RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1870
(264 letters)
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 264 bits (676), Expect = 5e-86
Identities = 104/216 (48%), Positives = 147/216 (68%), Gaps = 7/216 (3%)
Query: 18 KGERSQIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISV 77
+ SQIY+++P L+GTAE+G+A Y M+ ++ LP ++ S CYRAE
Sbjct: 260 NAKPSQIYNIDP-SRFEDLNLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTCYRAETDT 318
Query: 78 VADEKGVYRVHCFTKIEMFGVTLP--EDSEKQLEQFLQFEESLFGELGIHTRTLNMGANE 135
+ G+YRVH FTK+EMFGVT P E S + LE+FL + + ELG+H R L+M E
Sbjct: 319 GKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSLQMEILTELGLHFRVLDMPTQE 378
Query: 136 LGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR--TEDGK--FAHTLNGTAC 191
LG AY+K+D+EAWMPGR +GE++S S+CTD+Q+RRL+I TE G+ FAHT+N T C
Sbjct: 379 LGLPAYRKFDIEAWMPGRGRFGEVTSASNCTDFQSRRLHIMFQTEAGELQFAHTVNATGC 438
Query: 192 AIPRLLMALVETHQNQDGTVNIPECLQPFMFNKRII 227
A+PRLL+AL+E++Q +DG+V +P LQP++ RI
Sbjct: 439 AVPRLLIALLESYQQKDGSVLVPPALQPYLGTDRIT 474
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 232 bits (593), Expect = 3e-74
Identities = 90/215 (41%), Positives = 123/215 (57%), Gaps = 20/215 (9%)
Query: 24 IYHLEP-NYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVA--- 79
IY +E + Y L TAE +A N+ L LP +S C+R E A
Sbjct: 239 IYKVEDEDLY-----LIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKE----AGTA 289
Query: 80 --DEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELG 137
D KG++RVH F K+E F + PE+S + E+ ++ E LF EL I R +N+ +LG
Sbjct: 290 GKDTKGIFRVHQFHKVEQFVYSRPEESWEWHEKIIRNAEELFQELEIPYRVVNICTGDLG 349
Query: 138 AQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR---TEDGK--FAHTLNGTACA 192
A KKYD+EAWMPG+ + E+ S S+CTD+QARRLNIR D K + HTLN TA A
Sbjct: 350 YVAAKKYDIEAWMPGQGKFREVVSASNCTDWQARRLNIRFRDRTDEKPRYVHTLNSTAIA 409
Query: 193 IPRLLMALVETHQNQDGTVNIPECLQPFMFNKRII 227
R ++A++E HQ +DGTV IP+ L + K I+
Sbjct: 410 TSRAIVAILENHQEEDGTVRIPKVLWKYTGFKEIV 444
>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus
thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A*
1set_A* 1sry_A
Length = 421
Score = 222 bits (569), Expect = 6e-71
Identities = 67/215 (31%), Positives = 114/215 (53%), Gaps = 19/215 (8%)
Query: 23 QIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVA--- 79
Q++ + L+GTAE+ + + LP LP + A + +R+E A
Sbjct: 211 QVWAIA----ETDLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSE----AGSF 262
Query: 80 --DEKGVYRVHCFTKIEMFGVTLP--EDSEKQLEQFLQFEESLFGELGIHTRTLNMGANE 135
D +G+ RVH F K+E + +T E S++ ++ L+ E + L + R + + +
Sbjct: 263 GKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGD 322
Query: 136 LGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR--TEDGK--FAHTLNGTAC 191
+G +++ D+E ++P + E SCS D+QARR N+R +G+ +A+TLN TA
Sbjct: 323 MGPGKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTAL 382
