSKEEIDHI----IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI 89
Query: 101 GFYYDFLYKRSFTKEDLI--LIEKKMIE----LSQKNELFLKKNITRDKAIAYFDSVNEQ 154
Y FL E ++ + IE L N++F K N++R + +
Sbjct: 90 N--YKFLMSP-IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY-------LK 139
Query: 155 FKKKIINLIPNNQEISLYSIGSF------VDLCRGPHVFSTGKLKIFKLIKLAGSYW--K 206
++ ++ L P + + + + +D+C V KIF W
Sbjct: 140 LRQALLELRP-AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF---------WLNL 189
Query: 207 GNQKNKKLQRIYGTAWSTKKDQEIYLHMIKEAEKRDHRKLGKQLNLFHFQEESPGLIFW- 265
N + + + Q++ + R +L + Q E L+
Sbjct: 190 KNCNSPETV--------LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 266 -HPKGYIILQEIKKYMRKIYKY--NGYKEIKT---PQMLDLSLWKKTGHWENYKDNMFTT 319
+ ++L ++ K + K + T Q+ D T H +M T
Sbjct: 242 PYENCLLVLLNVQN--AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 320 KSENRFYALKPMNCPGHIQIYNSNFHSYRDL--------PLRFGEFGQCHRNESSGSLHG 371
E + LK ++C +DL P R + S+
Sbjct: 300 PDEVKSLLLKYLDC------------RPQDLPREVLTTNPRRLSIIAE--------SIRD 339
Query: 372 MMRTRSFIQDDGHIFCTK--SQIKNEIVVFNELVHK-VYNEFG-FKK-IKIKLALRPNKR 426
+ T + H+ C K + I++ + V ++ +++ F I P
Sbjct: 340 GLATWDNWK---HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI-----PTIL 391
Query: 427 IGENNIW-DLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTIQID 485
+ IW D+ ++ + ++ + H + + + TI I
Sbjct: 392 LSL--IWFDVIKSDVMVVVN--------------------KLHKYSLVEKQPKESTISI- 428
Query: 486 FSMPHRLGAEYIAENNTRKTPVMLHRAIIGS--------LERFIAILVENYSGAMPLWLA 537
+ E + LHR+I+ + I ++ Y + +
Sbjct: 429 ----PSIYLELKVKLENEYA---LHRSIVDHYNIPKTFDSDDLIPPYLDQY------FYS 475
Query: 538 PIQVMILNISK-EQIEYAKKV---FNFLKSKKFRVEVDLRNEKIAYKIR------LHSLE 587
I + NI E++ + V F FL+ K +R++ A+ L L+
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQK-------IRHDSTAWNASGSILNTLQQLK 528
Query: 588 K-LPYIIIVGNKELCENKITEREIIIDRPKHRINREIIAPELRL--SGIKNEPLGIVTLE 644
PYI N E + + + + + I + L + E I E
Sbjct: 529 FYKPYICD--NDPKYERLVNAILDFLPKIEENL---ICSKYTDLLRIALMAEDEAIF--E 581
Query: 645 KAFYLAEK 652
+A ++
Sbjct: 582 EAHKQVQR 589
Score = 45.2 bits (106), Expect = 8e-05
Identities = 64/492 (13%), Positives = 142/492 (28%), Gaps = 154/492 (31%)
Query: 345 HSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQD-DGHIFCTKSQIKNEIVVFNELV 403
+ Y+D+ F + +F+ + D C Q + ++ E +
Sbjct: 16 YQYKDILSVFED--------------------AFVDNFD----CKDVQDMPKSILSKEEI 51
Query: 404 HKVYNEFGFKKIKIKLALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGP 463
+ + G ++ + E + ++F E
Sbjct: 52 DHIIMS-------------KDAVSGTLRLFWTLLSKQEEMV-------QKFVEEVL---- 87
Query: 464 KIEYHLKDSIGRSWQCGTIQIDFSMPHRLGAEYIAENN--------------TRKTPVML 509
+I Y + I+ + P + YI + + +R P +
Sbjct: 88 RINY--------KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK 139
Query: 510 HRAIIGSLERFIAILVENYSGAMPLWLAPIQVMILNISKEQIEYAKKVF--NFLKSKKFR 567
R + L +L++ G+ W+A + + K Q + K+F N
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVA---LDVCLSYKVQCKMDFKIFWLNL--KNCNS 194
Query: 568 VEVDLRN-EKIAYKI------RLHSLEKLPYIIIVGNKELCENKITERE-----IIID-- 613
E L +K+ Y+I R + I EL + + +++
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL-RRLLKSKPYENCLLVLLNV 253
Query: 614 -RPKH--------RI-----NREIIAPELRLSGIKNEPLGIVTLEKAFYLAEKENV---- 655
K +I +++ LS + + E +++
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTD---FLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310
Query: 656 ------DL----VEIAPFAKPPVARLM-------DYGKFKYREKKKAHEVKMKQKVILIK 698
DL + P +A + D +K+ K + ++ + +++
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN--WKHVNCDKLTTI-IESSLNVLE 367
Query: 699 EVKFRPCINEGDYNIKLRNLIRFLEEGDKVKI---TLRFRGREMSHQDIGFRVLERIKSD 755
++R + L F I L ++ D+ + +
Sbjct: 368 PAEYRKM-----F----DRLSVFPPS---AHIPTILLSLIWFDVIKSDV-----MVVVNK 410
Query: 756 LELYSQIEQFPK 767
L YS +E+ PK
Sbjct: 411 LHKYSLVEKQPK 422
Score = 41.4 bits (96), Expect = 0.001
Identities = 66/383 (17%), Positives = 115/383 (30%), Gaps = 118/383 (30%)
Query: 4 IQISNELKLQFSKPITVL-DVASHISVNLAKTAIVGKLNGVLVDLSY-----VIDHDV-- 55
+++ +L Q T D +S+I + + +I +L +L Y V+ +V
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRI--HSIQAELRRLLKSKPYENCLLVLL-NVQN 255
