BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 043456
(447 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QNE|A Chain A, Candida Albicans Seryl-Trna Synthetase
pdb|3QO7|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
pdb|3QO8|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Candida
Albicans
Length = 485
Score = 443 bits (1139), Expect = e-125, Method: Compositional matrix adjust.
Identities = 235/442 (53%), Positives = 302/442 (68%), Gaps = 21/442 (4%)
Query: 1 MLDINLFREEKGGIPEKIRESQRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNKIN 60
MLDIN F EKGG PE I+ SQ++R SV+LVDEII+ K+W +L+FD++ + K+LN +
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 61 KQIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWA--AVKAKLEVVGNLVHDSVPV 118
K+I + + +D +++ + ++ + KE+ +EA A +++K+ VGN+VH+SV
Sbjct: 61 KEIGKRFKAKEDAKDLIAEKEKLSNEK--KEIIEKEAEADKNLRSKINQVGNIVHESVVD 118
Query: 119 SNDEANNAIVRTWG-EKRTEP-----------KLKNHVELVELLGIADLKKGADIAGGRG 166
S DE NN +VRTW E +P KL +H L+ L G D ++G I G RG
Sbjct: 119 SQDEENNELVRTWTPENYKKPEQIAAATGAPAKLSHHEVLLRLDGY-DPERGVRIVGHRG 177
Query: 167 FYLKGDGVRLNQALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFDEELYKVTGE 226
++L+ GV LNQALIN+GL FL K Y L P M KEVMAK AQL+QFDEELYKV
Sbjct: 178 YFLRNYGVFLNQALINYGLSFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVIDG 237
Query: 227 GDDKYLIATAEQPLCAYHIDDWIH-PSE-LPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQ 284
D+KYLIAT+EQP+ AYH +W P+E LP+RYAGYSSCFR+EAGSHG+D GIFRVH
Sbjct: 238 EDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHA 297
Query: 285 FEKVEQFCITSPNGNDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXX 344
FEK+EQF +T P SW+ + MI SEEFYQ L +PY+VV IVSG
Sbjct: 298 FEKIEQFVLTEPE--KSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYDLE 355
Query: 345 XWFPASQTYRELVSCSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCI 404
WFP Q Y+ELVSCSNCTDYQSR LEIR G K+ N+Q K+YVH LNSTL+ATERTICCI
Sbjct: 356 AWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTICCI 415
Query: 405 LENYQKEDGVEVPEVLQPFMGG 426
LENYQKEDG+ +PEVL+ ++ G
Sbjct: 416 LENYQKEDGLVIPEVLRKYIPG 437
>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
Length = 485
Score = 442 bits (1137), Expect = e-124, Method: Compositional matrix adjust.
Identities = 235/442 (53%), Positives = 302/442 (68%), Gaps = 21/442 (4%)
Query: 1 MLDINLFREEKGGIPEKIRESQRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNKIN 60
MLDIN F EKGG PE I+ SQ++R SV+LVDEII+ K+W +L+FD++ + K+LN +
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 61 KQIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWA--AVKAKLEVVGNLVHDSVPV 118
K+I + + +D +++ + ++ + KE+ +EA A +++K+ VGN+VH+SV
Sbjct: 61 KEIGKRFKAKEDAKDLIAEKEKLSNEK--KEIIEKEAEADKNLRSKINQVGNIVHESVVD 118
Query: 119 SNDEANNAIVRTWG-EKRTEP-----------KLKNHVELVELLGIADLKKGADIAGGRG 166
S DE NN +VRTW E +P KL +H L+ L G D ++G I G RG
Sbjct: 119 SQDEENNELVRTWTPENYKKPEQIAAATGAPAKLSHHEVLLRLDGY-DPERGVRIVGHRG 177
Query: 167 FYLKGDGVRLNQALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFDEELYKVTGE 226
++L+ GV LNQALIN+GL FL K Y L P M KEVMAK AQL+QFDEELYKV
Sbjct: 178 YFLRNYGVFLNQALINYGLLFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVIDG 237