Query: 192 AIPRLLMALVETHQNQDGTVNIPECLQPFMFNKRI 226
A PR+L L+E HQ QDG V +P+ L P+M + +
Sbjct: 383 ATPRILAMLLENHQLQDGRVRVPQALIPYMGKEVL 417
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 222 bits (568), Expect = 8e-70
Identities = 89/263 (33%), Positives = 127/263 (48%), Gaps = 18/263 (6%)
Query: 14 KINSKGERSQIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRA 73
K+ KG + Y L T+E IA ++ L LP + A +S C+R
Sbjct: 249 KVIGKGSEKSDDNSYDEKY-----LIATSEQPIAALHRDEWLRPEDLPIKYAGLSTCFRQ 303
Query: 74 EI-SVVADEKGVYRVHCFTKIEMFGVTLPED--SEKQLEQFLQFEESLFGELGIHTRTLN 130
E+ S D +G++RVH F KIE F + P D S + E+ + E + LGI +N
Sbjct: 304 EVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLGIPYHIVN 363
Query: 131 MGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR-----TEDGK--FA 183
+ + L A KK D+EAW PG + EL SCS+CTDYQARRL IR K F
Sbjct: 364 IVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDKVEFV 423
Query: 184 HTLNGTACAIPRLLMALVETHQNQDGTVNIPECLQPFMFN--KRIIGDTRGAPSLVKVKT 241
H LN T CA R + A++E +Q + G + +PE L+ FM + +I + AP +
Sbjct: 424 HMLNATMCATTRTICAILENYQTEKG-ITVPEKLKEFMPPGLQELIPFVKPAPIEQEPSK 482
Query: 242 GISKAKKKVLAKAALNNVKVAEG 264
K + KAA +V +
Sbjct: 483 KQKKQHEGSKKKAAARDVTLENR 505
>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 = 220 bits (563), Expect = 3e-69
Identities = 84/245 (34%), Positives = 123/245 (50%), Gaps = 31/245 (12%)
Query: 23 QIYHL---EPNYYGNGWCLSGTAEMGIARYLMNQTL--PESQLPKQIAAMSKCYRAEISV 77
++Y + E Y L T+E I+ Y + P QLP + A S C+R E
Sbjct: 230 ELYKVIDGEDEKY-----LIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRRE--- 281
Query: 78 VA-----DEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELGIHTRTLNMG 132
A D G++RVH F KIE F +T PE S ++ ++ + E + LG+ R + +
Sbjct: 282 -AGSHGKDAWGIFRVHAFEKIEQFVLTEPEKSWEEFDRMIGCSEEFYQSLGLPYRVVGIV 340
Query: 133 ANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR-----TEDGK--FAHT 185
+ EL A KKYD+EAW P ++ + EL SCS+CTDYQ+R L IR + + H
Sbjct: 341 SGELNNAAAKKYDLEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHC 400
Query: 186 LNGTACAIPRLLMALVETHQNQDGTVNIPECLQPFMFN-KRIIGDTRGAPSLVKVKTGIS 244
LN T A R + ++E +Q +DG V IPE L+ ++ I + P K T +
Sbjct: 401 LNSTLSATERTICCILENYQKEDGLV-IPEVLRKYIPGEPEFIPYIKELP---KNTTSVK 456
Query: 245 KAKKK 249
KAK K
Sbjct: 457 KAKGK 461
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 217 bits (555), Expect = 9e-68
Identities = 67/211 (31%), Positives = 114/211 (54%), Gaps = 11/211 (5%)
Query: 23 QIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEI-SVVADE 81
Q++ + L+GTAE+ + + LP LP + A + +R+E S D
Sbjct: 320 QVWAIA----ETDLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDV 375
Query: 82 KGVYRVHCFTKIEMFGVTLP--EDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELGAQ 139
+G+ RVH F K+E + +T E S++ ++ L+ E + L + R + + ++G
Sbjct: 376 RGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPG 435