Query: 56 -------NL---IIITEKDN-----IGLNIIRHS-------------TAHLLAYAVKNLF 87
NL I++T + + H LL +
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
Query: 88 PD--SQIA---------IGPVIENGFY-YDFLYKRSFTKEDLILIEKKMIELSQKNELFL 135
D ++ I I +G +D +K + +IE S L
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDN-WKHVNCDK-----LTTIIESSLNV---L 366
Query: 136 KKNITRD--KAIAYF------------------------DSVNEQFKKKIINLIPNNQEI 169
+ R ++ F VN+ K ++ P I
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 170 SLYSIGSFVDLCRGPHVFSTGKLKIFKLI----KLAGSYWKGNQKNKKLQRIYGTAWSTK 225
S+ SI +++L K+K+ + Y K
Sbjct: 427 SIPSI--YLEL----------KVKLENEYALHRSIVDHY----NIPKTFD--SDDLIPPY 468
Query: 226 KDQEIYLHM---IKEAEKRDHRKLGKQLNL-FHFQE---ESPGLIFWHPKGYII--LQEI 276
DQ Y H+ +K E + L + + L F F E W+ G I+ LQ++
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA-WNASGSILNTLQQL 527
Query: 277 KKYMRKIYKYNGYKEIKTPQMLD 299
K Y I + E +LD
Sbjct: 528 KFYKPYICDNDPKYERLVNAILD 550
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 61.8 bits (150), Expect = 2e-10
Identities = 30/180 (16%), Positives = 61/180 (33%), Gaps = 23/180 (12%)
Query: 255 FQEESPGLIFWHPKG---------YIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKK 305
F+E L+ K L ++++ + + + G+ EIK+P ++ L ++
Sbjct: 52 FRELESELLSRRKKDLQQIYAEERENYLGKLEREITRFFVDRGFLEIKSPILIPLEYIER 111
Query: 306 TG--HWENYKDNMFTTKSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRN 363
G + +F ++ + L+PM P + P++ E G C+R
Sbjct: 112 MGIDNDTELSKQIF---RVDKNFCLRPMLTPNLYNYLRKLDRAL-PDPIKIFEIGPCYRK 167
Query: 364 ESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKLALRP 423
ES G H F + +N + + N G + +
Sbjct: 168 ESDGKEH----LEEFTMLVFWQMGSGCTRENLESIITDF----LNHLGIDFKIVGDSCMV 219
>2i4l_A Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseudomonas palustris}
PDB: 2i4m_A* 2i4n_A* 2i4o_A*
Length = 458
Score = 62.7 bits (153), Expect = 2e-10
Identities = 72/410 (17%), Positives = 135/410 (32%), Gaps = 65/410 (15%)
Query: 258 ESPGLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTGHWENYKDNMF 317
E+ G+ W P G+ +L++I++ +R+ G E+ P + LW+++G ++ Y M
Sbjct: 55 EAAGIYAWLPLGHRVLKKIEQIVREEQNRAGAIELLMPTLQLADLWRESGRYDAYGPEML 114
Query: 318 TTK-SENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTR 376
R P N +I+ + SY+ LPL R+E G+MR R
Sbjct: 115 RIADRHKRELLYGPTNEEMITEIFRAYIKSYKSLPLNLYHIQWKFRDEQR-PRFGVMRGR 173
Query: 377 SFIQDDGHIFC-TKSQIKNEIVVFNELVHKVYNEFGFKKIKIK----------------L 419
F+ D + F ++ + + + G K I ++ L
Sbjct: 174 EFLMKDAYSFDVDEAGARKSYNKMFVAYLRTFARMGLKAIPMRAETGPIGGDLSHEFIVL 233
Query: 420 ALRPNKRIGENNI----------WDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHL 469
A GE+ + ++ W Y
Sbjct: 234 A-----ETGESGVYIDRDVLNLPVPDENVDYDGDLTPIIKQWTSVYAATEDVHEPARYES 288
Query: 470 KDSIGRSWQCGTIQID----FSMP--HRLGAEYIAENNTRKTPVMLHRAIIGS----LER 519
+ I++ F + A + T GS + R
Sbjct: 289 EVPEANRLNTRGIEVGQIFYFGTKYSDSMKANVTGPDGTDAPIHG------GSYGVGVSR 342
Query: 520 FIAILVE-NYSGAMPLWLAPI---QVMILNI---SKEQIEYAKKVFNFLKSKKFRVEVDL 572
+ ++E + +W + +V ILN+ +++ L +K V D
Sbjct: 343 LLGAIIEACHDDNGIIWPEAVAPFRVTILNLKQGDAATDAACDQLYRELSAKGVDVLYDD 402
Query: 573 RNEKIAYKIRLHSLEKLPYIIIVGNKELCENKITEREIIIDRPKHRINRE 622
+++ K L +P+ I VG + L E K+ E+ K R +
Sbjct: 403 TDQRAGAKFATADLIGIPWQIHVGPRGLAEGKV---EL-----KRRSDGA 444
>2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- T synthetase, editing,
translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB:
2j3m_A*
Length = 572
Score = 55.6 bits (135), Expect = 4e-08
Identities = 33/141 (23%), Positives = 57/141 (40%), Gaps = 40/141 (28%)
Query: 259 SPGLIFWHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTGHWENYKDNMFT 318
+ G+ + P +L+++K MR+ ++ E+ P +L LWK++G +E Y N++
Sbjct: 36 AAGIYSYLPLANRVLEKLKTIMREEFEKIDAVEMLMPALLPAELWKESGRYETYGPNLYR 95
Query: 319 TKS-ENRFYALKPMNCPGH----IQIYNSNFHSYRDLPL---------------RFGEFG 358
K +R Y L P H ++ +SY+ LPL R
Sbjct: 96 LKDRNDRDYILGPT----HEETFTELIRDEINSYKRLPLNLYQIQTKYRDEKRSRS---- 147
Query: 359 QCHRNESSGSLHGMMRTRSFI 379
G++R R FI
Sbjct: 148 ------------GLLRGREFI 156
Score = 38.7 bits (91), Expect = 0.008
Identities = 32/142 (22%), Positives = 59/142 (41%), Gaps = 26/142 (18%)