Query: 227 GDDKYLIATAEQPLCAYHIDDWIH-PSE-LPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQ 284
D+KYLIAT+EQP+ AYH +W P+E LP+RYAGYSSCFR+EAGSHG+D GIFRVH
Sbjct: 238 EDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHA 297
Query: 285 FEKVEQFCITSPNGNDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXX 344
FEK+EQF +T P SW+ + MI SEEFYQ L +PY+VV IVSG
Sbjct: 298 FEKIEQFVLTEPE--KSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYDLE 355
Query: 345 XWFPASQTYRELVSCSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCI 404
WFP Q Y+ELVSCSNCTDYQSR LEIR G K+ N+Q K+YVH LNSTL+ATERTICCI
Sbjct: 356 AWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTICCI 415
Query: 405 LENYQKEDGVEVPEVLQPFMGG 426
LENYQKEDG+ +PEVL+ ++ G
Sbjct: 416 LENYQKEDGLVIPEVLRKYIPG 437
>pdb|3VBB|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|C Chain C, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|D Chain D, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|E Chain E, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|F Chain F, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
Length = 522
Score = 418 bits (1075), Expect = e-117, Method: Compositional matrix adjust.
Identities = 222/461 (48%), Positives = 291/461 (63%), Gaps = 39/461 (8%)
Query: 1 MLDINLFREEKGGIPEKIRESQRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNKIN 60
+LD++LFR +KGG P IRE+Q +RF LVD+++ D +WR+ +F +N K N +
Sbjct: 2 VLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADSEWRRCRFRADNLNKLKNLCS 61
Query: 61 KQIAQLKLSGKD--------------FSEMVTKTNEIKQQSADKEVEVREAWAAVKA--- 103
K I + K+ K+ F ++ + S K+V + A +K
Sbjct: 62 KTIGE-KMKKKEPVGDDESVPENVLSFDDLTADALANLKVSQIKKVRLLIDEAILKCDAE 120
Query: 104 --KLEV--------VGNLVHDSVPVSNDE-ANNAIVRTWGEKRTEPKLKNHVELVELLGI 152
KLE +GNL+H SVP+SNDE +N + R WG+ K +HV+LV ++
Sbjct: 121 RIKLEAERFENLREIGNLLHPSVPISNDEDVDNKVERIWGDCTVRKKY-SHVDLVVMVDG 179
Query: 153 ADLKKGADIAGGRGFYLKGDGVRLNQALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQ 212
+ +KGA +AG RG++LKG V L QALI + L L + Y ++TPFFMRKEVM + AQ
Sbjct: 180 FEGEKGAVVAGSRGYFLKGVLVFLEQALIQYALRTLGSRGYIPIYTPFFMRKEVMQEVAQ 239
Query: 213 LAQFDEELYKVTGEG---------DDKYLIATAEQPLCAYHIDDWIHPSELPIRYAGYSS 263
L+QFDEELYKV G+G D+KYLIAT+EQP+ A H D+W+ P +LPI+YAG S+
Sbjct: 240 LSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAALHRDEWLRPEDLPIKYAGLST 299
Query: 264 CFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNDSWDMHEEMIKNSEEFYQMLKIPY 323
CFR+E GSHGRDT GIFRVHQFEK+EQF +SP+ N SW+M EEMI +EEFYQ L IPY
Sbjct: 300 CFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLGIPY 359
Query: 324 QVVAIVSGXXXXXXXXXXXXXXWFPASQTYRELVSCSNCTDYQSRRLEIRYGQKKSNEQT 383
+V IVSG WFP S +RELVSCSNCTDYQ+RRL IRYGQ K
Sbjct: 360 HIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDK 419
Query: 384 KQYVHLLNSTLTATERTICCILENYQKEDGVEVPEVLQPFM 424
++VH+LN+T+ AT RTIC ILENYQ E G+ VPE L+ FM
Sbjct: 420 VEFVHMLNATMCATTRTICAILENYQTEKGITVPEKLKEFM 460
>pdb|3LSQ|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSQ|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSS|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
pdb|3LSS|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
Length = 484
Score = 403 bits (1036), Expect = e-113, Method: Compositional matrix adjust.
