RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022115
(302 letters)
>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 = 289 bits (742), Expect = 6e-96
Identities = 114/231 (49%), Positives = 162/231 (70%)
Query: 69 QKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEEI 128
++ P +G RDFPPE MR R LF F ++ FGFEE D PVLESE L+IRKAGEEI
Sbjct: 25 NMVETEPVQGCRDFPPEAMRCRRHLFDVFHATAKTFGFEEYDAPVLESEELYIRKAGEEI 84
Query: 129 RDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRRR 188
+Q++ F +G RVALRPE+TPSLARL++ KG+S+ LP KW+++ QCWRYE +TRGRRR
Sbjct: 85 TEQMFNFITKGGHRVALRPEMTPSLARLLLGKGRSLLLPAKWYSIPQCWRYEAITRGRRR 144
Query: 189 EHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISSRKVLQEVLRCHSIPE 248
EHYQWNMDI+GV +V+AE EL+ + + +G+++ DVG +++SRKVLQ V+ +
Sbjct: 145 EHYQWNMDIVGVKSVSAEVELVCAACWAMRSLGLSSKDVGIKVNSRKVLQTVVEQAGVTS 204
Query: 249 HLFGKVCIIIDKIEKLPLDVIKNDLKSAGMSEAAIEELLRVLSIKSLTELE 299
F VC+I+DK+EK+P + ++ L G+ ++ + LS+KS+ E+
Sbjct: 205 DKFAPVCVIVDKMEKIPREEVEAQLAVLGLEPTVVDAITTTLSLKSIDEIA 255
>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 = 263 bits (675), Expect = 4e-86
Identities = 81/232 (34%), Positives = 129/232 (55%), Gaps = 5/232 (2%)
Query: 69 QKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEEI 128
++ + +G RDF PEDM + ++F +E + FGF +DFP LE L+ K+GEE+
Sbjct: 2 YRLQIEKIRGFRDFYPEDMDVEKFIFKTAEEAAEAFGFRRIDFPSLEYLDLYRIKSGEEL 61
Query: 129 RDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRRR 188
Q Y F D+G R V L PE TPS R+V + K + PL+W++ + WRYE GR R
Sbjct: 62 LQQTYSFVDKGGREVTLIPEATPSTVRMVTSR-KDLQRPLRWYSFPKVWRYEEPQAGRYR 120
Query: 189 EHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISSRKVLQEVLRCHSIPE 248
EHYQ+N DI G + A+AE+I+ + R+G+ RI+SRK+++E++ +
Sbjct: 121 EHYQFNADIFGSDSPEADAEVIALASSILDRLGLQ-DIYEIRINSRKIMEEIIG--GMTS 177
Query: 249 HLFGKVCIIIDKIEKLPLDVIKNDLKSAGMSEAAIEELLRVLSI-KSLTELE 299
V IID+ K+ + + L+SAG+ E + + + S + + E+
Sbjct: 178 SDPFSVFSIIDRYHKISREEFVDQLRSAGIGEDGVSMIADLCSGTRGIDEMA 229
>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase,
structural genomics, PSI- nostoc, protein structure
initiative; 2.70A {Nostoc SP}
Length = 465
Score = 254 bits (652), Expect = 3e-82
Identities = 54/245 (22%), Positives = 108/245 (44%), Gaps = 18/245 (7%)
Query: 69 QKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGE-- 126
KI+ + P G +F P + RL +L + V +GF ++ P +E + K +
Sbjct: 8 DKINFSTPSGFPEFLPSEKRLELYLLDTIRRVYESYGFTPIETPAVERLEVLQAKGNQGD 67
Query: 127 ------------EIRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVG 174
+ + D G+ AL+ + T LA + + ++ P + +
Sbjct: 68 NIIYGLEPILPPNRQAEKDKSGDTGSEARALKFDQTVPLAAYIARHLNDLTFPFARYQMD 127
Query: 175 QCWRYERMTRGRRREHYQWNMDIIGV--PAVTAEAELISSIITFFKRIGITASDVGFRIS 232
+R ER GR R+ Q ++D++G ++ +A++ + I F+ + I D RI+
Sbjct: 128 VVFRGERAKDGRFRQFRQCDIDVVGREKLSLLYDAQMPAIITEIFEAVNIG--DFVIRIN 185
Query: 233 SRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKLPLDVIKNDLKSAGMSEAAIEELLRVLSI 292
+RKVL + +I E IID +EK+ +K +L+ G++ ++++ + I
Sbjct: 186 NRKVLTGFFQSLNISETQIKSCISIIDNLEKIGEAKVKLELEKEGINPEQTQKIIDFVKI 245
Query: 293 KSLTE 297
+
Sbjct: 246 DGSVD 250
>3od1_A ATP phosphoribosyltransferase regulatory subunit; structural
genomics, PSI-2, protein structure initiative; 1.97A
{Bacillus halodurans}
Length = 400
