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= 011948
(474 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CT9|A Chain A, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|B Chain B, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|C Chain C, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|D Chain D, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
Length = 553
Score = 485 bits (1249), Expect = e-137, Method: Compositional matrix adjust.
Identities = 242/444 (54%), Positives = 312/444 (70%), Gaps = 12/444 (2%)
Query: 2 LDGMFSFVLLDTRDNSFIVARDAIGITSLYIGWGLDGSIWISSELKGLNDDCEHFEAFPP 61
L GMF+F L D+ +++++ RD +GI LY+G+ G ++++SE+K L C + FP
Sbjct: 117 LQGMFAFALYDSEKDAYLIGRDHLGIIPLYMGYDEHGQLYVASEMKALVPVCRTIKEFPA 176
Query: 62 GHLYSSKSGGLKRWYNPTWYS-EAIPSTPYDPLVLRQAFENAVIKRLMTDVPFXXXXXXX 120
G S+ G ++ +Y+ W+ +A+ D LRQA E++V LM+DVP+
Sbjct: 177 GSYLWSQDGEIRSYYHRDWFDYDAVKDNVTDKNELRQALEDSVKSHLMSDVPYGVLLSGG 236
Query: 121 XXXXXXXXIT----ARHLAGTKAARQWGTQLHSFCVGLEGSPDLKYAKEVADYLGTVHHE 176
IT AR + + + W QLHSF VGL GSPDLK A+EVA++LGTVHHE
Sbjct: 237 LDSSIISAITKKYAARRVEDQERSEAWWPQLHSFAVGLPGSPDLKAAQEVANHLGTVHHE 296
Query: 177 FHFTVQDGIDAIEEVIYHVETYDVTTIRASTPMFLMSRKIKSLGVKMVISGEGSDEIFGG 236
HFTVQ+G+DAI +VIYH+ETYDVTTIRASTPM+LMSRKIK++G+KMV+SGEGSDE+FGG
Sbjct: 297 IHFTVQEGLDAIRDVIYHIETYDVTTIRASTPMYLMSRKIKAMGIKMVLSGEGSDEVFGG 356
Query: 237 YLYFHKAPNKEEFHRETCHKIKALHQYDCLRANKSTSAWGLEARVPFLDKDFINVAMAID 296
YLYFHKAPN +E H ET K+ ALH YDC RANK+ SAWG+EARVPFLDK F++VAM I+
Sbjct: 357 YLYFHKAPNAKELHEETVRKLLALHMYDCARANKAMSAWGVEARVPFLDKKFLDVAMRIN 416
Query: 297 PEWKMINPQEGRIEKWILRKAFDDEERPYLPKHVLYRQKEQFSDGVGYSWIDGLKAHAEQ 356
P+ KM G++EK ILR+ F+ YLP V +RQKEQFSDGVGYSWID LK A Q
Sbjct: 417 PQDKMCG--NGKMEKHILRECFE----AYLPASVAWRQKEQFSDGVGYSWIDTLKEVAAQ 470
Query: 357 HVTDKMVQNAQYIFPHNTPLTKEAYYYRMIFERFFPQNSARLTVPGGASVACSTAKAVEW 416
V+D+ ++ A++ FP+NTP +KEAY YR IFE FP SA VPGG SVACS+AKA+EW
Sbjct: 471 QVSDQQLETARFRFPYNTPTSKEAYLYREIFEELFPLPSAAECVPGGPSVACSSAKAIEW 530
Query: 417 DAEWANNLDPSGRAALGVHLSAYE 440
D + DPSGR A+GVH SAY+
Sbjct: 531 DEAFKKMDDPSGR-AVGVHQSAYK 553
>pdb|1Q15|A Chain A, Carbapenam Synthetase
pdb|1Q15|B Chain B, Carbapenam Synthetase
pdb|1Q15|C Chain C, Carbapenam Synthetase
pdb|1Q15|D Chain D, Carbapenam Synthetase
pdb|1Q19|A Chain A, Carbapenam Synthetase
pdb|1Q19|B Chain B, Carbapenam Synthetase
pdb|1Q19|C Chain C, Carbapenam Synthetase
pdb|1Q19|D Chain D, Carbapenam Synthetase
Length = 503
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 54/206 (26%), Positives = 106/206 (51%), Gaps = 12/206 (5%)
Query: 137 TKAARQWGTQLHSFCVGLEGSPDLKYAKEVADYLGTVHHEFHFTVQDGIDAIEEVIYHVE 196
T A + +L+++ +G E S + +++++VAD LGT H + + I+ I E IY+ E
Sbjct: 255 TALASRHFKKLNTYSIGTELSNEFEFSQQVADALGTHHQMKILSETEVINGIIESIYYNE 314
Query: 197 TYDVTTIRASTPMFLMSRKIKSLGVKMVISGEGSDEIFGGYLY-FHKAPNKEEFHRETCH 255
+D + + +F + R+ + V +++G GSD +FGG L + N + E +
Sbjct: 315 IFDGLSAEIQSGLFNVYRQAQG-QVSCMLTGYGSDLLFGGILKPGAQYDNPNQLLAEQVY 373
Query: 256 KIKALHQYDCLRANKSTSAWGLEARVPFLDKDFINVAMAIDPEWKMINPQEGRIEKWILR 315
+ + ++ A S +G++ R PF I++ A+ P++K+ + + K ILR
Sbjct: 374 RTRWTGEF----ATHGASCYGIDIRHPFWSHSLISLCHALHPDYKIFDNE----VKNILR 425
Query: 316 KAFDDEERPYLPKHVLYRQKEQFSDG 341
+ D + LPK +++R+K +G