Identities = 212/460 (46%), Positives = 287/460 (62%), Gaps = 37/460 (8%)
Query: 1 MLDINLFREEKGGIPEKIRESQRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELN--- 57
+LDI LFR+E G IRESQRRRFA D+VD II DKKWR+ QF E +K +N
Sbjct: 7 VLDIQLFRDETGA--NIIRESQRRRFADPDIVDAIIEADKKWRRTQFLTEASKKLINICS 64
Query: 58 -----------------KINKQIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWAA 100
+I Q+ + +G E V + ++ + K++ + A A
Sbjct: 65 KAVGAKKKAKEADGDTSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAGLA 124
Query: 101 VKAK---------LEVVGNLVHDSVPVSNDE-ANNAIVRTWGEKRTEPKLKNHVELVELL 150
+A+ + VGN++H+SVP++ DE N +VRT+G KL NHV ++E L
Sbjct: 125 KEAQQLEEERDKLMLNVGNILHESVPIAQDEETGNTVVRTFGNTTKRAKL-NHVSIMERL 183
Query: 151 GIADLKKG-ADIAGGRGFYLKGDGVRLNQALINFGLDFLEKKSYTLLHTPFFMRKEVMAK 209
G+ D K +AGGR + LKG V+L AL+++ LDFL K+ YT + PFF+ ++VM +
Sbjct: 184 GMMDTSKAVTSMAGGRSYVLKGGLVQLQVALVSYSLDFLVKRGYTPFYPPFFLNRDVMGE 243
Query: 210 CAQLAQFDEELYKVTGEGDDKYLIATAEQPLCAYHIDDWIHPSELPIRYAGYSSCFRKEA 269
AQL+QFDEELY+V+G+GD KYLIAT+E P+ AYH W + P++YAG S+CFRKEA
Sbjct: 244 VAQLSQFDEELYQVSGDGDKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEA 303
Query: 270 GSHGRDTLGIFRVHQFEKVEQFCITSPNGNDSWDMHEEMIKNSEEFYQMLKIPYQVVAIV 329
G+HGRDTLGIFRVHQF+K+EQF + SP +SW E+MI SEEF + L +PY+VV I
Sbjct: 304 GAHGRDTLGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNIC 363
Query: 330 SGXXXXXXXXXXXXXXWFPASQTYRELVSCSNCTDYQSRRLEIRYG---QKKSNEQTKQY 386
SG WFPAS +RELVSCSNCTDYQS+ + RYG + + + K+Y
Sbjct: 364 SGALNNAAAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVKEY 423
Query: 387 VHLLNSTLTATERTICCILENYQKEDGVEVPEVLQPFMGG 426
H+LN TL A RT+CCI ENYQ E+GV +P+VL+P+M G
Sbjct: 424 CHMLNGTLCAITRTMCCICENYQTEEGVVIPDVLRPYMMG 463
>pdb|2DQ0|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2DQ0|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2ZR2|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR2|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR3|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
pdb|2ZR3|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
Length = 455
Score = 315 bits (806), Expect = 4e-86, Method: Compositional matrix adjust.