Score = 223 bits (571), Expect = 7e-71
Identities = 48/219 (21%), Positives = 93/219 (42%), Gaps = 6/219 (2%)
Query: 75 PPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEEIRDQLYC 134
P G RD PE + + + E L+G++ ++ P LE + QL+
Sbjct: 12 KPFGMRDTLPEWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETV-GVVSAILDQQLFK 70
Query: 135 FEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRRREHYQWN 194
D+ + LRP++T +ARLV K + PL+ +R ++ G+ E Q
Sbjct: 71 LLDQQGNTLVLRPDMTAPIARLVASSLKDRAYPLRLAYQSNVYRAQQNEGGKPAEFEQLG 130
Query: 195 MDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISSRKVLQEVLRCHSIPEHLFGKV 254
+++IG +A+ E+I+ +I KR G++ + I + +L E ++
Sbjct: 131 VELIGDGTASADGEVIALMIAALKRAGLS--EFKVAIGHVGYVNALLMDVVGNEQRADRL 188
Query: 255 CIIIDKIEKLPLDVIKNDLKSAGMSEAAIEELLRVLSIK 293
+ + + +KS +S L+ +LS++
Sbjct: 189 RRFLYEKNYVGYR---EHVKSLNLSTIDKSRLMNLLSLR 224
>3rac_A Histidine-tRNA ligase; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, PSI-BIO; 2.30A
{Alicyclobacillus acidocaldarius subsp}
Length = 373
Score = 198 bits (505), Expect = 2e-61
Identities = 46/263 (17%), Positives = 87/263 (33%), Gaps = 15/263 (5%)
Query: 46 ASNQNGGRSGARSLSPSPVSDDLQKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFG 105
++ NG RS + + V + P G +D P+ + R + G
Sbjct: 1 SNAMNGTRSAWGARAWEAVRGFADR-----PPGMQDGYPDFAKRRRAVETRLLSFVEDAG 55
Query: 106 FEEVDFPVLESEALFIRKAGEEIRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVS 165
+E V + E +R E D G VALRPE+TPS+AR+ + +
Sbjct: 56 YEPVTSGLFEYVDTLLRARSPESSRDWIRLFDGGGDAVALRPEMTPSIARMAAPRVAAGR 115
Query: 166 LPLKWFAVGQCWRYER------MTRGRRREHYQWNMDIIGVPA-VTAEAELISSIITFFK 218
P++W + +R G+ E Q ++ IG A V + +++ +
Sbjct: 116 TPIRWCYCERVYRRTDDPASLSWASGKAAESTQVGIERIGEEASVDVDMDVLRLLHEASA 175
Query: 219 RIGITASDVGFRISSRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKLPLD-VIKNDLKSAG 277
G+ +S +++ +L I L + + + +
Sbjct: 176 AAGVR--HHRIVVSHARLVPRLLDALGISASLSRAFLACLTSGNYVQFRELWQLHAAKDV 233
Query: 278 MSEAAIEELLRVLSIKSLTELEG 300
A + + E
Sbjct: 234 DLLANLLTWSPAERDAAKRSREA 256
>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 = 175 bits (445), Expect = 2e-53
Identities = 42/184 (22%), Positives = 71/184 (38%), Gaps = 11/184 (5%)
Query: 61 PSPVSDDLQKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLF---GFEEVDFPVLESE 117
P + ++ K + E+ N+L +E++R F GF E+ P+L
Sbjct: 49 GKPFRELESELLSRRKKDLQQIYAEERE--NYLGKLEREITRFFVDRGFLEIKSPILIPL 106
Query: 118 ALFIRKAGEEIRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCW 177
+ G + +L R ++ LRP LTP+L + + +++ P+K F +G C+
Sbjct: 107 EYI-ERMGIDNDTELSKQIFRVDKNFCLRPMLTPNLYNYLRKLDRALPDPIKIFEIGPCY 165
Query: 178 RYERMTRGRRREHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISSRKVL 237
R E + E +G E I I F +GI V S V
Sbjct: 166 RKESDGKEHLEEFTMLVFWQMGSGCTRENLESI--ITDFLNHLGIDFKIV---GDSCMVF 220
Query: 238 QEVL 241
+ L
Sbjct: 221 GDTL 224
>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT,
histidine biosynthesis, hiszg, alloste evolution; 2.90A
{Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*
Length = 344
Score = 160 bits (408), Expect = 2e-47
Identities = 43/261 (16%), Positives = 98/261 (37%), Gaps = 19/261 (7%)
Query: 53 RSGARSLSPSPVSDDLQKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFP 112
R + ++KI+ P+ + + ++ + +++ L ++EV P