Sbjct: 426 EYADSLQ--LLPKDIVWRKKIGIHEG 449
>pdb|1JGT|A Chain A, Crystal Structure Of Beta-Lactam Synthetase
pdb|1JGT|B Chain B, Crystal Structure Of Beta-Lactam Synthetase
pdb|1M1Z|A Chain A, Beta-Lactam Synthetase Apo Enzyme
pdb|1M1Z|B Chain B, Beta-Lactam Synthetase Apo Enzyme
pdb|1MB9|A Chain A, Beta-Lactam Synthetase Complexed With Atp
pdb|1MB9|B Chain B, Beta-Lactam Synthetase Complexed With Atp
pdb|1MBZ|A Chain A, Beta-Lactam Synthetase With Trapped Intermediate
pdb|1MBZ|B Chain B, Beta-Lactam Synthetase With Trapped Intermediate
pdb|1MC1|A Chain A, Beta-Lactam Synthetase With Product (Dgpc), Amp And Ppi
pdb|1MC1|B Chain B, Beta-Lactam Synthetase With Product (Dgpc), Amp And Ppi
Length = 513
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 44/208 (21%), Positives = 87/208 (41%), Gaps = 17/208 (8%)
Query: 140 ARQWGTQLHSFCVGLEGSPDLKYAKEVADYLGTVHHEFHFTVQDGIDAIEEVIYHVETYD 199
A + +L + +G + S + + A+ V D+L T H E + + + ++ E+ D
Sbjct: 261 AHRAAGELDTVSMGTDTSNEFREARAVVDHLRTRHREITIPTTELLAQLPYAVWASESVD 320
Query: 200 VTTIRASTPMFLMSRKIKSLGVKMVISGEGSDEIFGGYLYFHKAPNKEEFHRETCHKIKA 259
I P+ + R + + +++G G+D GG H+ H +
Sbjct: 321 PDIIEYLLPLTALYRALDG-PERRILTGYGADIPLGG---MHREDRLPALDTVLAHDMAT 376
Query: 260 LHQYDCLRANKSTSA--WGLEARVPFLDKDFINVAMAIDPEWKMINPQEGRIEKWILRKA 317
+ + ST A W P+ D++ +++ ++++ K + GR +KW+LR A
Sbjct: 377 FDGLNEMSPVLSTLAGHWTTH---PYWDREVLDLLVSLEAGLKR---RHGR-DKWVLRAA 429
Query: 318 FDDEERPYLPKHVLYRQKEQFSDGVGYS 345
D LP + R K +G G +
Sbjct: 430 MADA----LPAETVNRPKLGVHEGSGTT 453
>pdb|3EQX|A Chain A, Crystal Structure Of A Fic Family Protein (So_4266) From
Shewanella Oneidensis At 1.6 A Resolution
pdb|3EQX|B Chain B, Crystal Structure Of A Fic Family Protein (So_4266) From
Shewanella Oneidensis At 1.6 A Resolution
Length = 373
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 359 TDKMVQNAQYIFPHNTPLTKEAYYYRMIFERFFPQNSARLTVPGGASVACSTAKAVEWD 417
TDK+ Q AQ P TKEA YR + F Q S R A CST K+V+ D
Sbjct: 80 TDKLFQYAQE-DSQADPXTKEALRYRTALYQCFTQLSNRPLCVTTALEICSTIKSVQXD 137
>pdb|1DPE|A Chain A, Dipeptide-Binding Protein
Length = 507
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 17 SFIVARDAIGITSLYIGWGLDGSIWISSELKGLNDDCEHFEAFPPGHLYSSKSGGLKRWY 76
++ V +DAI I ++Y G G+ I + G NDD + + P K GL++ +
Sbjct: 286 TYAVNKDAI-IKAVYQGAGVSAKNLIPPTMWGYNDDVQDYTYDPEKAKALLKEAGLEKGF 344
Query: 77 NPTWYSEAIPSTPYDPLVLRQA 98
+ ++ + PY+P R A
Sbjct: 345 SIDLWAMPV-QRPYNPNARRMA 365
>pdb|1DPP|A Chain A, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|C Chain C, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|E Chain E, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|G Chain G, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
Length = 507
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 17 SFIVARDAIGITSLYIGWGLDGSIWISSELKGLNDDCEHFEAFPPGHLYSSKSGGLKRWY 76
++ V +DAI I ++Y G G+ I + G NDD + + P K GL++ +
Sbjct: 286 TYAVNKDAI-IKAVYQGAGVSAKNLIPPTMWGYNDDVQDYTYDPEKAKALLKEAGLEKGF 344
Query: 77 NPTWYSEAIPSTPYDPLVLRQA 98
+ ++ + PY+P R A
Sbjct: 345 SIDLWAMPV-QRPYNPNARRMA 365
>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
Phosphate
pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And
Carbamoyl Phosphate
Length = 658
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 23/55 (41%)