Identities = 181/454 (39%), Positives = 256/454 (56%), Gaps = 34/454 (7%)
Query: 1 MLDINLFREEKGGIPEKIRES--QRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNK 58
MLDI L RE PE ++ +R V VDEI+ LD +WR ++ R E NK
Sbjct: 1 MLDIKLIREN----PELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNK 56
Query: 59 INKQIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWAAVKAKLEVVGNLVHDSVPV 118
I +I + + G+ E++ K+ EI ++ + E EV E + L + N+ H SVPV
Sbjct: 57 IAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKIDYYLWRLPNITHPSVPV 116
Query: 119 SNDEANNAIVRTWGEKRT---------------------EPKLKNHVELVELLGIADLKK 157
DE +N +R WG+ R E K K HV+L+E+LG AD +
Sbjct: 117 GKDENDNVPIRFWGKARVWKGHLERFLEQSQGKMEYEILEWKPKLHVDLLEILGGADFAR 176
Query: 158 GADIAGGRGFYLKGDGVRLNQALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFD 217
A ++G R +YL + V L+ ALI F LD L +K +T + P+ +R+ V F+
Sbjct: 177 AAKVSGSRFYYLLNEIVILDLALIRFALDRLIEKGFTPVIPPYMVRRFVEEGSTSFEDFE 236
Query: 218 EELYKVTGEGDDKYLIATAEQPLCAYHIDDWIHPSELPIRYAGYSSCFRKEAGSHGRDTL 277
+ +YKV E +D YLI TAE PL H ++ + +LP+ Y G S CFRKEAG+ G+DT
Sbjct: 237 DVIYKV--EDEDLYLIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKEAGTAGKDTK 294
Query: 278 GIFRVHQFEKVEQFCITSPNGNDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXX 337
GIFRVHQF KVEQF + P +SW+ HE++I+N+EE +Q L+IPY+VV I +G
Sbjct: 295 GIFRVHQFHKVEQFVYSRP--EESWEWHEKIIRNAEELFQELEIPYRVVNICTGDLGYVA 352
Query: 338 XXXXXXXXWFPASQTYRELVSCSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTAT 397
W P +RE+VS SNCTD+Q+RRL IR+ + ++ +YVH LNST AT
Sbjct: 353 AKKYDIEAWMPGQGKFREVVSASNCTDWQARRLNIRF--RDRTDEKPRYVHTLNSTAIAT 410
Query: 398 ERTICCILENYQKEDG-VEVPEVLQPFMGGKTFL 430
R I ILEN+Q+EDG V +P+VL + G K +
Sbjct: 411 SRAIVAILENHQEEDGTVRIPKVLWKYTGFKEIV 444
>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
Length = 425
Score = 302 bits (774), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 175/428 (40%), Positives = 255/428 (59%), Gaps = 15/428 (3%)
Query: 2 LDINLFREEKGGIPEKIRESQRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNKINK 61
+DINL RE+ + E++ R V LVD+++ LDK+ R++ +E R E NK++K
Sbjct: 2 IDINLIREKPDYVKERL---ATRDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLSK 58
Query: 62 QIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWAAVKAKLEVVGNLVHDSVPVSND 121
+I +LK GKD +E+ + E+K++ E E+R+ +K L + NL H SVPV D
Sbjct: 59 EIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNTLLWIPNLPHPSVPVGED 118
Query: 122 EANNAIVRTWGEKRT---EPKLKNHVELVELLGIADLKKGADIAGGRGFYLKGDGVRLNQ 178
E +N VR WGE R EP K H E+ E LGI D K+GA ++G R + G G RL +
Sbjct: 119 EKDNVEVRRWGEPRKFDFEP--KPHWEIGERLGILDFKRGAKLSGSRFTVIAGWGARLER 176
Query: 179 ALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFDEELYKVTGEGDDKYLIATAEQ 238
ALINF LD KK Y + P ++ E++ QL +F+E+LYK E D+ YLI TAE
Sbjct: 177 ALINFXLDLHTKKGYKEICPPHLVKPEILIGTGQLPKFEEDLYKC--ERDNLYLIPTAEV 234