Sbjct: 2 RGSHHHHHHGSIEGRMEKINYLLPEESAEMTLNQVKSLRQIEGRLRKLFSLKNYQEVMPP 61
Query: 113 VLESEALFIRKAGEE---IRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLK 169
E L+ +++++ F + + LR + T L RL Q S +
Sbjct: 62 SFEYTQLYTALESNGKTFNQEKMFQFIKHEGQSITLRYDFTLPLVRLYSQIKD--STSAR 119
Query: 170 WFAVGQCWRYERMTRGRRREHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITA----- 224
+ G+ +R E+ +GR E+YQ +++ G A +E E++S + +++G+
Sbjct: 120 YSYFGKIFRKEKRHKGRSTENYQIGIELFGESADKSELEILSLALQVIEQLGLNKTVFEI 179
Query: 225 SDVGF---RISSRKVLQEVLRCHSIPEHLFGKVCIIIDK-IEKLPLDVIKNDLKSAGMSE 280
F E+L + + L G + I+K L + + +E
Sbjct: 180 GSAKFFQRLCQLADGSTELLTELLLKKDLSG-LNAFIEKNNFSKELRGL--LKEIFITNE 236
Query: 281 AAIEE--LLRVLSIKSLTELE 299
+ E + ++ +
Sbjct: 237 LSRLENLVTNTKDDVLISSFD 257
>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 = 135 bits (342), Expect = 6e-37
Identities = 47/187 (25%), Positives = 96/187 (51%), Gaps = 17/187 (9%)
Query: 73 VNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEE---IR 129
+ P+GT+D PED + ++ + E+ + ++E+ P+ ES LF R G+ ++
Sbjct: 2 IKIPRGTQDILPEDSKKWRYIENQLDELMTFYNYKEIRTPIFESTDLFARGVGDSTDVVQ 61
Query: 130 DQLYCFEDRGNRRVALRPELTPSLARLVIQKG--KSVSLPLKWFAVGQCWRYERMTRGRR 187
++Y F+D+G+R + LRPE T ++ R I+ + + P+K + G +RYER +GR
Sbjct: 62 KEMYTFKDKGDRSITLRPEGTAAVVRSYIEHKMQGNPNQPIKLYYNGPMFRYERKQKGRY 121
Query: 188 REHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISS----------RKVL 237
R+ Q+ ++ IG + +AE+++ ++ ++ G+ + I+S + L
Sbjct: 122 RQFNQFGVEAIGAENPSVDAEVLAMVMHIYQSFGLK--HLKLVINSVGDMASRKEYNEAL 179
Query: 238 QEVLRCH 244
+
Sbjct: 180 VKHFEPV 186
>1htt_A Histidyl-tRNA synthetase; complex (tRNA synthetase/His-adenylate),
aminoacyl-tRNA synthase, ligase; HET: HIS AMP; 2.60A
{Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1kmm_A*
1kmn_A* 2el9_A*
Length = 423
Score = 135 bits (341), Expect = 8e-37
Identities = 48/189 (25%), Positives = 85/189 (44%), Gaps = 16/189 (8%)
Query: 69 QKIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEE- 127
+ I +G D+ P + + + + V +G+ E+ P++E LF R GE
Sbjct: 2 KNI--QAIRGMNDYLPGETAIWQRIEGTLKNVLGSYGYSEIRLPIVEQTPLFKRAIGEVT 59
Query: 128 --IRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRG 185
+ ++Y FEDR + LRPE T R I+ G + + + +G +R+ER +G
Sbjct: 60 DVVEKEMYTFEDRNGDSLTLRPEGTAGCVRAGIEHGLLYNQEQRLWYIGPMFRHERPQKG 119
Query: 186 RRREHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISS----------RK 235
R R+ +Q ++ G+ +AELI +++ +GI+ V ++S R
Sbjct: 120 RYRQFHQLGCEVFGLQGPDIDAELIMLTARWWRALGIS-EHVTLELNSIGSLEARANYRD 178
Query: 236 VLQEVLRCH 244
L L H
Sbjct: 179 ALVAFLEQH 187
>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP
+ L-histidine tRNA(His)-> AMP + PPI +
L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP:
c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A
Length = 421
Score = 134 bits (340), Expect = 1e-36
Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 16/186 (8%)
Query: 73 VNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEE---IR 129
+GT+D +++R+ + ++V G E+ P+ E +F + G +R
Sbjct: 3 ARAVRGTKDLFGKELRMHQRIVATARKVLEAAGALELVTPIFEETQVFEKGVGAATDIVR 62
Query: 130 DQLYCFEDRGNRRVALRPELTPSLARLVIQKG-KSVSLPLKWFAVGQCWRYERMTRGRRR 188
+++ F+DRG R + LRPE T ++ R ++ G K P++ + G +R ER +GR R
Sbjct: 63 KEMFTFQDRGGRSLTLRPEGTAAMVRAYLEHGMKVWPQPVRLWMAGPMFRAERPQKGRYR 122
