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= 042593
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V7J|A Chain A, Co-crystal Structure Of Wild Type Rat Polymerase Beta:
Enzyme-dna Binary Complex
Length = 340
Score = 31.2 bits (69), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + N ++ T I A + E ++ E ++K K
Sbjct: 78 IDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 137
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 138 NHHQRIGLKYFEDFEKRIPREEML 161
>pdb|3V7K|A Chain A, Co-crystal Structure Of K72e Variant Of Rat Polymerase
Beta: Enzyme- Dna Binary Complex
pdb|3V7L|A Chain A, Apo Structure Of Rat Dna Polymerase Beta K72e Variant
Length = 340
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + N ++ T I A + E ++ E ++K K
Sbjct: 78 IDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 137
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 138 NHHQRIGLKYFEDFEKRIPREEML 161
>pdb|2BPF|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|2BPG|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|2BPG|B Chain B, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|1HUO|A Chain A, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUO|B Chain B, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUZ|A Chain A, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|1HUZ|B Chain B, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|1BPD|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta: Evidence For
A Common Polymerase Mechanism
pdb|3UXN|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta, Wild Type
Apoenzyme
pdb|3UXN|B Chain B, Crystal Structure Of Rat Dna Polymerase Beta, Wild Type
Apoenzyme
Length = 335
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + N ++ T I A + E ++ E ++K K
Sbjct: 73 IDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 132
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 133 NHHQRIGLKYFEDFEKRIPREEML 156
>pdb|3V72|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta Mutator
E295k: Enzyme- Dsdna
Length = 335
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + N ++ T I A + E ++ E ++K K
Sbjct: 73 IDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 132
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 133 NHHQRIGLKYFEDFEKRIPREEML 156
>pdb|3UXO|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta Mutator I260q
Apoenzyme
pdb|3UXO|B Chain B, Crystal Structure Of Rat Dna Polymerase Beta Mutator I260q
Apoenzyme
pdb|3UXP|A Chain A, Co-Crystal Structure Of Rat Dna Polymerase Beta Mutator
I260q: Enzyme- Dna-Ddttp
pdb|3UXP|B Chain B, Co-Crystal Structure Of Rat Dna Polymerase Beta Mutator
I260q: Enzyme- Dna-Ddttp
Length = 335
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + N ++ T I A + E ++ E ++K K
Sbjct: 73 IDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 132
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 133 NHHQRIGLKYFEDFEKRIPREEML 156
>pdb|3PJF|A Chain A, Structure Of Enr G93v Mutant-Nad+-Triclosan Complex
pdb|3PJF|B Chain B, Structure Of Enr G93v Mutant-Nad+-Triclosan Complex
Length = 270
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 172 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 225
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 226 GNSAAFL--CSDLSAGISGEVVHV 247
>pdb|3PJE|A Chain A, Structure Of Enr G93s Mutant-Nad+-Triclosan Complex
pdb|3PJE|B Chain B, Structure Of Enr G93s Mutant-Nad+-Triclosan Complex
Length = 270
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 172 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 225
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 226 GNSAAFL--CSDLSAGISGEVVHV 247
>pdb|3PJD|A Chain A, Structure Of Enr G93a Mutant-Nad+-Triclosan Complex
pdb|3PJD|B Chain B, Structure Of Enr G93a Mutant-Nad+-Triclosan Complex
Length = 270
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 172 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 225
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 226 GNSAAFL--CSDLSAGISGEVVHV 247
>pdb|1DFG|A Chain A, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad And Benzo-Diazaborine
pdb|1DFG|B Chain B, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad And Benzo-Diazaborine
pdb|1DFH|A Chain A, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad And Thieno-Diazaborine
pdb|1DFH|B Chain B, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad And Thieno-Diazaborine
pdb|1DFI|A Chain A, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad
pdb|1DFI|B Chain B, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad
pdb|1DFI|C Chain C, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad
pdb|1DFI|D Chain D, X-Ray Structure Of Escherichia Coli Enoyl Reductase With
Bound Nad
pdb|1QG6|A Chain A, Crystal Structure Of E. Coli Enoyl Acyl Carrier Protein
Reductase In Complex With Nad And Triclosan
pdb|1QG6|B Chain B, Crystal Structure Of E. Coli Enoyl Acyl Carrier Protein
Reductase In Complex With Nad And Triclosan
pdb|1QG6|C Chain C, Crystal Structure Of E. Coli Enoyl Acyl Carrier Protein
Reductase In Complex With Nad And Triclosan