Query: 239 PLCAYHIDDWIHPSELPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNG 298
PL + ++ + LPI Y+ C+R+EAG++G+D GI R HQF+KVE I P
Sbjct: 235 PLTNLYREEILKEENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQFDKVELVKIVHP-- 292
Query: 299 NDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXXXWFPASQTYRELVS 358
+ S+D E+++K++EE Q+L +PY+VV + +G WFP+ YRE+ S
Sbjct: 293 DTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFSAAKTYDIEVWFPSQNKYREISS 352
Query: 359 CSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCILENYQKEDG-VEVP 417
CSNC D+Q+RR R+ K+ + ++VH LN + A RT+ ILENYQ+EDG V VP
Sbjct: 353 CSNCEDFQARRXNTRFKDSKTGKN--RFVHTLNGSGLAVGRTLAAILENYQQEDGSVVVP 410
Query: 418 EVLQPFMG 425
EVL+ ++G
Sbjct: 411 EVLRDYVG 418
>pdb|1SRY|A Chain A, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SRY|B Chain B, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SER|A Chain A, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SER|B Chain B, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SES|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SES|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
Length = 421
Score = 198 bits (504), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 129/428 (30%), Positives = 216/428 (50%), Gaps = 18/428 (4%)
Query: 1 MLDINLFREEKGGIPEKIRES--QRRRFASVDLVDEIISLDKKWRQLQFDVENYRKELNK 58
M+D+ R+E IRE A + L E+ L K+ +++Q E N+
Sbjct: 1 MVDLKRLRQEPEVFHRAIREKGVALDLEALLALDREVQELKKRLQEVQ-------TERNQ 53
Query: 59 INKQIAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWAAVKAKLEVVGNLVHDSVPV 118
+ K++ K ++ ++ + + +++ E +RE A ++A L V PV
Sbjct: 54 VAKRVP--KAPPEEKEALIARGKALGEEAKRLEEALREKEARLEALLLQVPLPPWPGAPV 111
Query: 119 SNDEANNAIVRTWGEKRTEPKLKNHVELVELLGIADLKKGADIAGGRGFYLKGDGVRLNQ 178
+EAN I R G +HV L+E G + + + ++G R + LKGD
Sbjct: 112 GGEEANREIKRVGGPPEFSFPPLDHVALMEKNGWWE-PRISQVSGSRSYALKGDLALYEL 170
Query: 179 ALINFGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFDEELYKVTGEGDDKYLIATAEQ 238
AL+ F +DF+ ++ + + P + R++ + ++++ + D YL TAE
Sbjct: 171 ALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIAE--TDLYLTGTAEV 228
Query: 239 PLCAYHIDDWIHPSELPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNG 298
L A H + + LP+RYAGY+ FR EAGS G+D G+ RVHQF KVEQ+ +T +
Sbjct: 229 VLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASL 288
Query: 299 NDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXXXWFPASQTYRELVS 358
S +E+++N+EE ++L++PY++V + +G + P+ YRE S
Sbjct: 289 EASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWRQVDIEVYLPSEGRYRETHS 348
Query: 359 CSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCILENYQKEDG-VEVP 417
CS D+Q+RR +RY + E +Y + LN+T AT R + +LEN+Q +DG V VP
Sbjct: 349 CSALLDWQARRANLRY---RDPEGRVRYAYTLNNTALATPRILAMLLENHQLQDGRVRVP 405
Query: 418 EVLQPFMG 425
+ L P+MG
Sbjct: 406 QALIPYMG 413
>pdb|3ERR|A Chain A, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