Query: 189 EHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISS----------RKVLQ 238
+ +Q N + +G +AE + + K +G+ + ++SS L+
Sbjct: 123 QFHQVNYEALGSENPILDAEAVVLLYECLKELGLR--RLKVKLSSVGDPEDRARYNAYLR 180
Query: 239 EVLRCH 244
EVL H
Sbjct: 181 EVLSPH 186
>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 = 129 bits (327), Expect = 4e-36
Identities = 33/212 (15%), Positives = 72/212 (33%), Gaps = 24/212 (11%)
Query: 87 MRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEEIRDQLYCFEDRGNRRVALR 146
+ +F + + ++ GF P LE EE F DR ++R
Sbjct: 4 LDFEK-VFSFYSKATK-KGFSPFFVPALEK--------AEEP--AGNFFLDRKGNLFSIR 51
Query: 147 PELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRRREHYQWNMDIIGVPAVTAE 206
+ T ++ + +K + +RY YQ ++ + ++
Sbjct: 52 EDFTKTVLNHRKRYSPD--SQIKVWYADFVYRYSG---SDLVAEYQLGLEKVPRNSLDDS 106
Query: 207 AELISSIITFFKRIGITASDVGFRISSRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKLPL 266
E++ I+ V I V +++L+ IP+ L KV +ID +
Sbjct: 107 LEVLEIIVESASEFFEG--PVIVEIGHTGVYEDLLK--EIPKDLHEKVLNLIDTKNLAEI 162
Query: 267 DVIKNDLKSAGMSEAAIEELLRVLSIKSLTEL 298
+ + + + +E+++ + E
Sbjct: 163 EFL---SHMKKIDLSRVEKIIEDSIYRRSPEH 191
>4e51_A Histidine--tRNA ligase; seattle structural genomics center for
infectious disease, S aminoacylation, tRNA activation,
charged tRNA; HET: HIS; 2.65A {Burkholderia
thailandensis}
Length = 467
Score = 131 bits (332), Expect = 3e-35
Identities = 51/205 (24%), Positives = 97/205 (47%), Gaps = 17/205 (8%)
Query: 55 GARSLSPSPVSDDLQKID-VNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPV 113
A++ P +++ +K++ + KG D P+D L + + + R +G++ + P+
Sbjct: 13 EAQTQGPGSMTEQKRKLEKLTGVKGMNDILPQDAGLWEFFEATVKSLLRAYGYQNIRTPI 72
Query: 114 LESEALFIRKAGEE---IRDQLYCFEDRGN-RRVALRPELTPSLARLVIQKGKSVSLPLK 169
+E LF R GE + ++Y F D N + LRPE T ++ R I+ P +
Sbjct: 73 VEHTPLFTRGIGEVTDIVEKEMYSFVDALNGENLTLRPENTAAVVRAAIEHNMLYDGPKR 132
Query: 170 WFAVGQCWRYERMTRGRRREHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGF 229
+ +G +R+ER RGR R+ +Q ++ +G A+AE++ ++ +G+T +
Sbjct: 133 LWYIGPMFRHERPQRGRYRQFHQVGVEALGFAGPDADAEIVMMCQRLWEDLGLT--GIKL 190
Query: 230 RISS----------RKVLQEVLRCH 244
I+S R L + L H
Sbjct: 191 EINSLGLAEERAAHRVELIKYLEQH 215
>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase,
ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A
2zni_A
Length = 288
Score = 64.1 bits (156), Expect = 4e-12
Identities = 29/168 (17%), Positives = 55/168 (32%), Gaps = 15/168 (8%)
Query: 75 PPKGTRDFP----PEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAG---EE 127
+G R + L + GF +V P + +++ +
Sbjct: 54 MSQGKRHLEQLRTVKHRPALLELEEKLAKALHQQGFVQVVTPTIITKSALAKMTIGEDHP 113
Query: 128 IRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRR 187
+ Q++ + + LRP L P+L L + + P++ F +G C+R E
Sbjct: 114 LFSQVFWLDGKK----CLRPMLAPNLYTLWRELERLWDKPIRIFEIGTCYRKESQGAQHL 169
Query: 188 REHYQWNMDIIGVPAVTAEAELISSIITFFKRIGITASDVGFRISSRK 235
E N+ +G P L + GI F + +
Sbjct: 170 NEFTMLNLTELGTPLEERHQRLEDMARWVLEAAGIR----EFELVTES 213
>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 = 53.1 bits (127), Expect = 6e-08
Identities = 32/168 (19%), Positives = 54/168 (32%), Gaps = 61/168 (36%)
Query: 17 LSNSSLFPRKFTV--PKEYLLNPRSLCALSSASNQNGGRSGARSLSPSPVSDDLQ-KIDV 73
L N + V P P+SL L+ R D Q +I
Sbjct: 370 LVNG---AKNLVVSGP------PQSLYGLNLT---------LRKAKAPSGLD--QSRI-- 407