Query: 492 LGAEYIAENNTRKTPVMLHRAIIGS----LERFIAILVENYS---G-AMPLWLAPIQVMI 543
+GA + EN K+ +M G + R ++ +VE + G P +AP + +
Sbjct: 422 MGATVLDENGREKSVIM------GCYGIGVSRLLSAIVEQNADERGINWPTGIAPFDLHV 475
Query: 544 LNI---SKEQIEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIRLHSLEKLPYIIIVGNKEL 600
+ + + Q + +++V + + V VD RNE+ K L P I VG K +
Sbjct: 476 VQMNVKDEYQTKLSQEVEAMMTEAGYEVLVDDRNERAGVKFADADLIGCPIRITVGKKAV 535
Query: 601 CENKITEREIIIDRPKHRINRE 622
+ + E+ K + E
Sbjct: 536 -DGVV---EV-----KIKRTGE 548
>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 = 54.7 bits (131), Expect = 1e-07
Identities = 47/263 (17%), Positives = 74/263 (28%), Gaps = 98/263 (37%)
Query: 209 QKNKKLQRIYGTAWSTKKDQEIYLHMIKEA---EKRDHRKLGKQLNLFHFQEESPGLIFW 265
N I+ K+ +E Y MI E K K+ K++N E S F
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEIN-----EHSTSYTFR 1720
Query: 266 HPKGYIILQEIKKYMRKIYKYNGYKEIKT-PQMLDLS-----LWKKTGHWENYKDNMFTT 319
KG + + T P + + K G
Sbjct: 1721 SEKGLLSATQF-----------------TQPALTLMEKAAFEDLKSKGL----------- 1752
Query: 320 KSENRFYALKPMNCPGHIQIYNS--------------NFHSYRDLPLRF-GEFGQ--CHR 362
+ +A GH S + S ++ + + G Q R
Sbjct: 1753 IPADATFA-------GH-----SLGEYAALASLADVMSIESLVEV-VFYRGMTMQVAVPR 1799
Query: 363 NESSGSLHGMMRTR------SFIQDDGHIFCTKSQIKN----EIVVFN------------ 400
+E S +GM+ SF Q+ + + EIV +N
Sbjct: 1800 DELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDL 1859
Query: 401 ---ELVHKVYNEFGFKKIKI-KL 419
+ V V N +KI I +L
Sbjct: 1860 RALDTVTNVLNFIKLQKIDIIEL 1882
Score = 48.9 bits (116), Expect = 7e-06
Identities = 95/621 (15%), Positives = 167/621 (26%), Gaps = 251/621 (40%)
Query: 110 RSFT-----KEDLILIEKKM-IELSQKNELFLKKNITRDKAIAYFD---SVNE---QFKK 157
R T E ++L+ SQ E F K + A D + E +F
Sbjct: 7 RPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 158 KIINLIPNNQ-----EISLYSIGSFVD--LCRG--PHVFSTGKLKIFKLIKLAGSYWKGN 208
+ +L+ ++ ++ + F + L G H KL
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EGNDIHAL---------AAKLLQENDTTL 116
Query: 209 QKNKKLQRIYGTAWSTKKDQEIYLHMIKEAEKRDHRKLGKQLN--LF-HFQEESPGL--I 263
K K+L + Y A R K+ N LF E + L I
Sbjct: 117 VKTKELIKNY------------I-----TARIMAKRPFDKKSNSALFRAVGEGNAQLVAI 159
Query: 264 FWHPKG-------YIILQEIKKYMRKIYK-YNGYKE--IKT------------------- 294
F G Y +E +R +Y+ Y+ IK
Sbjct: 160 F----GGQGNTDDY--FEE----LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 295 PQMLDLSLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRF 354
Q L++ W + + + + P++CP I + Y
Sbjct: 210 TQGLNILEWLENP----------SNTPDKDYLLSIPISCPL-IGVIQ--LAHYVVT---- 252
Query: 355 GEFGQCHRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKK 414
G G +R+ + +V
Sbjct: 253 -----AK---LLGFTPGELRSY---------LKGATGHSQGLVT---------------- 279
Query: 415 IKIKLALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPG------EGAFYGPKIEYH 468
A+ AI+ + +WE F F+
Sbjct: 280 -----AV---------------------AIAETD-SWESFFVSVRKAITVLFF------- 305
Query: 469 LKDSIG-RSWQCGTIQIDF---SMPHRLGAEYIAENNTRKTPVMLHRAIIG----SLERF 520
IG R ++ + S+P + + + N +P ML +I ++ +
Sbjct: 306 ----IGVRCYEA------YPNTSLPPSILEDSLENNEGVPSP-ML--SISNLTQEQVQDY 352
Query: 521 I-------------AI-LV---ENY--SGAMPLWLAPIQVMILNIS----KEQ--IEYA- 554
+ I LV +N SG P L + + + +Q I ++
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGP-PQSLYGLNLTLRKAKAPSGLDQSRIPFSE 411
Query: 555 -KKVF--NFL-----------KSKKFRVEVDLRNEKIAYKIRLHSLEKLPYIIIVGNKEL 600
K F FL + DL +++ + ++P +L
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN--AKDI-QIPVYDTFDGSDL 468
Query: 601 CENK--ITER--EIIIDRPKH 617
I+ER + II P
Sbjct: 469 RVLSGSISERIVDCIIRLPVK 489
Score = 45.4 bits (107), Expect = 9e-05
Identities = 56/343 (16%), Positives = 101/343 (29%), Gaps = 133/343 (38%)
Query: 272 ILQEIKKYMRKIYKYNGYKEIKT-PQMLDLSLWKKTGHW--ENYKDNMFTTKSENRFYAL 328
+ + + Y ++ + P L + + G ENY +F T + +
Sbjct: 1645 VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 329 KPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQDDGHIFCT 388
K F E NE S S +F + G + T
Sbjct: 1705 KI-----------------------FKEI-----NEHSTSY-------TFRSEKGLLSAT 1729
Query: 389 K-SQIKNEIVVFNELVHKVYNEFGFKKIKIKLA---LRPNKRIGENNIWDLAENSLREAI 444
+ +Q + + + + G A L GE A+