pdb|3ERR|B Chain B, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
Length = 536
Score = 194 bits (493), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 114/368 (30%), Positives = 191/368 (51%), Gaps = 12/368 (3%)
Query: 63 IAQLKLSGKDFSEMVTKTNEIKQQSADKEVEVREAWAAVKAKLEVVGNLVHDSVPVSNDE 122
IAQL ++++M+ + ++ + E + ++ ++A L V PV +E
Sbjct: 170 IAQL-----NYADMLKRVEPLRNELQKLEDDAKDNQQKLEALLLQVPLPPWPGAPVGGEE 224
Query: 123 ANNAIVRTWGEKRTEPKLKNHVELVELLGIADLKKGADIAGGRGFYLKGDGVRLNQALIN 182
AN I R G +HV L+E G + + + ++G R + LKGD AL+
Sbjct: 225 ANREIKRVGGPPEFSFPPLDHVALMEKNGWWE-PRISQVSGSRSYALKGDLALYELALLR 283
Query: 183 FGLDFLEKKSYTLLHTPFFMRKEVMAKCAQLAQFDEELYKVTGEGDDKYLIATAEQPLCA 242
F +DF+ ++ + + P + R++ + ++++ + D YL TAE L A
Sbjct: 284 FAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIAE--TDLYLTGTAEVVLNA 341
Query: 243 YHIDDWIHPSELPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNDSW 302
H + + LP+RYAGY+ FR EAGS G+D G+ RVHQF KVEQ+ +T + S
Sbjct: 342 LHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASD 401
Query: 303 DMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXXXWFPASQTYRELVSCSNC 362
+E+++N+EE ++L++PY++V + +G + P+ YRE SCS
Sbjct: 402 RAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWRQVDIEVYLPSEGRYRETHSCSAL 461
Query: 363 TDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCILENYQKEDG-VEVPEVLQ 421
D+Q+RR +RY + E +Y + LN+T AT R + +LEN+Q +DG V VP+ L
Sbjct: 462 LDWQARRANLRY---RDPEGRVRYAYTLNNTALATPRILAMLLENHQLQDGRVRVPQALI 518
Query: 422 PFMGGKTF 429
P+MG +
Sbjct: 519 PYMGKEVL 526
>pdb|1WLE|A Chain A, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
pdb|1WLE|B Chain B, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
Length = 501
Score = 173 bits (438), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 122/412 (29%), Positives = 200/412 (48%), Gaps = 35/412 (8%)
Query: 35 IISLDKKWRQLQFDVENYRKE------------LNKINKQIAQLKLSGKDFSEMVTKTNE 82
IIS ++ RQL+ + + +E +N+ N Q+ Q + + + E
Sbjct: 72 IISTWQELRQLREQIRSLEEEKEAVTEAVRALVVNQDNSQVQQ----DPQYQSLRARGRE 127
Query: 83 IKQQSA---DKEVEVREAWAAVKAKLEVVGNLVHDSVPVSNDEANNAIVRTWGEKRT--- 136
I++Q KE ++ E + +L N H VPV DE+ ++ G+K
Sbjct: 128 IRKQLTLLYPKEAQLEEQFYLRALRLP---NQTHPDVPV-GDESQARVLHVVGDKPAFSF 183
Query: 137 EPKLKNHVELVELLGIADLKKGADIAGGRGFYLKGDGVRLNQALINFGLDFLEKKSYTLL 196
+P+ H+E+ E L I K+ + ++G R +YL+G G L L+NF L+ L + +T +
Sbjct: 184 QPR--GHLEIAEKLDIIRQKRLSHVSGHRSYYLRGAGALLQHGLVNFTLNKLIHRGFTPM 241
Query: 197 HTPFFMRKEVMAKCAQLAQF-DEELYKV-TGEGDDKYLIATAEQPLCAYHIDDWIHPSEL 254
P +R V C ++Y + +D L TAE L Y +D + +L
Sbjct: 242 TVPDLLRGVVFEGCGMTPNAKPSQIYNIDPSRFEDLNLAGTAEVGLAGYFMDHSVAFRDL 301
Query: 255 PIRYAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNDSWDMHEEMIKNSEE 314
PIR S+C+R E + G++ G++RVH F KVE F +T P S ++ EE + E
Sbjct: 302 PIRMVCSSTCYRAETDT-GKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSLQME 360
Query: 315 FYQMLKIPYQVVAIVSGXXXXXXXXXXXXXXWFPASQTYRELVSCSNCTDYQSRRLEIRY 374