Query: 140 AYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR--TEDGK--FAHTLNGTACAIPR 195
+++ D+E ++P + E SCS D+QARR N+R +G+ +A+TLN TA A PR
Sbjct: 436 KWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTALATPR 495
Query: 196 LLMALVETHQNQDGTVNIPECLQPFMFNKRI 226
+L L+E HQ QDG V +P+ L P+M + +
Sbjct: 496 ILAMLLENHQLQDGRVRVPQALIPYMGKEVL 526
>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 = 212 bits (541), Expect = 5e-66
Identities = 82/238 (34%), Positives = 119/238 (50%), Gaps = 19/238 (7%)
Query: 23 QIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEI-SVVADE 81
++Y + + G+ L T+EM IA Y + E + P + A MS C+R E + D
Sbjct: 253 ELYQVSGD--GDKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEAGAHGRDT 310
Query: 82 KGVYRVHCFTKIEMFGVTLP--EDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELGAQ 139
G++RVH F KIE F V P E+S + LE + E LG+ R +N+ + L
Sbjct: 311 LGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNICSGALNNA 370
Query: 140 AYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR--------TEDGK--FAHTLNGT 189
A KKYD+EAW P + EL SCS+CTDYQ++ +N R + H LNGT
Sbjct: 371 AAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVKEYCHMLNGT 430
Query: 190 ACAIPRLLMALVETHQNQDGTVNIPECLQPFMFNKRIIGDTRGAPSLVKVKTGISKAK 247
CAI R + + E +Q ++G V IP+ L+P+M +I A T K +
Sbjct: 431 LCAITRTMCCICENYQTEEG-VVIPDVLRPYMMGIEMIRFENNAQ---AEGTTPDKGE 484
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 196 bits (500), Expect = 1e-60
Identities = 74/212 (34%), Positives = 115/212 (54%), Gaps = 18/212 (8%)
Query: 25 YHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVA----- 79
Y E + L TAE+ + + L E LP + A + CYR E A
Sbjct: 219 YKCE----RDNLYLIPTAEVPLTNLYREEILKEENLPIYLTAYTPCYRRE----AGAYGK 270
Query: 80 DEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELGAQ 139
D +G+ R H F K+E+ + P+ S +LE+ ++ E + LG+ R + + +LG
Sbjct: 271 DIRGIIRQHQFDKVELVKIVHPDTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFS 330
Query: 140 AYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR---TEDGK--FAHTLNGTACAIP 194
A K YD+E W P + + E+SSCS+C D+QARR+N R ++ GK F HTLNG+ A+
Sbjct: 331 AAKTYDIEVWFPSQNKYREISSCSNCEDFQARRMNTRFKDSKTGKNRFVHTLNGSGLAVG 390
Query: 195 RLLMALVETHQNQDGTVNIPECLQPFMFNKRI 226
R L A++E +Q +DG+V +PE L+ ++ I
Sbjct: 391 RTLAAILENYQQEDGSVVVPEVLRDYVGTDVI 422
>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 = 160 bits (406), Expect = 1e-47
Identities = 35/209 (16%), Positives = 70/209 (33%), Gaps = 23/209 (11%)
Query: 23 QIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEK 82
L P LS A + ++ + + C+R E S K
Sbjct: 135 WTTSLSPADL----VLSPAACYPVYPIAASRGPLPKG-GLRFDVAADCFRREPS-----K 184
Query: 83 GVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELGA---- 138
+ R+ F E + P+D E+++ +++ +LG+ R G
Sbjct: 185 HLDRLQSFRMREYVCIGTPDDVSDFRERWMVRAQAIARDLGLTFRVDYASDPFFGRVGQM 244