Query: 23 DAIGITSLYIGWGLDGSIWISSELKGLNDDCEHFEAFPPGHLYSSKSGGLKRWYN 77
D I +T IG G +G++W L+ +CEH P L + W N
Sbjct: 406 DVIALTLDGIGMGENGALWGGECLRVNYRECEHLGGLPAVALPGGDLAAKQPWRN 460
>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And
Carbamoyl Phosphate
pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
Phosphate
pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
Phosphate
Length = 657
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 23/55 (41%)
Query: 23 DAIGITSLYIGWGLDGSIWISSELKGLNDDCEHFEAFPPGHLYSSKSGGLKRWYN 77
D I +T IG G +G++W L+ +CEH P L + W N
Sbjct: 406 DVIALTLDGIGMGENGALWGGECLRVNYRECEHLGGLPAVALPGGDLAAKQPWRN 460
>pdb|1TT8|A Chain A, Chorismate Lyase With Product, 1.0 A Resolution
Length = 164
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 37/96 (38%), Gaps = 14/96 (14%)
Query: 259 ALHQYDCLRANKSTSAWGLEARVPFLDKDFINVAMAIDPEWKMINPQEGRIEKWILRKAF 318
AL Q LR +K +P LD ++ + D K Q + ++R+ F
Sbjct: 4 ALTQLRALRYSKE---------IPALDPQLLDWLLLEDSMTKRFEQQGKTVSVTMIREGF 54
Query: 319 DD-----EERPYLPKHVLYRQKEQFSDGVGYSWIDG 349
+ EE P LPK Y +E G W+ G
Sbjct: 55 VEQNEIPEELPLLPKESRYWLREILLSADGEPWLAG 90
>pdb|1FW9|A Chain A, Chorismate Lyase With Bound Product
pdb|2AHC|A Chain A, Chorismate Lyase With Inhibitor Vanilate
pdb|2AHC|B Chain B, Chorismate Lyase With Inhibitor Vanilate
pdb|2AHC|C Chain C, Chorismate Lyase With Inhibitor Vanilate
pdb|2AHC|D Chain D, Chorismate Lyase With Inhibitor Vanilate
Length = 164
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 37/96 (38%), Gaps = 14/96 (14%)
Query: 259 ALHQYDCLRANKSTSAWGLEARVPFLDKDFINVAMAIDPEWKMINPQEGRIEKWILRKAF 318
AL Q LR +K +P LD ++ + D K Q + ++R+ F
Sbjct: 4 ALTQLRALRYSKE---------IPALDPQLLDWLLLEDSMTKRFEQQGKTVSVTMIREGF 54
Query: 319 DD-----EERPYLPKHVLYRQKEQFSDGVGYSWIDG 349
+ EE P LPK Y +E G W+ G
Sbjct: 55 VEQNEIPEELPLLPKESRYWLREILLSADGEPWLAG 90
>pdb|3SAE|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDQ|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDR|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDT|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDU|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDV|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
Length = 817
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 44/103 (42%), Gaps = 22/103 (21%)
Query: 268 ANKSTSAWGLEA----RVPFLDKDFINVAMAIDPEWK-MINPQ-----EGRIE------K 311
AN + WG + + P++D + A + E K M+NP E I
Sbjct: 28 ANPHPNVWGYDLVHSLKSPYIDSSYRERAEVLVSEIKAMLNPAITGDGESMITPSAYDTA 87
Query: 312 WILR-KAFDDEERPYLPKHVLYRQKEQFSDGVGYSWIDGLKAH 353
W+ R A D RP P+ V + K Q DG SW G+++H
Sbjct: 88 WVARVPAIDGSARPQFPQTVDWILKNQLKDG---SW--GIQSH 125
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
0.320 0.135 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,756,984
Number of Sequences: 62578
Number of extensions: 610209
Number of successful extensions: 1402
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1392
Number of HSP's gapped (non-prelim): 11
length of query: 474
length of database: 14,973,337
effective HSP length: 102
effective length of query: 372
effective length of database: 8,590,381
effective search space: 3195621732
effective search space used: 3195621732
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)