L + ++V+ + + W P + E+ S SNCTD+QSRRL I +
Sbjct: 361 ILTELGLHFRVLDMPTQELGLPAYRKFDIEAWMPGRGRFGEVTSASNCTDFQSRRLHIMF 420
Query: 375 GQKKSNEQTKQYVHLLNSTLTATERTICCILENYQKEDG-VEVPEVLQPFMG 425
Q ++ E Q+ H +N+T A R + +LE+YQ++DG V VP LQP++G
Sbjct: 421 -QTEAGE--LQFAHTVNATGCAVPRLLIALLESYQQKDGSVLVPPALQPYLG 469
>pdb|1NJ1|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Cysteine
Sulfamoyl Adenylate
pdb|1NJ2|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus
pdb|1NJ5|A Chain A, Crystal Structure Of Prolyl-trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Proline
Sulfamoyl Adenylate
pdb|1NJ6|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Alanine
Sulfamoyl Adenylate
Length = 501
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 63/301 (20%), Positives = 125/301 (41%), Gaps = 34/301 (11%)
Query: 129 RTWGEKRTEPK--LKNHVELVELLGIADLKKGADIAGGRGFYLKGDGVRLNQALINFGLD 186
R GEK TE N +E E++ KG + GF ++ + +++ + +++
Sbjct: 31 RYHGEKMTEFSEWFHNILEEAEIIDQRYPVKGMHVWMPHGFMIRKNTLKILRRILD---- 86
Query: 187 FLEKKSYTLLHTPFFMRKEVMAKCA-QLAQFDEELYKVTGEGDDKY-----LIATAEQ-- 238
+ + + P + ++ +AK A + F++E+Y VT G K L T+E
Sbjct: 87 ----RDHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVTHGGLSKLQRKLALRPTSETVM 142
Query: 239 -PLCAYHIDDWIHP-SELPIRYAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSP 296
P+ A W+ ++LP+R+ + FR E H R + + + F++ T+
Sbjct: 143 YPMFAL----WVRSHTDLPMRFYQVVNTFRYET-KHTRPLIRVREITTFKEAHTIHATAS 197
Query: 297 NGNDSWDMHEEMIKNSEEFYQMLKIPYQVVAIVSGXXXXXXXXXXXXXXWFPASQTYREL 356
+ + E+ K EF+ L IPY + P +T ++
Sbjct: 198 EAEEQVERAVEIYK---EFFNSLGIPYLITRRPPWDKFPGSEYTVAFDTLMPDGKTL-QI 253
Query: 357 VSCSNCTDYQSRRLEIRYGQKKSNEQTKQYVHLLNSTLTATERTICCILENYQKEDGVEV 416
+ N +R EI++ ++ E +YVH + ++R I ++ + E G+ +
Sbjct: 254 GTVHNLGQTFARTFEIKF---ETPEGDHEYVH--QTCYGLSDRVIASVIAIHGDESGLCL 308
Query: 417 P 417
P
Sbjct: 309 P 309
>pdb|3GVP|A Chain A, Human Sahh-Like Domain Of Human Adenosylhomocysteinase 3
pdb|3GVP|B Chain B, Human Sahh-Like Domain Of Human Adenosylhomocysteinase 3
pdb|3GVP|C Chain C, Human Sahh-Like Domain Of Human Adenosylhomocysteinase 3
pdb|3GVP|D Chain D, Human Sahh-Like Domain Of Human Adenosylhomocysteinase 3
Length = 435
Score = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 258 YAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNDS 301
Y Y + F+K G G+ R++Q K + C+ + N NDS
Sbjct: 147 YKKYPNMFKKIKGIVEESVTGVHRLYQLSKAGKLCVPAMNVNDS 190
>pdb|3MTG|A Chain A, Crystal Structure Of Human S-Adenosyl Homocysteine
Hydrolase Protein
pdb|3MTG|B Chain B, Crystal Structure Of Human S-Adenosyl Homocysteine
Hydrolase Protein
Length = 444
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 258 YAGYSSCFRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNDS 301
Y Y + F+K G G+ R++Q K + C+ + N NDS
Sbjct: 152 YKKYPNVFKKIRGIVEESVTGVHRLYQLSKAGKLCVPAMNVNDS 195
>pdb|3UGQ|A Chain A, Crystal Structure Of The Apo Form Of The Yeast