pdb|1QG6|D Chain D, Crystal Structure Of E. Coli Enoyl Acyl Carrier Protein
Reductase In Complex With Nad And Triclosan
pdb|1D8A|A Chain A, E. Coli Enoyl ReductaseNAD+TRICLOSAN COMPLEX
pdb|1D8A|B Chain B, E. Coli Enoyl ReductaseNAD+TRICLOSAN COMPLEX
Length = 261
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 171 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 224
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 225 GNSAAFL--CSDLSAGISGEVVHV 246
>pdb|1BPE|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta; Evidence For
A Common Polymerase Mechanism
Length = 335
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 37/84 (44%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ D + N ++ T I A + E ++ E ++K K
Sbjct: 73 IDEFLATGKLRKLEKIRRDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKL 132
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + + F+K + E+L
Sbjct: 133 NHHQRIGLKYFEDFEKRIPREEML 156
>pdb|1C14|A Chain A, Crystal Structure Of E Coli Enoyl Reductase-nad+-triclosan
Complex
pdb|1C14|B Chain B, Crystal Structure Of E Coli Enoyl Reductase-nad+-triclosan
Complex
pdb|1I2Z|A Chain A, E. Coli Enoyl Reductase In Complex With Nad And Brl-12654
pdb|1I2Z|B Chain B, E. Coli Enoyl Reductase In Complex With Nad And Brl-12654
pdb|1I30|A Chain A, E. Coli Enoyl Reductase +nad+sb385826
pdb|1I30|B Chain B, E. Coli Enoyl Reductase +nad+sb385826
pdb|1LX6|A Chain A, Crystal Structure Of E. Coli Enoyl Reductase-Nad+ With A
Bound Benzamide Inhibitor
pdb|1LX6|B Chain B, Crystal Structure Of E. Coli Enoyl Reductase-Nad+ With A
Bound Benzamide Inhibitor
pdb|1LXC|A Chain A, Crystal Structure Of E. Coli Enoyl Reductase-Nad+ With A
Bound Acrylamide Inhibitor
pdb|1LXC|B Chain B, Crystal Structure Of E. Coli Enoyl Reductase-Nad+ With A
Bound Acrylamide Inhibitor
pdb|1MFP|A Chain A, E. Coli Enoyl Reductase In Complex With Nad And Sb611113
pdb|1MFP|B Chain B, E. Coli Enoyl Reductase In Complex With Nad And Sb611113
pdb|2FHS|A Chain A, Structure Of Acyl Carrier Protein Bound To Fabi, The Enoyl
Reductase From Escherichia Coli
pdb|2FHS|B Chain B, Structure Of Acyl Carrier Protein Bound To Fabi, The Enoyl
Reductase From Escherichia Coli
Length = 262
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 172 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 225
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 226 GNSAAFL--CSDLSAGISGEVVHV 247
>pdb|1QSG|A Chain A, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|B Chain B, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|C Chain C, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|D Chain D, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|E Chain E, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|F Chain F, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|G Chain G, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
pdb|1QSG|H Chain H, Crystal Structure Of Enoyl Reductase Inhibition By
Triclosan
Length = 265
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 215 FAMHGMGKEAVENFERMQKVGLKPNRSWRIGEEGLKFFDKMVEECEVLPDIKHYGCLIDI 274
+ + MG E V R+ + P R+ + G+K F KM+ CE + I+ + D+
Sbjct: 175 YMANAMGPEGV----RVNAISAGPIRT--LAASGIKDFRKMLAHCEAVTPIRRTVTIEDV 228
Query: 275 LERAGRLEQAEEVASGIPSQITNV 298
A L ++++GI ++ +V
Sbjct: 229 GNSAAFL--CSDLSAGISGEVVHV 250
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 103 WTGIIDGYSRMNRSNEALALFRRMAACEYTEPSEITILAVLPAI 146
W I+D + MN S +L R + A + +PS I A+LP I
Sbjct: 9 WNEIVDSFDDMNLSE---SLLRGIYAYGFEKPSAIQQRAILPCI 49
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 103 WTGIIDGYSRMNRSNEALALFRRMAACEYTEPSEITILAVLPAI 146
W I+D + MN S +L R + A + +PS I A+LP I
Sbjct: 35 WNEIVDSFDDMNLSE---SLLRGIYAYGFEKPSAIQQRAILPCI 75
>pdb|3OGU|A Chain A, Dna Polymerase Beta Mutant 5p20 Complexed With 6bp Of Dna
Length = 335
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 37/84 (44%)
Query: 179 IDTYAKCGCIFSASKLFEDTSVDRKNLVSWTTIISGFAMHGMGKEAVENFERMQKVGLKP 238
ID + G + K+ +D + NL++ + I A E ++ E ++K K
Sbjct: 73 IDEFLATGKLRKLEKIRQDDTSSSINLLTRVSGIGPSAARKFVDEGIKTLEDLRKNEDKL 132
Query: 239 NRSWRIGEEGLKFFDKMVEECEVL 262
N RIG + F+K + E+L
Sbjct: 133 NHHQRIGLKYFGDFEKRIPREEML 156
>pdb|2OND|A Chain A, Crystal Structure Of The Hat-C Domain Of Murine Cstf-77
pdb|2OND|B Chain B, Crystal Structure Of The Hat-C Domain Of Murine Cstf-77
Length = 308
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 31/78 (39%), Gaps = 22/78 (28%)
Query: 56 QSHVYVNTALGDMYVSLGFLKDSSKLFDELPERNLVTWNVIITGLVKWTGI-------ID 108
+ HVYV AL + Y S KD S V + + GL K+ I ID
Sbjct: 167 RHHVYVTAALXEYYCS----KDKS-----------VAFKIFELGLKKYGDIPEYVLAYID 211
Query: 109 GYSRMNRSNEALALFRRM 126
S +N N LF R+
Sbjct: 212 YLSHLNEDNNTRVLFERV 229
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
0.324 0.139 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,611,728
Number of Sequences: 62578
Number of extensions: 437992
Number of successful extensions: 1494
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1487
Number of HSP's gapped (non-prelim): 21
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)