Sbjct: 1730 QFTQPA--LTLMEKAAFEDLKSKGLIPADATFAGHSL------GEYA-----------AL 1770
Query: 445 SS-SGVTWEEFPGEGA----FY-GPKIEYHL-KDSIGRSWQCGTIQIDFSM----PHRLG 493
+S + V E FY G ++ + +D +GRS ++ M P R+
Sbjct: 1771 ASLADV----MSIESLVEVVFYRGMTMQVAVPRDELGRS--------NYGMIAINPGRVA 1818
Query: 494 A-------EYIAENNTRKTPVMLHRAIIGSLERFIAILVENYSGAMPLWLAPIQVMILNI 546
A +Y+ E ++T +E I NY N+
Sbjct: 1819 ASFSQEALQYVVERVGKRTG--------WLVE--IV----NY----------------NV 1848
Query: 547 SKEQI---------EYAKKVFNFLKSKK---FRVEVDLRNEKI 577
+Q + V NF+K +K ++ L E++
Sbjct: 1849 ENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 31.6 bits (71), Expect = 1.4
Identities = 89/593 (15%), Positives = 161/593 (27%), Gaps = 233/593 (39%)
Query: 3 SIQIS-----------NELKLQFSK--------------PITVLDVAS----HISVNLAK 33
S++ ++L+ QF+K P T ++ ++S +
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 34 TAIVGKLNGVLVDL------SYVIDHDVNLII--ITEKDNIGL----NIIRHSTAHLLAY 81
+ VG+ + VL Y+ +D++ + + ++++ L +I+ ++ A
Sbjct: 75 SK-VGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK---NYITAR 130
Query: 82 AVKN----------LFPDSQ------IAI----GPVIENGFYYD---FLYKRSFT-KEDL 117
+ LF +AI G + Y++ LY+ DL
Sbjct: 131 IMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD---YFEELRDLYQTYHVLVGDL 187
Query: 118 I-LIEKKMIELSQ---KNELFLKKNI-------TRDKA--IAYFDSVNEQFKKKIINLIP 164
I + + EL + E + + Y S+ P
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC--------P 239
Query: 165 NNQEISLYSIGSFVDLCR--GPHVFSTGKL-KIFK-------------LIKLAGSYWKGN 208
I + + +V + G F+ G+L K I S W+
Sbjct: 240 ---LIGVIQLAHYVVTAKLLG---FTPGELRSYLKGATGHSQGLVTAVAIAETDS-WESF 292
Query: 209 QKNKKL------------QRIYGTAWSTKKDQEIYL--------HM--IKEAEKRDHRKL 246
+ + Y E L M I + +
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 247 GKQLNLFHFQEESPGLIFWH--PKGYII------LQEIKKYMRKIYKYNGYKEIKTPQML 298
+ N H I K ++ L + +RK +G + + P
Sbjct: 353 VNKTNS-HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP--- 408
Query: 299 DLSLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFG 358
S K NRF L P+ P FHS L
Sbjct: 409 -FSERKLKFS--------------NRF--L-PVASP---------FHS----HL------ 431
Query: 359 QCHRNESSGSLHGMMRTRSFIQDDGHIFCTKSQIKNEIVVFN--ELVHKVYNEF-GFKKI 415
++ I D + V FN ++ VY+ F G
Sbjct: 432 -------------LVPASDLINKD---------LVKNNVSFNAKDIQIPVYDTFDG---- 465
Query: 416 KIKLALRPNKRIGENNIWDLAENSLREAISSSGVTWEEFPGEGA-----FYGP 463
+ R+ +I + + + I V WE A F GP
Sbjct: 466 -------SDLRVLSGSISE----RIVDCIIRLPVKWETTTQFKATHILDF-GP 506
Score = 31.2 bits (70), Expect = 2.0
Identities = 36/225 (16%), Positives = 65/225 (28%), Gaps = 80/225 (35%)
Query: 480 GTIQIDFSMPHRLG-----------------AEYIAENNTRKTPVMLHRAIIGSLERFIA 522
G+++ +P E A ++ TP L +G +++
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG----YVS 69
Query: 523 ILVENYSGAMPLWLAPIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLRNEKIAYKIR 582
LVE + + + ++ + L I
Sbjct: 70 SLVEP-----------------SKVGQFDQVLNLCLTEFEN-CY-----LEGNDI----- 101
Query: 583 LHSL-EKLPYI---IIVGNKELCENKITEREIIIDRPKHRINREIIAPELRLSGIKNEPL 638
H+L KL +V KEL +N IT R I+ RP + + L +
Sbjct: 102 -HALAAKLLQENDTTLVKTKELIKNYITAR-IMAKRPFDKKSN----SAL-FRAVGEGNA 154
Query: 639 GIVTLEKAF--------YLAEKENVDLVEIAPFA--KPPVARLMD 673
+V + F Y E L ++ + V L+
Sbjct: 155 QLVAI---FGGQGNTDDYFEE-----LRDL--YQTYHVLVGDLIK 189
>3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase,
zinc ION, amino acid:[carrier protein] ligase; HET: AMP;
2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A*
3pzc_A*
Length = 346
Score = 51.5 bits (123), Expect = 5e-07
Identities = 23/212 (10%), Positives = 61/212 (28%), Gaps = 38/212 (17%)
Query: 233 HMIKEAEKRDHRKLGKQLNLF----HFQEESPGLIFWHPKGYIILQEIKKYMRKIYKYNG 288
+ ++ L+ S G+ I++ + + ++ G
Sbjct: 23 IAVLPNSPDTAPQIADPLDHLADKLFHSMGSDGVYARTALYESIVERLAALITS-HREAG 81
Query: 289 YKEIKTPQMLDLSLWKKTGHWENYKDNMFTT------------------KSENRFYALKP 330
+ ++ P ++ + +K+G+ +++ + + + +L P
Sbjct: 82 TEALRFPPVMSRAQLEKSGYLKSFPNLLGCVCGLHGTEREINAAVSRFDAGGDWTTSLSP 141
Query: 331 MNCPGHIQIYNSNFHSYR---------DLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQD 381
+ + + Y LRF C R E S + R +SF