Query: 139 ------QAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIRTEDGKFAHTLNGTACA 192
Q K+++ + + S + ++ I+ +G+ AHT A
Sbjct: 245 KAVSQKQQQLKFELLIPLRSEEQPTACMSFNYHREHFGTTWGIQDANGEPAHT-GCVAFG 303
Query: 193 IPRLLMALVETHQNQDGTVNIPECLQPFM 221
+ RL +A+ TH P ++ +
Sbjct: 304 MDRLAVAMFHTHGTDLS--AWPAKVRDIL 330
>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 = 146 bits (369), Expect = 7e-41
Identities = 36/202 (17%), Positives = 66/202 (32%), Gaps = 20/202 (9%)
Query: 34 NGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMS-KCYRAEISVVADEKGVYRVHCFTK 92
+ Y+ +TLP ++P ++ S +R E G+ RV F +
Sbjct: 317 PIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESG---GIHGIERVDEFHR 373
Query: 93 IEMFGVTLPEDSEKQLEQFLQFEESLFGE-LGIHTRTLNMGANELG---------AQAYK 142
IE+ + E+ K E+ +F + L I R + +
Sbjct: 374 IEIVWIGTKEEVLKCAEELHDRYMHIFNDILDIEWRKARVTPWFMAQEGLLGLAEENTVG 433
Query: 143 KYDVEAWMPGRKH---WGELSSCSDCTDYQARRLNIRTEDGKFAHTLNGTACAIPRLLMA 199
D EA +P R W E + S D + N++ + G + + + R
Sbjct: 434 TTDYEACLPYRGPDGEWLEFQNVSINGDKYPKGFNVKLQSGDELWS-GCSGVGLERWAAV 492
Query: 200 LVETHQNQDGTVNIPECLQPFM 221
+ N PE + +
Sbjct: 493 FLAQKGLDPA--NWPEEFRNRV 512
>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 = 68.7 bits (167), Expect = 2e-13
Identities = 46/300 (15%), Positives = 90/300 (30%), Gaps = 78/300 (26%)
Query: 10 ECNSKINSKGERSQIYHLEPNYYGNGWCLSGTAEMGIARY-----------LMNQTLPES 58
E + I SK S L W L E + ++ LM+ E
Sbjct: 50 EIDHIIMSKDAVSGTLRLF-------WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ 102
Query: 59 QLPKQIAAMSKCYRAEI---SVVADEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFE 115
+ P + M R + + V + V R+ + K+ + L + L+
Sbjct: 103 RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR-----------QALLE-LRPA 150
Query: 116 E--SLFGELGIHTRTLNMGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRL 173
+ + G LG G + Y V+ M + W L +C+
Sbjct: 151 KNVLIDGVLGS-------GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 174 NIRTEDGKFAHTLNGTACAIP-----------RLLMALVETHQN-----QDGTVNIPECL 217
+ + + + + I RLL + + ++N + V +
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS--KPYENCLLVLLN--VQNAKAW 259
Query: 218 QPFMFNKRIIGDTRGA-------------PSLVKVKTGISKAK-KKVLAKAALNNVKVAE 263
F + +I+ TR SL ++ + K +L K + + +
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL--DCRPQD 317
>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 = 47.9 bits (114), Expect = 1e-06
Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 8/113 (7%)
Query: 59 QLPKQIAAMSKCYRAEISVVADEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESL 118
+L IA + K +R EI+ ++RV F ++E+ P + E +++
Sbjct: 207 KLGFGIAQIGKAFRNEITP---RNFIFRVREFEQMEIEYFVRPGEDEYWHRYWVEERLKW 263
Query: 119 FGELGIHT---RTLNMGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDY 168
+ E+G+ A D+ P EL + TD+
Sbjct: 264 WQEMGLSRENLVPYQQPPESSAHYAKATVDILYRFPH--GSLELEGIAQRTDF 314