Mitochondrial Threonyl- Trna Synthetase Determined At
2.1 Angstrom Resolution
pdb|3UGT|A Chain A, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase - Orthorhombic Crystal Form
pdb|3UGT|B Chain B, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase - Orthorhombic Crystal Form
pdb|3UGT|C Chain C, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase - Orthorhombic Crystal Form
pdb|3UGT|D Chain D, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase - Orthorhombic Crystal Form
pdb|3UH0|A Chain A, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase (Mst1) In Complex With Threonyl Sulfamoyl
Adenylate
pdb|4EO4|A Chain A, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase (Mst1) In Complex With Seryl Sulfamoyl
Adenylate
pdb|4EO4|B Chain B, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase (Mst1) In Complex With Seryl Sulfamoyl
Adenylate
pdb|4EO4|C Chain C, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase (Mst1) In Complex With Seryl Sulfamoyl
Adenylate
pdb|4EO4|D Chain D, Crystal Structure Of The Yeast Mitochondrial Threonyl-Trna
Synthetase (Mst1) In Complex With Seryl Sulfamoyl
Adenylate
Length = 460
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 63/148 (42%), Gaps = 8/148 (5%)
Query: 154 DLKKGADIAGGRGFYLKGDGVRLNQALINF-GLDFLEKKSYTLLHTPFFMRKEVMAKCAQ 212
DL ++ G F+L +G ++ LI F L K + + TP +K + K
Sbjct: 45 DLFMTDPLSPGSMFFLP-NGAKIFNKLIEFMKLQQKFKFGFNEVVTPLIYKKTLWEKSGH 103
Query: 213 LAQFDEELYKVTGEGDDK--YLIATAEQP-LCAYHIDDWIHPSELPIRYAGYSSCFRKEA 269
+ ++++KV ++K Y + P C +ELP+R++ +S R EA
Sbjct: 104 WENYADDMFKVETTDEEKEEYGLKPMNCPGHCLIFGKKDRSYNELPLRFSDFSPLHRNEA 163
Query: 270 GSHGRDTLGIFRVHQFEKVEQFCITSPN 297
G+ R+ +F + + +P+
Sbjct: 164 SGA---LSGLTRLRKFHQDDGHIFCTPS 188
>pdb|2BDD|A Chain A, Crystal Structure Of Holo-Acp-Synthase From Plasmodium
Yoelii
Length = 182
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 23/116 (19%), Positives = 59/116 (50%), Gaps = 15/116 (12%)
Query: 29 VDLVDEIISLDKKWRQLQFDVENYRKELNKINKQIAQLKLSGKDFSEMVTKTNEIKQQSA 88
+ + +I+ +++ ++ L+ ++ +K LN ++A+ + K +E + K+NE+K+ +
Sbjct: 25 IGIGTDILCVNRIYKILEKNINFIKKVLNPF--ELAEFETQKKKLNEKINKSNELKKLA- 81
Query: 89 DKEVEVREAWAAVKAKLEVVG---------NLVHDSVPVSNDEANNAIVRTWGEKR 135
+ V + +AA +A L+ +G L + + + ND+ V +G+ +
Sbjct: 82 ---IYVSKKFAAKEAILKSMGRGLSSISKYGLSMNDIEIKNDKYGKPHVYLYGKAK 134
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,497,792
Number of Sequences: 62578
Number of extensions: 508441
Number of successful extensions: 1531
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1480
Number of HSP's gapped (non-prelim): 42
length of query: 447
length of database: 14,973,337
effective HSP length: 102
effective length of query: 345
effective length of database: 8,590,381
effective search space: 2963681445
effective search space used: 2963681445
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)