Query: 74 NP-----PKGTRDF-P---PEDMRLRNWLFHNFQEVSRLFG--FEEVDFPVLESEALFIR 122
P K + F P P FH S L + ++ ++++ F
Sbjct: 408 -PFSERKLKFSNRFLPVASP---------FH-----SHLLVPASDLINKDLVKNNVSF-- 450
Query: 123 KAGEEIRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKW 170
++I+ +Y D + R L ++ + +I LP+KW
Sbjct: 451 -NAKDIQIPVYDTFDGSDLR-VLSGSISERIVDCII------RLPVKW 490
Score = 38.5 bits (89), Expect = 0.002
Identities = 50/270 (18%), Positives = 87/270 (32%), Gaps = 90/270 (33%)
Query: 74 NPPKGTRDFPPEDMR-LRNWLFHNFQEVSRLFGFEEVDFPVLESEALFIRKAGEEIRDQL 132
NP T F E + +R N+ + FE + L++E +F ++ E
Sbjct: 1668 NPVNLTIHFGGEKGKRIR----ENYSAMI----FETIVDGKLKTEKIF-KEINEHSTS-- 1716
Query: 133 YCFE-DRG------NRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRG 185
Y F ++G + AL A K K + FA G
Sbjct: 1717 YTFRSEKGLLSATQFTQPAL---TLMEKAAFEDLKSKGLIPADATFA------------G 1761
Query: 186 RRREH----YQWNMDIIGVPAVTAEAELIS---SIITFFKR-----------------IG 221
H Y A+ + A+++S + F R G
Sbjct: 1762 ----HSLGEY---------AALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 222 ITASDVGFRIS---SRKVLQEVLRCHSIPEHLFGKVCI---------IIDKI--EKLPLD 267
+ A + G R++ S++ LQ V + + V I + + LD
Sbjct: 1809 MIAINPG-RVAASFSQEALQYV--VERVGKRTGWLVEIVNYNVENQQYV--AAGDLRALD 1863
Query: 268 VIKNDLKSAGMSEAAIEELLRVLSIKSLTE 297
+ N L + + I EL + LS++ +
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 35.0 bits (80), Expect = 0.031
Identities = 27/176 (15%), Positives = 55/176 (31%), Gaps = 62/176 (35%)
Query: 143 VALRPELTPSLARLVIQKGK---SVSLPLK-WFAVGQCWRYERMTRGRRREHYQWNMDII 198
+ RP L + G + +P +F Q + + +
Sbjct: 4 YSTRP--------LTLSHGSLEHVLLVPTASFFIASQ----------LQEQFNKI----- 40
Query: 199 GVPAVT----------AEAELISSIITFFKRIGITASDVGFRISSRKVLQEVLRC----- 243
+P T AEL+ + + + + S VG +VL L
Sbjct: 41 -LPEPTEGFAADDEPTTPAELVGKFLGYVSSL-VEPSKVG---QFDQVLNLCLTEFENCY 95
Query: 244 ------HSIPEHLFGKVCIIIDKIEKLPLDVIKNDLKSAGMSEAAIEE-----LLR 288
H++ L + + K + ++IKN + + M++ ++ L R
Sbjct: 96 LEGNDIHALAAKLLQENDTTLVKTK----ELIKNYITARIMAKRPFDKKSNSALFR 147
>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 = 43.7 bits (102), Expect = 6e-05
Identities = 44/271 (16%), Positives = 84/271 (30%), Gaps = 74/271 (27%)
Query: 83 PPEDMRLRN--WLFHNFQE--VSRLFG-FEEVDFPVLES-------EALFIRKAGEEIRD 130
W + QE V + +++ L S + + + E RD
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
Query: 131 QLY----CFEDRGNRRVALRPELTPSLARL------VIQ----KGKSV-------SLPLK 169
+LY F R+ +L +L L +I GK+ S ++
Sbjct: 118 RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 170 --------WFAVGQCWRYERMTRGRRREHYQWNMDIIGVPAVTAEAEL-ISSIITFFKRI 220
W + C E + ++ YQ + + ++ +L I SI +R+
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 221 GITASDVGFRISSRK------VLQEVLRCHSIPEHL--FGKVC-III---DK--IEKLPL 266
+ S+ VL V + F C I++ K + L
Sbjct: 238 ----------LKSKPYENCLLVLLNV----QNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 267 DVIKN---DLKSAGMSEAAIEELL-RVLSIK 293
+ D S ++ ++ LL + L +
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314
Score = 31.4 bits (70), Expect = 0.47
Identities = 44/309 (14%), Positives = 85/309 (27%), Gaps = 91/309 (29%)
Query: 5 HSSLSFYMKPLFLSNSSL--FPRKFTVPKEYLLNPRSLCALSSASNQNGGRSGARSLSPS 62
+S S + + L S+ R+ K Y L L + N
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPY---ENCLLVLLNVQNAK------------ 257