>3ikl_A DNA polymerase subunit gamma-2, mitochondrial; transferase; HET:
DNA; 3.10A {Homo sapiens}
Length = 459
Score = 45.9 bits (108), Expect = 5e-06
Identities = 22/169 (13%), Positives = 50/169 (29%), Gaps = 13/169 (7%)
Query: 4 GHCNALECNSKINSKGERSQIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQ 63
+AL G+ + L N + Y+ L +LP
Sbjct: 126 FPVDALHHKPGPLLPGDSAFRGGLREN----------LLHGALEHYVNCLDLVNKRLPYG 175
Query: 64 IAAMSKCYRAEISVVADEKGVYRVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELG 123
+A + C+ GV + T+ + T P S + L+ +L+ + +
Sbjct: 176 LAQIGVCFHPVFDTKQIRNGVKSIGEKTEASLVWFTPPRTSNQWLDFWLRHRLQWWRKFA 235
Query: 124 IHTRTLNMGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARR 172
+ + + + K + P + + + D++
Sbjct: 236 MSPSNFSSSDCQ-DEEGRKGNKLYYNFPW--GKELIETLWNLGDHELLH 281
>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four
helix bundle, DNA binding protein; 1.95A {Mus musculus}
SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*
Length = 454
Score = 42.0 bits (98), Expect = 1e-04
Identities = 18/144 (12%), Positives = 45/144 (31%), Gaps = 3/144 (2%)
Query: 26 HLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEKGVY 85
LE +G + + Y+ L +LP +A + C+ + V
Sbjct: 128 FLENLLKTSGKLRATLLHGALEHYVNCLDLVNRKLPFGLAQIGVCFHPVSNSNQTPSSVT 187
Query: 86 RVHCFTKIEMFGVTLPEDSEKQLEQFLQFEESLFGELGIHTRTLNMGANELGAQAYKKYD 145
RV T+ + T S + L+ +L+ + + + + + +
Sbjct: 188 RVGEKTEASLVWFTPTRTSSQWLDFWLRHRLLWWRKFAMSPSNFSSADCQ---DELGRKG 244
Query: 146 VEAWMPGRKHWGELSSCSDCTDYQ 169
+ + + + + D +
Sbjct: 245 SKLYYSFPWGKEPIETLWNLGDQE 268
>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 = 34.5 bits (79), Expect = 0.025
Identities = 22/91 (24%), Positives = 30/91 (32%), Gaps = 17/91 (18%)
Query: 37 CLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEKGVYRVHCFTKIEM- 95
CL + YL P +I + CYR E +D K + FT +
Sbjct: 132 CLRPMLTPNLYNYLRKL-DRALPDPIKIFEIGPCYRKE----SDGKE--HLEEFTMLVFW 184
Query: 96 -FGVTLP-EDSEKQLEQFLQFEESLFGELGI 124
G E+ E + FL LGI
Sbjct: 185 QMGSGCTRENLESIITDFLN-------HLGI 208
>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 = 35.0 bits (80), Expect = 0.025
Identities = 43/256 (16%), Positives = 73/256 (28%), Gaps = 82/256 (32%)
Query: 53 QTLPESQLPKQIAAMSKCYRAE------ISVVADEKGVYRVHCFTKIEMFGVTLPEDSEK 106
+ P + LP I S E +S+ + + + LP K
Sbjct: 312 EAYPNTSLPPSILEDS-LENNEGVPSPMLSI----SNLTQEQVQDYVNKTNSHLPAG--K 364
Query: 107 QLEQFL-----QF-----EESLFGELGIHTRTL--NMGANELGAQAYKKYDVEAWMPGRK 154
Q+E L +SL+G L + R G + Q+ + RK
Sbjct: 365 QVEISLVNGAKNLVVSGPPQSLYG-LNLTLRKAKAPSGLD----QSRIPFS------ERK 413
Query: 155 --------------HWGELSSCSD--CTDYQARRLNIRTEDGKFA--HTLNG------TA 190
H L SD D ++ +D + T +G +
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 191 CAIPRLLMALVETHQNQDGTVNIPECLQPFMFNK-RII----GDTRGAPSLV-KVK--TG 242
R++ ++ V Q F I+ G G L + K TG