Sbjct: 142 ---ADLVLSPAACYPVYPIAASRGPLPKGGLRFDVAADCFRREPS---KHLDRLQSFRMR 195
Query: 382 DGHIFCTKSQIKNEIVVFNELVHKVYNEFGFK 413
+ T + + + + + G
Sbjct: 196 EYVCIGTPDDVSDFRERWMVRAQAIARDLGLT 227
>1v95_A Nuclear receptor coactivator 5; coactivator independent of AF-2
function (CIA), structural genomics, riken structural
genomics/proteomics initiative; NMR {Homo sapiens} SCOP:
c.51.1.1
Length = 130
Score = 47.4 bits (112), Expect = 1e-06
Identities = 21/135 (15%), Positives = 51/135 (37%), Gaps = 14/135 (10%)
Query: 537 APIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLRNEK--IAYKIRLHSLEKLPYIII 594
P+ ++ ++K+ +YA+ V ++ V++ N + ++ + S P+ I+
Sbjct: 7 GPVDCSVIVVNKQTKDYAESVGRKVRDLGMVVDLIFLNTEVSLSQALEDVSRGGSPFAIV 66
Query: 595 VGNKELCENKITEREIIIDRPKHRINREIIAPELRLSGIKNEPLGIVTLEKAFYLAEKEN 654
+ + T + I + +R + + + + +V Y E
Sbjct: 67 ITQQHQIHRSCT---VNIMFGTPQEHRNM---------PQADAMVLVARNYERYKNECRE 114
Query: 655 VDLVEIAPFAKPPVA 669
+ EIA A P +
Sbjct: 115 KEREEIARQASGPSS 129
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural G medical structural genomics of
pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi}
PDB: 3hrk_A* 3hri_A
Length = 456
Score = 48.4 bits (116), Expect = 7e-06
Identities = 12/119 (10%), Positives = 38/119 (31%), Gaps = 15/119 (12%)
Query: 514 IGSLERFIAILVENYSGAMPLWLAPIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLR 573
G + +L E +P + +++ + +A V L+ ++ L
Sbjct: 340 FG-DCVIVELLQEK--RLLPDIPHVVDDVVIPFDESMRPHALAVLRRLRDAGRSADIILD 396
Query: 574 NEKIAYKIRLHSLEKL--PYIIIVGNKELCENKIT--------EREIIIDRPKHRINRE 622
+K+ + +++ ++V +E ++ +E + +
Sbjct: 397 KKKV--VQAFNYADRVGAVRAVLVAPEEWERGEVQVKMLREGTGKEEGGAERGFAVPLD 453
Score = 31.5 bits (72), Expect = 1.2
Identities = 29/171 (16%), Positives = 49/171 (28%), Gaps = 39/171 (22%)
Query: 265 WHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLW-KKTGHWENYKDNMFT-TKSE 322
+ P+ + + K G++E P + L+ +K G E + MF
Sbjct: 38 FPPEAMRCRRHLFDVFHATAKTFGFEEYDAPVLESEELYIRKAG--EEITEQMFNFITKG 95
Query: 323 NRFYALKP-----------MNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNE--SSGSL 369
AL+P + P ++ QC R E + G
Sbjct: 96 GHRVALRPEMTPSLARLLLGKGRSLLL------------PAKWYSIPQCWRYEAITRG-- 141
Query: 370 HGMMRTRSFIQDDGHIFCTKS-QIKNEIVVFNELVHKVYNEFGFKKIKIKL 419
R R Q + I KS + E+V G + +
Sbjct: 142 ----RRREHYQWNMDIVGVKSVSAEVELVC---AACWAMRSLGLSSKDVGI 185
>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase,
structural genomics, PSI- nostoc, protein structure
initiative; 2.70A {Nostoc SP}
Length = 465
Score = 46.9 bits (112), Expect = 2e-05
Identities = 22/117 (18%), Positives = 51/117 (43%), Gaps = 5/117 (4%)
Query: 514 IGSLERFIAILVENYSGAMPLWL-APIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDL 572
IG L R I+ L++ G + P QV+++N+ E + KV L+ V +
Sbjct: 349 IG-LTRLISRLLKA--GILNTLPPTPAQVVVVNMQDELMPTYLKVSQQLRQAGLNVITNF 405
Query: 573 RNEKIAYKIRLHSLEKLPYIIIVGNKELCENKITEREIIIDRPKHRINREIIAPELR 629
++ + + + + + +I+G E K + ++ + + + +A E++
Sbjct: 406 EKRQLGKQFQAADKQGIRFCVIIGADEAAAQKSSLKD-LQSGEQVEVALADLAEEIK 461
Score = 28.8 bits (65), Expect = 8.5
Identities = 7/33 (21%), Positives = 17/33 (51%)
Query: 265 WHPKGYIILQEIKKYMRKIYKYNGYKEIKTPQM 297
+ P + + +R++Y+ G+ I+TP +
Sbjct: 21 FLPSEKRLELYLLDTIRRVYESYGFTPIETPAV 53
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 45.1 bits (105), Expect = 8e-05
Identities = 23/132 (17%), Positives = 47/132 (35%), Gaps = 8/132 (6%)
Query: 73 HSTAHLLAYAVKNLFPDSQIAIGPVIE-NGFYYDFLYKRSFTKEDLILIEKKMIELSQKN 131
H+ H+L A+ + G + + D + ++E+L IE + ++
Sbjct: 613 HTGTHVLMGALVRVLGRHVWQAGSQLTTDWARLDISHYXRISEEELXEIEMLANRIVMED 672
Query: 132 ELFLKKNITRDKAIAYFDSVNEQFKKKIINLIPNNQEISLYSIGSF-VDLCRGPHVFSTG 190
+ + R A + Q +EI + I + V C G H+ STG
Sbjct: 673 RXVTWEWLPRTTAEQXYGFRLYQGGVVP------GREIRVVXIEDWDVQACGGTHLPSTG 726
Query: 191 KLKIFKLIKLAG 202
+ +++
Sbjct: 727 LVGPIXILRTER 738
>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural
genomics/proteomics initiative RSGI, structural
genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2
PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A
Length = 157
Score = 41.9 bits (99), Expect = 1e-04
Identities = 25/139 (17%), Positives = 51/139 (36%), Gaps = 18/139 (12%)