Query: 63 PVSD--DLQ-KIDVNPPKGTRDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLESEAL 119
+ +L KI + TR D L + E ++L
Sbjct: 258 -AWNAFNLSCKILLT----TRFKQVTD-FLSAATTTHISLDHHSMTLTPD-----EVKSL 306
Query: 120 FIRKAGEEIRDQLYCFEDRGNRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRY 179
++ +D L E+ + + P +
Sbjct: 307 LLKYLDCRPQD--------------LPREV------------LTTN-PR---RLSIIA-- 334
Query: 180 ERMTRGRRREHYQWNMDIIGVPAVTAEAELISSIITF---------FKRIGITASDVGFR 230
E + G W + +T +I S + F R+ +
Sbjct: 335 ESIRDGLATWDN-WKH--VNCDKLT---TIIESSLNVLEPAEYRKMFDRLSVFPPSA--H 386
Query: 231 ISSRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKLPLDVIKNDLKSAGMSEAAIEELLRVL 290
I + +L ++ I V ++++K+ K L ++ K + +S I + L
Sbjct: 387 IPT-ILL-SLIWFDVIKS----DVMVVVNKLHKYSL--VEKQPKESTIS---IPSIYLEL 435
Query: 291 SIKSLTELE 299
+K E
Sbjct: 436 KVKLENEYA 444
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 40.4 bits (94), Expect = 5e-04
Identities = 27/186 (14%), Positives = 56/186 (30%), Gaps = 26/186 (13%)
Query: 63 PVSDDLQKIDVNPPKGTRDFPPEDMRLRNWLFHNFQ---EVSRLF---GFEEVDFPVLES 116
V D + P + ++ + + ++ +D L
Sbjct: 107 AVLDRCFYLAGLPRPDVGLSDEKISQIEKLGIKVSEHKESLQKILHGYKKGTLDGDDLVL 166
Query: 117 E---ALFIRKA--GEEIRDQLYCFEDRG--NRRVALRPELTPSLARLVIQKGKSVSLPLK 169
E AL I + + D F+D + ++ LR +T V LP K
Sbjct: 167 EISNALEISSEMGLKILEDVFPEFKDLTAVSSKLTLRSHMTSGWFLTVSDLMNKKPLPFK 226
Query: 170 WFAVGQCWRYERMT-RGRRREHYQWNMDIIGVPAVTAE----AELISSIITFFKRIGITA 224
F++ +C+R E+ + ++ + E + + + G T
Sbjct: 227 LFSIDRCFRREQKEDKSHLMTYHS----ASCA--IAGEGVDINDGKAIAEGLLSQFGFT- 279
Query: 225 SDVGFR 230
+ F
Sbjct: 280 -NFKFI 284
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 40.0 bits (93), Expect = 8e-04
Identities = 25/145 (17%), Positives = 49/145 (33%), Gaps = 20/145 (13%)
Query: 98 QEVSRLFGFEEVDFPVLESE---ALFIRKA--GEEIRDQLYCFEDRG--NRRVALRPELT 150
Q++ + +D L E AL I + + D F+D + ++ LR +T
Sbjct: 148 QKILHGYKKGTLDGDDLVLEISNALEISSEMGLKILEDVFPEFKDLTAVSSKLTLRSHMT 207
Query: 151 PSLARLVIQKGKSVSLPLKWFAVGQCWRYERMT-RGRRREHYQWNMDIIGVPAVTAE--- 206
V LP K F++ +C+R E+ + ++ + E
Sbjct: 208 SGWFLTVSDLMNKKPLPFKLFSIDRCFRREQKEDKSHLMTYHS----ASCA--IAGEGVD 261
Query: 207 -AELISSIITFFKRIGITASDVGFR 230
+ + + G T + F
Sbjct: 262 INDGKAIAEGLLSQFGFT--NFKFI 284
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 37.7 bits (87), Expect = 0.004
Identities = 25/145 (17%), Positives = 49/145 (33%), Gaps = 20/145 (13%)
Query: 98 QEVSRLFGFEEVDFPVLESE---ALFIRKA--GEEIRDQLYCFEDRG--NRRVALRPELT 150
Q++ + +D L E AL I + + D F+D + ++ LR +T
Sbjct: 148 QKILHGYKKGTLDGDDLVLEISNALEISSEMGLKILEDVFPEFKDLTAVSSKLTLRSHMT 207
Query: 151 PSLARLVIQKGKSVSLPLKWFAVGQCWRYERMT-RGRRREHYQWNMDIIGVPAVTAE--- 206
V LP K F++ +C+R E+ + ++ + E
Sbjct: 208 SGWFLTVSDLMNKKPLPFKLFSIDRCFRREQKEDKSHLMTYHS----ASCA--IAGEGVD 261
Query: 207 -AELISSIITFFKRIGITASDVGFR 230
+ + + G T + F
Sbjct: 262 INDGKAIAEGLLSQFGFT--NFKFI 284
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 36.9 bits (85), Expect = 0.007
Identities = 25/145 (17%), Positives = 49/145 (33%), Gaps = 20/145 (13%)
Query: 98 QEVSRLFGFEEVDFPVLESE---ALFIRKA--GEEIRDQLYCFEDRG--NRRVALRPELT 150
Q++ + +D L E AL I + + D F+D + ++ LR +T
Sbjct: 148 QKILHGYKKGTLDGDDLVLEISNALEISSEMGLKILEDVFPEFKDLTAVSSKLTLRSHMT 207