Sbjct: 474 SISERIVDCIIRLP------VKWETTTQ---FKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 243 ISKAKKKVLAKAALNN 258
+ +V+ L+
Sbjct: 525 V-----RVIVAGTLDI 535
Score = 34.6 bits (79), Expect = 0.029
Identities = 44/262 (16%), Positives = 73/262 (27%), Gaps = 115/262 (43%)
Query: 19 GERSQIYH----LEPNYY------GNGW-----CLSGTAEMGIARYL--MNQTLPESQLP 61
G R + L P+ G +S + + Y+ N LP
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG--- 363
Query: 62 KQIAAMSKCYRAEIS--------VVADEKG----VYRVHCF------------TKIEM-- 95
KQ+ EIS VV+ G +Y ++ ++I
Sbjct: 364 KQV---------EISLVNGAKNLVVS---GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE 411
Query: 96 ----FG-----VTLP------EDSEKQLEQFLQFEESLF--GELGI---HTRTLNMGANE 135
F V P + + + L F ++ I T G++
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD---GSD- 467
Query: 136 LGAQAYKKYD----VEAWMPGRKHWGELSSCSDCTDYQARRLNIRTEDGKFAHTLN---G 188
+ V+ + W T ++A T H L+ G
Sbjct: 468 --LRVLSGSISERIVDCIIRLPVKWET------TTQFKA------T------HILDFGPG 507
Query: 189 TACAIPRLLMALVETHQNQDGT 210
A + L TH+N+DGT
Sbjct: 508 GASGLGVL------THRNKDGT 523
Score = 30.8 bits (69), Expect = 0.56
Identities = 24/143 (16%), Positives = 35/143 (24%), Gaps = 61/143 (42%)
Query: 94 EMFGVTLPEDSEK---------QLE---QFLQF--------EESLFGEL----------- 122
E F LPE +E E +FL + + F ++
Sbjct: 35 EQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC 94
Query: 123 ---G--IHTRTLNMGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIRT 177
G IH + K ++ + AR + R
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNY------------------ITARIMAKRP 136
Query: 178 EDGK-----FAHTLNGTA--CAI 193
D K F G A AI
Sbjct: 137 FDKKSNSALFRAVGEGNAQLVAI 159
>1n9p_A GIRK1, G protein-activated inward rectifier potassium CH; beta
barrel, cytoplasmic domain, inward rectifier potassium
channel, metal transport; 1.80A {Mus musculus} SCOP:
b.1.18.16 PDB: 3k6n_A 1u4e_A
Length = 207
Score = 28.0 bits (62), Expect = 2.5
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 77 VVADEKGVYRVHCFTKI-EMFGVTLPEDSEKQLEQFLQFEESL 118
V++ E+G ++V +++ F V P S K+ E+ L L
Sbjct: 166 VISLEEGFFKVD-YSQFHATFEVPTPPYSVKEQEEMLLMSSPL 207
>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase,
ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A
2zni_A
Length = 288
Score = 27.5 bits (61), Expect = 3.9
Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 12/68 (17%)
Query: 60 LPKQIAAMSKCYRAEISVVADEKGVYRVHCFTK--IEMFGVTLPEDSEKQLEQFLQFEES 117
P +I + CYR E G ++ FT + G P + ++
Sbjct: 148 KPIRIFEIGTCYRKESQ------GAQHLNEFTMLNLTELG--TPLEER--HQRLEDMARW 197
Query: 118 LFGELGIH 125
+ GI
Sbjct: 198 VLEAAGIR 205
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 28.0 bits (62), Expect = 3.9
Identities = 19/127 (14%), Positives = 36/127 (28%), Gaps = 34/127 (26%)
Query: 47 ARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEKGVYRVHC--FTKIEMFGVTLPED- 103