Query: 70 IIRHSTA-HLLAYAVKNLFPD--SQIAIGPVIENGFYYDFLYKRSFTKEDLILIEKKMIE 126
+R +A H++ AV + V N + R + E++ IE+ E
Sbjct: 5 EVRTHSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFDRKPSDEEIREIERLANE 64
Query: 127 LSQKNELFLKKNITRDKAIA-----YFDSVNEQFKKKIINLIPNNQEISLYSIGSF-VDL 180
++N + R++A +D +I+ ++ I + V+
Sbjct: 65 KVKENAPIKIYELPREEAEKMFGEDMYDLFPVPEDVRILKVV---------VIEDWNVNA 115
Query: 181 CRGPHVFSTGKLKIFKLIK 199
C H +TG++ K+ K
Sbjct: 116 CNKEHTKTTGEIGPIKIRK 134
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 36.4 bits (85), Expect = 0.020
Identities = 28/135 (20%), Positives = 50/135 (37%), Gaps = 27/135 (20%)
Query: 73 HSTAHLLAYAVKNLFPDSQIAIGPVIENGFYYDFLYKR-----SFTKEDLILIEKKMIEL 127
H HLL+ +LF + GF+ ++ + EK+
Sbjct: 98 HLGQHLLSGCFYDLFGANTC--------GFHLGKEISTVDIVGFLDEKTIREAEKEA--- 146
Query: 128 SQKNELFLKKNITRDKAI-AYFDSVNEQFKKKIINLIPN-NQEISLYSIGSF-VDLCRGP 184
N L I + + +Y S E K K +P ++EI + I ++ C G
Sbjct: 147 ---NRL-----IFENLEVKSYAPSKKELKKVKTRRALPKTDEEIRIVEIVGLDLNACCGV 198
Query: 185 HVFSTGKLKIFKLIK 199
H +T L++ K+ +
Sbjct: 199 HPRNTRDLQVIKIRR 213
>1ati_A Glycyl-tRNA synthetase; protein biosynthesis, ligase,
aminoacyl-tRNA SYN; 2.75A {Thermus thermophilus} SCOP:
c.51.1.1 d.104.1.1 PDB: 1b76_A* 1ggm_A*
Length = 505
Score = 37.1 bits (86), Expect = 0.024
Identities = 49/282 (17%), Positives = 85/282 (30%), Gaps = 40/282 (14%)
Query: 316 MFTTK-----SENRFYALKPMNCPG-HIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSL 369
MF L+P G + N + R L + G+ RNE +
Sbjct: 168 MFQDLRGPRGGRGLLAYLRPETAQGIFVNFKNVLDATSRKLGFGIAQIGKAFRNEITPR- 226
Query: 370 HGMMRTRSFIQDDGHIFCTKSQIKNEIVVFNELVHKVYNEFGFKKIKIKL-ALRPNKR-I 427
+ + R R F Q + F + + + E K + E G + + P
Sbjct: 227 NFIFRVREFEQMEIEYFVRPGEDEYWHRYWVEERLKWWQEMGLSRENLVPYQQPPESSAH 286
Query: 428 GENNIWDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTIQIDFS 487
D+ G E G + ++ L G
Sbjct: 287 YAKATVDI------LYRFPHG--SLELEG----IAQRTDFDLGSHTKDQEALGITARVLR 334
Query: 488 MPHRLG--AEYIAENNTRKTPVMLHRAIIGSLERFIAILVENYS------------GAMP 533
H A E P ++ + G +A+L E ++ +
Sbjct: 335 NEHSTQRLAYRDPETGKWFVPYVIEPS-AGVDRGVLALLAEAFTREELPNGEERIVLKLK 393
Query: 534 LWLAPIQVMILNISKEQI---EYAKKVFNFLKSKK-FRVEVD 571
LAPI+V ++ + K + EYAK++ L + RV +
Sbjct: 394 PQLAPIKVAVIPLVKNRPEITEYAKRLKARLLALGLGRVLYE 435
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.9 bits (79), Expect = 0.042
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 12/40 (30%)
Query: 62 EKDNIGLNIIRHSTAHLLAYAVKNLFPDS--QIAIGPVIE 99
EK + + A L YA DS +AI +E
Sbjct: 18 EKQAL-----KKLQASLKLYA-----DDSAPALAIKATME 47
Score = 32.6 bits (73), Expect = 0.25
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 239 EKRDHRKLGKQLNLFHFQEESPGL 262
EK+ +KL L L+ + +P L
Sbjct: 18 EKQALKKLQASLKLYA-DDSAPAL 40
Score = 28.0 bits (61), Expect = 6.8
Identities = 6/27 (22%), Positives = 15/27 (55%), Gaps = 7/27 (25%)
Query: 749 LERIKSDLELYSQIEQFP------KIE 769
L+++++ L+LY+ + P +E
Sbjct: 22 LKKLQASLKLYAD-DSAPALAIKATME 47
>1usy_A ATP phosphoribosyltransferase regulatory subunit; aminoacyl-tRNA
synthetase; HET: HIS; 2.52A {Thermotoga maritima} SCOP:
d.104.1.1 PDB: 1usy_C*
Length = 275
Score = 35.4 bits (82), Expect = 0.052
Identities = 17/150 (11%), Positives = 46/150 (30%), Gaps = 23/150 (15%)
Query: 270 YIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTGHWENYKDNMFTTKSENRFYALK 329
++ +++ + K K G+ P + E N F + ++++
Sbjct: 3 FLDFEKVFSFYSKATKK-GFSPFFVPAL---------EKAEEPAGNFFLDRK-GNLFSIR 51
Query: 330 PMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQDDGHIFCTK 389
+ N D ++ +R S + Q
Sbjct: 52 EDFTK---TVLNHRKRYSPDSQIKVWYADFVYRYSGS-------DLVAEYQLGLEKVPRN 101
Query: 390 SQIKNEIVVFNELVHKVYNEFGFKKIKIKL 419
S + + + V E++ + +EF + +++
Sbjct: 102 S-LDDSLEVL-EIIVESASEFFEGPVIVEI 129
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 35.6 bits (83), Expect = 0.054
Identities = 13/95 (13%), Positives = 31/95 (32%), Gaps = 8/95 (8%)
Query: 514 IGSLERFIAILVENYSGAMPLWLAPIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLR 573
+G +L + + V I + K + L+ + V V++
Sbjct: 312 MG-DAVISLLLKRE---NVQIPREKKSVYICRVGKINSSIMNEYSRKLRERGMNVTVEIM 367