Query: 151 PSLARLVIQKGKSVSLPLKWFAVGQCWRYERMT-RGRRREHYQWNMDIIGVPAVTAE--- 206
V LP K F++ +C+R E+ + ++ + E
Sbjct: 208 SGWFLTVSDLMNKKPLPFKLFSIDRCFRREQKEDKSHLMTYHS----ASCA--IAGEGVD 261
Query: 207 -AELISSIITFFKRIGITASDVGFR 230
+ + + G T + F
Sbjct: 262 INDGKAIAEGLLSQFGFT--NFKFI 284
>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA
complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB:
2du4_A 2du5_A* 2du6_A*
Length = 534
Score = 33.7 bits (77), Expect = 0.063
Identities = 21/108 (19%), Positives = 43/108 (39%), Gaps = 7/108 (6%)
Query: 80 RDFPPEDMRLRNWLFHNFQEVSRLFGFEEVDFPVLE---SEALFIRK--AGEEIRDQLYC 134
+ E + R QE+ + E+D L +E L + A + + +
Sbjct: 111 KIRQIEAITKREVDSKPLQEIFHRYKKGEIDGDDLSYLIAEVLDVDDITAVKILDEVFPE 170
Query: 135 FEDRG--NRRVALRPELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYE 180
F++ + + LR +T + + LP+K F++ +C+R E
Sbjct: 171 FKELKPISSTLTLRSHMTTGWFITLSHIADKLPLPIKLFSIDRCFRRE 218
>3l4g_A Phenylalanyl-tRNA synthetase alpha chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A
{Homo sapiens}
Length = 508
Score = 32.5 bits (74), Expect = 0.16
Identities = 28/114 (24%), Positives = 48/114 (42%), Gaps = 13/114 (11%)
Query: 122 RKAGEEIRDQLYCFEDRGNRRVALRPELTPSLAR-LVIQKGKSVSLPLKWFAVGQCWRYE 180
+ G + Y ++ R+ LR T + AR L K P+K+F++ + +R E
Sbjct: 301 SQGGYGSQGYKYNWKLDEARKNLLRTHTTSASARALYRLAQKKPFTPVKYFSIDRVFRNE 360
Query: 181 RMTRGRRREHYQWNMDIIGVPAVTAE----AELISSIITFFKRIGITASDVGFR 230
+ E +Q I GV V L+ + FF ++GIT + F+
Sbjct: 361 TLDATHLAEFHQ----IEGV--VADHGLTLGHLMGVLREFFTKLGIT--QLRFK 406
>2du7_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase, structural
genomics, NPPSFA; 3.60A {Methanocaldococcus jannaschii}
Length = 549
Score = 32.2 bits (73), Expect = 0.23
Identities = 28/146 (19%), Positives = 51/146 (34%), Gaps = 20/146 (13%)
Query: 97 FQEVSRLFGFEEVDFPVLE---SEALFIRKA--GEEIRDQLYCFEDRG--NRRVALRPEL 149
+EV L+ +D L ++AL + + + F+D + + LR +
Sbjct: 140 LREVLHLYKKGAIDGDDLVFEIAKALNVSNEMGLKVLETAFPEFKDLKPESTTLTLRSHM 199
Query: 150 TPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMT-RGRRREHYQWNMDIIGVPAVTAE-- 206
T + K LPLK F++ +C+R E+ R ++ V V E
Sbjct: 200 TSGWFITLSSLIKKRKLPLKLFSIDRCFRREQREDRSHLMSYHS----ASCV--VVGEDV 253
Query: 207 --AELISSIITFFKRIGITASDVGFR 230
+ + G T F+
Sbjct: 254 SVDDGKVVAEGLLAQFGFT--KFKFK 277
>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 = 30.0 bits (67), Expect = 1.1
Identities = 30/172 (17%), Positives = 52/172 (30%), Gaps = 37/172 (21%)
Query: 93 LFHNFQEVSRLFGFEEVDFPVLESEALFIR------------------KAGEEIRDQLYC 134
R G E + FP + S A + EI +
Sbjct: 69 RLAALITSHREAGTEALRFPPVMSRAQLEKSGYLKSFPNLLGCVCGLHGTEREINAAVSR 128
Query: 135 FEDRGNRRVALRPE---LTPS----LARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRR 187
F+ G+ +L P L+P+ + + +G L++ C+R E ++
Sbjct: 129 FDAGGDWTTSLSPADLVLSPAACYPVYPIAASRGPLPKGGLRFDVAADCFRRE-PSKHLD 187
Query: 188 REHYQWNMD---IIGVP--AVTAEAELISSIITFFKRIGI-----TASDVGF 229
R + M IG P + + +G+ ASD F
Sbjct: 188 RLQ-SFRMREYVCIGTPDDVSDFRERWMVRAQAIARDLGLTFRVDYASDPFF 238
>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 = 29.1 bits (64), Expect = 1.2
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 16/40 (40%)
Query: 115 ESEALFIRKAGEEIRDQLYCFEDRGNRRVALRPELTPSLA 154
E +A ++K + +LY + P+LA
Sbjct: 18 EKQA--LKKL--QASLKLYA------------DDSAPALA 41