LMN+ LP ++ ++ +C+R E D + H + E
Sbjct: 214 VSDLMNK----KPLPFKLFSIDRCFRRE--QKED-----KSHLMTYHSAS--CAIAGEGV 260
Query: 104 SEKQLEQFLQ-FEESLFGELGIHTRTLNMGANELGAQAYKKY-------DVEAWMPGRKH 155
+ + + KY +V A+ P K
Sbjct: 261 DINDGKAIAEGLLSQFGFT-NFKFIP---------DEKKSKYYTPETQTEVYAYHPKLKE 310
Query: 156 WGELSSC 162
W E+++
Sbjct: 311 WLEVATF 317
>4aez_B MAD2, mitotic spindle checkpoint component MAD2; cell cycle,
KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}
Length = 203
Score = 27.0 bits (59), Expect = 5.5
Identities = 6/65 (9%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 51 MNQTLPESQLPKQIAA--MSKCYRAEISVVADEKGVYRVHCFTKIEMFGVTLPEDSEKQL 108
M+ + + ++ +S+ + ++ + ++G+Y F + +G+ + ++++
Sbjct: 1 MSSVPIRTNFSAKGSSKLVSEFFEYAVNSILFQRGIYPAEDFKVVRKYGLNMLVSVDEEV 60
Query: 109 EQFLQ 113
+ +++
Sbjct: 61 KTYIR 65
>1iby_A Nitrosocyanin; RED copper, cupredoxin, beta hairpin, metal
binding protein; 1.65A {Nitrosomonas europaea} SCOP:
b.6.1.4 PDB: 1ibz_A 1ic0_A
Length = 112
Score = 26.0 bits (57), Expect = 6.0
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 73 AEISVVADEKGVYRVHC 89
IS AD+ G + + C
Sbjct: 79 KTISFTADKAGAFTIWC 95
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 26.9 bits (59), Expect = 8.9
Identities = 19/127 (14%), Positives = 36/127 (28%), Gaps = 34/127 (26%)
Query: 47 ARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEKGVYRVHC--FTKIEMFGVTLPED- 103
LMN+ LP ++ ++ +C+R E D + H + E
Sbjct: 214 VSDLMNK----KPLPFKLFSIDRCFRRE--QKED-----KSHLMTYHSAS--CAIAGEGV 260
Query: 104 SEKQLEQFLQ-FEESLFGELGIHTRTLNMGANELGAQAYKKY-------DVEAWMPGRKH 155
+ + + KY +V A+ P K
Sbjct: 261 DINDGKAIAEGLLSQFGFT-NFKFIP---------DEKKSKYYTPETQTEVYAYHPKLKE 310
Query: 156 WGELSSC 162
W E+++
Sbjct: 311 WLEVATF 317
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 26.9 bits (59), Expect = 9.7
Identities = 19/127 (14%), Positives = 36/127 (28%), Gaps = 34/127 (26%)
Query: 47 ARYLMNQTLPESQLPKQIAAMSKCYRAEISVVADEKGVYRVHC--FTKIEMFGVTLPED- 103
LMN+ LP ++ ++ +C+R E D + H + E
Sbjct: 214 VSDLMNK----KPLPFKLFSIDRCFRRE--QKED-----KSHLMTYHSAS--CAIAGEGV 260
Query: 104 SEKQLEQFLQ-FEESLFGELGIHTRTLNMGANELGAQAYKKY-------DVEAWMPGRKH 155
+ + + KY +V A+ P K
Sbjct: 261 DINDGKAIAEGLLSQFGFT-NFKFIP---------DEKKSKYYTPETQTEVYAYHPKLKE 310
Query: 156 WGELSSC 162
W E+++
Sbjct: 311 WLEVATF 317
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.133 0.399
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,024,595
Number of extensions: 231718
Number of successful extensions: 561
Number of sequences better than 10.0: 1
Number of HSP's gapped: 526
Number of HSP's successfully gapped: 28
Length of query: 264
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 172
Effective length of database: 4,133,061
Effective search space: 710886492
Effective search space used: 710886492
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.9 bits)