Query: 574 NEKIAYKIRLHSLEKL--PYIIIVGNKELCENKIT 606
+ +L + + +I G ++L +T
Sbjct: 368 ERGL--SAQLKYASAIGADFAVIFGERDLERGVVT 400
>3od1_A ATP phosphoribosyltransferase regulatory subunit; structural
genomics, PSI-2, protein structure initiative; 1.97A
{Bacillus halodurans}
Length = 400
Score = 35.3 bits (82), Expect = 0.077
Identities = 24/155 (15%), Positives = 48/155 (30%), Gaps = 12/155 (7%)
Query: 267 PKGYIILQEIKKYMRKIYKYNGYKEIKTPQMLDLSLWKKTGHWENYKDNMFT-TKSENRF 325
P+ Y + I M + GY I+TP + + +F +
Sbjct: 21 PEWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETVGVVSAILD--QQLFKLLDQQGNT 78
Query: 326 YALKPMNCPGHIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHGMMRTRSFIQDDGHI 385
L+P ++ S+ R PLR +R + + + F Q +
Sbjct: 79 LVLRPDMTAPIARLVASSLKD-RAYPLRLAYQSNVYRAQQNEG----GKPAEFEQLGVEL 133
Query: 386 FCTKS-QIKNEIVVFNELVHKVYNEFGFKKIKIKL 419
+ E++ L+ G + K+ +
Sbjct: 134 IGDGTASADGEVIA---LMIAALKRAGLSEFKVAI 165
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP; 1.95A
{Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 34.2 bits (79), Expect = 0.16
Identities = 21/149 (14%), Positives = 49/149 (32%), Gaps = 29/149 (19%)
Query: 239 EKRDHRKLGKQLNLFHFQEESPGLI----FWHPKGYIILQE--IKKYMRKIYKYNGYKEI 292
K +H + ++L + ++ + + KG ++ + + Y GY
Sbjct: 172 AKLNHVSIMERLGMMDT-SKAVTSMAGGRSYVLKGGLVQLQVALVSYSLDFLVKRGYTPF 230
Query: 293 KTPQMLDLSLWKKTGHWENYKDNMFTTKSENRFYAL-----KPMNCPGHIQIYNSNFHS- 346
P L+ + + + + ++ + L P+ + +H
Sbjct: 231 YPPFFLNRDVMGEVAQLSQFDEELYQVSGDGDKKYLIATSEMPI----------AAYHRG 280
Query: 347 ----YRDLPLRFGEFGQCHRNESSGSLHG 371
PL++ C R E +G+ HG
Sbjct: 281 RWFTELKEPLKYAGMSTCFRKE-AGA-HG 307
>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
aminoacyl-tRNA synthetase, ATP-binding,
charcot-marie-tooth disease, disease mutation; HET: B4P;
2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
Length = 693
Score = 32.7 bits (74), Expect = 0.58
Identities = 20/84 (23%), Positives = 29/84 (34%), Gaps = 5/84 (5%)
Query: 316 MFTTK---SENRFYALKPMNCPG-HIQIYNSNFHSYRDLPLRFGEFGQCHRNESSGSLHG 371
MF T N L+P G + + LP + G RNE S G
Sbjct: 227 MFKTFIGPGGNMPGYLRPETAQGIFLNFKRLLEFNQGKLPFAAAQIGNSFRNEISPR-SG 285
Query: 372 MMRTRSFIQDDGHIFCTKSQIKNE 395
++R R F + F S+ +
Sbjct: 286 LIRVREFTMAEIEHFVDPSEKDHP 309
>2k6w_A Putative uncharacterized protein TTHA1943; PCUA, copper transfer
protein, metal transport; NMR {Thermus thermophilus}
PDB: 2k6y_A 2k6z_A 2k70_A
Length = 120
Score = 30.0 bits (67), Expect = 1.1
Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 6/85 (7%)
Query: 652 KENVDLVEI-APFAKPPVARLMDYGKFKYREKKKAHEVKMKQKVILIKEVKFRPCINEGD 710
+ LV P A+ + + ++ V +V V+ +P G
Sbjct: 27 DLPLRLVGARTPVAERVELHETFMREVEGKKVMGMRPVP-FLEVPPKGRVELKP----GG 81
Query: 711 YNIKLRNLIRFLEEGDKVKITLRFR 735
Y+ L L R L+ G++V++ L F
Sbjct: 82 YHFMLLGLKRPLKAGEEVELDLLFA 106
>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet,
ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1
d.104.1.1
Length = 420
Score = 31.0 bits (71), Expect = 1.5
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 6/92 (6%)
Query: 517 LERFIAILVENYSGAMPLWLAPIQVMILNISKEQIEYAKKVFNFLKSKKFRVEVDLRNEK 576
+ER + L E G + + I+ + + YA K+ N L+ + + D K
Sbjct: 310 IERLLLALEEE--GIELDIEENLDLFIVTMGDQADRYAVKLLNHLRHNGIKADKDYLQRK 367
Query: 577 IAYKIRLHSLEKL--PYIIIVGNKELCENKIT 606
I K ++ ++L + I++G++EL NKI
Sbjct: 368 I--KGQMKQADRLGAKFTIVIGDQELENNKID 397
>2gk4_A Conserved hypothetical protein; alpha-beta-alpha sandwich,
flavoprotein, structural genomics protein structure
initiative; 1.83A {Streptococcus pneumoniae}
Length = 232
Score = 30.7 bits (70), Expect = 1.6
Identities = 18/98 (18%), Positives = 31/98 (31%), Gaps = 12/98 (12%)
Query: 53 HDVNLII----ITEKDNIGLNIIRHSTAHLLAYAVKNLFPDSQIAIG--------PVIEN 100
++V LI + + + L+I + L ++ D Q+ I PV
Sbjct: 44 YEVCLITTKRALKPEPHPNLSIREITNTKDLLIEMQERVQDYQVLIHSMAVSDYTPVYMT 103
Query: 101 GFYYDFLYKRSFTKEDLILIEKKMIELSQKNELFLKKN 138
G + K+ + LFLKK
Sbjct: 104 GLEEVQASSNLKEFLSKQNHQAKISSTDEVQVLFLKKT 141
>2e7z_A Acetylene hydratase AHY; tungstoprotein, DMSO reductase family,
iron-sulfur-cluster, lyase; HET: MGD; 1.26A {Pelobacter
acetylenicus}
Length = 727