>2kd1_A DNA integration/recombination/invertion protein; protein structure
initiative, structural genomics, unknown function,
PSI-2; HET: DNA; NMR {Bacillus cereus atcc 14579}
Length = 118
Score = 27.7 bits (62), Expect = 2.1
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 10/65 (15%)
Query: 230 RISSRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKL-PLDVIK--NDLKSAGMSEAAIEEL 286
I + KVL+ L IP G + K+ KL L + N L+ G+ IE++
Sbjct: 24 GIQTAKVLKGYLNSRIIPS--LGNI-----KLAKLTSLHMQNYVNSLRDEGLKRGTIEKI 76
Query: 287 LRVLS 291
++V+
Sbjct: 77 IKVIR 81
>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 = 28.1 bits (63), Expect = 3.6
Identities = 15/86 (17%), Positives = 28/86 (32%), Gaps = 25/86 (29%)
Query: 166 LPLKWFAVGQCWRYER------MTRGR-----------RREHYQWNMDIIGVPAVTAEAE 208
LP K F G+ RYE + R R + + V E
Sbjct: 132 LPFKVFEFGRVHRYEPSGSIYGLLRVRGFTQDDAHIIVPGG--RVIDVVYDV------FE 183
Query: 209 LISSIITFFKRIGITASDVGFRISSR 234
+ ++ ++G+++ R+S
Sbjct: 184 EMKLVLERLFKLGVSSETFKVRLSMS 209
>2kkp_A Phage integrase; SAM-like domain, alpha-helical bundle, structural
genomics, PSI-2, protein structure initiative; NMR
{Moorella thermoacetica atcc 39073}
Length = 117
Score = 26.9 bits (60), Expect = 3.8
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 230 RISSRKVLQEVLRCHSIPEHLFGKVCIIIDKIEKL-PLDVIK--NDLKSAGMSEAAIEEL 286
R S+ + + VLR H IP G + ++KL P D+ + +G+S + +
Sbjct: 26 RQSTWESYETVLRLHVIPT--LGSI-----PLKKLQPADIQRLYASKLESGLSPTRVRYI 78
Query: 287 LRVLS 291
VL
Sbjct: 79 HVVLH 83
>2de6_A Terminal oxygenase component of carbazole; electron transfer
complex, rieske non-heme iron oxygenase system, terminal
oxygenase; 1.80A {Janthinobacterium} SCOP: b.33.1.2
d.129.3.3 PDB: 1ww9_A 2de5_A 2de7_A*
Length = 392
Score = 27.6 bits (61), Expect = 6.1
Identities = 7/39 (17%), Positives = 13/39 (33%), Gaps = 1/39 (2%)
Query: 79 TRDFPPEDMRL-RNWLFHNFQEVSRLFGFEEVDFPVLES 116
+ ++ R F + + L GF D E+
Sbjct: 301 GKPCANDEERKKYEQEFESKWKPMALEGFNNDDIWAREA 339
>1wzv_A Ubiquitin-conjugating enzyme E2 L6; ligase; 2.10A {Homo sapiens}
SCOP: d.20.1.1 PDB: 1wzw_A 2kjh_A
Length = 155
Score = 26.5 bits (59), Expect = 8.2
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 67 DLQKIDVNPPKGTRDFPPEDMRLRNW 92
+L+ + PP R+ +D + W
Sbjct: 12 ELEDLQKKPPPYLRNLSSDDANVLVW 37
>3ibt_A 1H-3-hydroxy-4-oxoquinoline 2,4-dioxygenase; QDO, oxidoreductase;
2.60A {Pseudomonas putida}
Length = 264
Score = 26.7 bits (59), Expect = 9.5
Identities = 9/62 (14%), Positives = 16/62 (25%), Gaps = 8/62 (12%)
Query: 137 DRGNR---RVALR--PELTPSLARLVIQKGKSVSLPLKWFAVGQCWRYERMTRGRRREHY 191
G V + L + +I P W + + GR+
Sbjct: 95 SHGCWVNIDVCEQLGAAR---LPKTIIIDWLLQPHPGFWQQLAEGQHPTEYVAGRQSFFD 151
Query: 192 QW 193
+W
Sbjct: 152 EW 153
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
0.322 0.138 0.414
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,790,052
Number of extensions: 298774
Number of successful extensions: 752
Number of sequences better than 10.0: 1
Number of HSP's gapped: 726
Number of HSP's successfully gapped: 41
Length of query: 302
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 209
Effective length of database: 4,105,140
Effective search space: 857974260
Effective search space used: 857974260
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: 57 (25.7 bits)