Score = 30.7 bits (70), Expect = 2.4
Identities = 13/61 (21%), Positives = 28/61 (45%)
Query: 433 WDLAENSLREAISSSGVTWEEFPGEGAFYGPKIEYHLKDSIGRSWQCGTIQIDFSMPHRL 492
W + IS +G+ WEE+ + + +Y + +G + G +++ S+ +L
Sbjct: 510 WKDRLELINYRISPTGMEWEEYQKQYTYMSKLPDYFGPEGVGVATPSGKVELYSSVFEKL 569
Query: 493 G 493
G
Sbjct: 570 G 570
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 29.9 bits (68), Expect = 3.6
Identities = 20/97 (20%), Positives = 37/97 (38%), Gaps = 24/97 (24%)
Query: 287 NGYKEIKTPQMLDLSLWKKTGHWENYKDNMFTTKSENRFYAL-----KPMNCPGHIQIYN 341
GY ++ P M++ + KT + + ++ L +P+
Sbjct: 202 KGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVIDGEDEKYLIATSEQPI---------- 251
Query: 342 SNFHS-------YRDLPLRFGEFGQCHRNESSGSLHG 371
S +H+ LP+R+ + C R E +GS HG
Sbjct: 252 SAYHAGEWFESPAEQLPVRYAGYSSCFRRE-AGS-HG 286
>1e6y_B Methyl-coenzyme M reductase I beta subunit; biological
methanogenesis, NI-enzyme, oxidoreductase, NI ENZ; HET:
MHS AGM F43 TP7; 1.6A {Methanosarcina barkeri} SCOP:
a.89.1.1 d.58.31.2
Length = 433
Score = 29.1 bits (65), Expect = 5.9
Identities = 16/98 (16%), Positives = 40/98 (40%), Gaps = 8/98 (8%)
Query: 652 KENVDLVEIAPFAKPPVARLMDYGK-------FKYREKKKAHEVKMKQKVILIKEVKFRP 704
+ NVD++ +AP + ++ K + + ++ K + IL + + +
Sbjct: 15 ESNVDIMSLAPTRNAAIQSIIMDTKRSVAVNLAGIQGALASGKMGGKGRQILGRGLNYDI 74
Query: 705 CINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQ 742
N ++ L++ ++EGD + G+ + Q
Sbjct: 75 VGNADAIAENVKKLVQ-VDEGDDTNVIKVKGGKSLLIQ 111
>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase;
zinc-binding motif, trans-editing enzyme, structural
genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP:
b.43.3.6 d.67.1.2
Length = 216
Score = 28.7 bits (65), Expect = 6.1
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 173 SIGSF-VDLCRGPHVFSTGKLKIFKLIK 199
I F V C G HV ++ K +K
Sbjct: 173 QIRDFEVIPCGGTHVKDIKEIGHIKKLK 200
>1hbn_B Methyl-coenzyme M reductase I beta subunit; methanogenesis,
biological methanogenesis, NI-enzyme, oxidoreductase;
HET: MHS AGM MGN F43 TP7; 1.16A
{Methanothermobacterthermautotrophicus} SCOP: a.89.1.1
d.58.31.2 PDB: 1hbm_B* 1hbo_B* 1hbu_B* 1mro_B* 3m1v_B*
3m2r_B* 3m2u_B* 3m2v_B* 3m30_B* 3m32_B* 3pot_B* 1e6v_B*
Length = 442
Score = 28.8 bits (64), Expect = 7.2
Identities = 17/98 (17%), Positives = 33/98 (33%), Gaps = 8/98 (8%)
Query: 652 KENVDLVEIAPFAKPPVARLMDYGK-------FKYREKKKAHEVKMKQKVILIKEVKFRP 704
+E V L ++P P + ++ K K +V I+ +E+
Sbjct: 18 EEQVPLEALSPLRNPAIKSIVQGIKRTVAVNLEGIENALKTAKVGGPACKIMGRELDLDI 77
Query: 705 CINEGDYNIKLRNLIRFLEEGDKVKITLRFRGREMSHQ 742
N + +I+ + E D + L G+ Q
Sbjct: 78 VGNAESIAAAAKEMIQ-VTEDDDTNVELLGGGKRALVQ 114
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 28.9 bits (65), Expect = 7.3
Identities = 26/150 (17%), Positives = 55/150 (36%), Gaps = 23/150 (15%)
Query: 239 EKRDHRKLGKQLNLFHFQEES--PGLIFWHPKGYIILQE--IKKYMRKIYKYNGYKEIKT 294
+K H L ++ F ++ + G + KG ++ E + +Y + GY I T
Sbjct: 166 KKYSHVDLVVMVDGFEGEKGAVVAGSRGYFLKGVLVFLEQALIQYALRTLGSRGYIPIYT 225
Query: 295 PQMLDLSLWKKTGHWENYKDNMFTTKSENRFYALKPMNCPGHIQIY--------NSNFHS 346
P + + ++ + + ++ + + + + + Y + H
Sbjct: 226 PFFMRKEVMQEVAQLSQFDEELYKVIGKGS----EKSDDNSYDEKYLIATSEQPIAALHR 281
Query: 347 -----YRDLPLRFGEFGQCHRNESSGSLHG 371
DLP+++ C R E GS HG
Sbjct: 282 DEWLRPEDLPIKYAGLSTCFRQE-VGS-HG 309
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 28.8 bits (65), Expect = 9.9
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 173 SIGSFVDLCRGPHVFSTGKLKIFKLIK 199
+G V C G H STG++ + K++K
Sbjct: 695 QVGDDVQACGGTHCRSTGEIGMLKILK 721
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
0.321 0.139 0.407
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,278,573
Number of extensions: 789507
Number of successful extensions: 1966
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1887
Number of HSP's successfully gapped: 79
Length of query: 783
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 682
Effective length of database: 3,881,772
Effective search space: 2647368504
Effective search space used: 2647368504
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 (21.9 bits)
S2: 61 (27.4 bits)