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= 023442
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B0P|A Chain A, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0P|B Chain B, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0U|X Chain X, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
pdb|3B0U|Y Chain Y, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
Length = 350
Score = 116 bits (290), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 71/217 (32%), Positives = 119/217 (54%), Gaps = 14/217 (6%)
Query: 3 SCGCPSPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIGVDDHDSYNQLCD 62
+ GCPS K A G +G L+LD V E + + VPV+VK R+G++ ++Y L
Sbjct: 90 NLGCPSEK-AQEGGYGACLLLDLARVREILKAMGEAVRVPVTVKMRLGLEGKETYRGLAQ 148
Query: 63 FIYKVSSLSPTRHFIIHSRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGI 122
+ ++ + + F++H+R ALL +S NR IPPL++++ + L DFP LTF NGGI
Sbjct: 149 SVEAMAE-AGVKVFVVHARSALL-ALSTKANREIPPLRHDWVHRLKGDFPQLTFVTNGGI 206
Query: 123 NTVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGLTRRQVVEKYQIY-- 180
+++E L++ VM+GRA Y++P + L D ++G P +R +V + + Y
Sbjct: 207 RSLEEALFHLKR-VDGVMLGRAVYEDP-FVLEEADRRVFGLPRRP-SRLEVARRMRAYLE 263
Query: 181 GDAILGTYGNNRPHVRDVMKPLLHFFHSEPGNGLFKR 217
+ + GT P V++ +L+ F P L++R
Sbjct: 264 EEVLKGTP----PWA--VLRHMLNLFRGRPKGRLWRR 294
>pdb|3B0V|C Chain C, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
pdb|3B0V|D Chain D, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
Length = 363
Score = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 70/217 (32%), Positives = 116/217 (53%), Gaps = 14/217 (6%)
Query: 3 SCGCPSPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIGVDDHDSYNQLCD 62
+ GCPS K A G +G L+LD V E + VPV+VK R+G++ ++Y L
Sbjct: 111 NLGCPSEK-AQEGGYGACLLLDLARVREILKAXGEAVRVPVTVKXRLGLEGKETYRGLAQ 169
Query: 63 FIYKVSSLSPTRHFIIHSRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGI 122
+ + + + + F++H+R ALL +S NR IPPL++++ + L DFP LTF NGGI
Sbjct: 170 SV-EAXAEAGVKVFVVHARSALL-ALSTKANREIPPLRHDWVHRLKGDFPQLTFVTNGGI 227
Query: 123 NTVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGLTRRQVVEKYQIY-- 180
+++E L++ V +GRA Y++P + L D ++G P +R +V + + Y
Sbjct: 228 RSLEEALFHLKR-VDGVXLGRAVYEDP-FVLEEADRRVFGLPRRP-SRLEVARRXRAYLE 284
Query: 181 GDAILGTYGNNRPHVRDVMKPLLHFFHSEPGNGLFKR 217
+ + GT P V++ L+ F P L++R
Sbjct: 285 EEVLKGTP----PWA--VLRHXLNLFRGRPKGRLWRR 315
>pdb|1W0M|A Chain A, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|B Chain B, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|C Chain C, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|D Chain D, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|E Chain E, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|F Chain F, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|G Chain G, Triosephosphate Isomerase From Thermoproteus Tenax
pdb|1W0M|H Chain H, Triosephosphate Isomerase From Thermoproteus Tenax
Length = 226
Score = 35.0 bits (79), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%)
Query: 85 LNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMVGRA 144
L G A +R P E + R FP+++ GI + D+V AALR G V++ A
Sbjct: 145 LIGTGRAVSRYKPEAIVETVGLVSRHFPEVSVITGAGIESGDDVAAALRLGTRGVLLASA 204
Query: 145 AYQ 147
A +
Sbjct: 205 AVK 207
>pdb|2Y85|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase With Bound Rcdrp
pdb|2Y85|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase With Bound Rcdrp
pdb|2Y85|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase With Bound Rcdrp
pdb|2Y85|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase With Bound Rcdrp
pdb|3ZS4|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase With Bound Prfar
Length = 244
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 151
D+ L+GGI + + AAL G V VG AA +NP +
Sbjct: 74 DVQVELSGGIRDDESLAAALATGCARVNVGTAALENPQW 112
>pdb|2Y88|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase (Variant D11n) With Bound Prfar
pdb|2Y89|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Phosphoribosyl Isomerase A (Variant D11n)
Length = 244
Score = 31.2 bits (69), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 151
D+ L+GGI + + AAL G V VG AA +NP +
Sbjct: 74 DVQVELSGGIRDDESLAAALATGCARVNVGTAALENPQW 112
>pdb|1THF|D Chain D, Cyclase Subunit Of Imidazoleglycerolphosphate Synthase
From Thermotoga Maritima
Length = 253
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>pdb|2A0N|A Chain A, Crystal Structure Of Imidazole Glycerol Phosphate Synthase
Subunit Hisf (ec 4.1.3.-) (tm1036) From Thermotoga
Maritima At 1.64 A Resolution
Length = 265
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 86 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 122
>pdb|2ZBT|A Chain A, Crystal Structure Of Pyridoxine Biosynthesis Protein From
Thermus Thermophilus Hb8
pdb|2ZBT|B Chain B, Crystal Structure Of Pyridoxine Biosynthesis Protein From
Thermus Thermophilus Hb8
pdb|2ZBT|C Chain C, Crystal Structure Of Pyridoxine Biosynthesis Protein From
Thermus Thermophilus Hb8
pdb|2ZBT|D Chain D, Crystal Structure Of Pyridoxine Biosynthesis Protein From
Thermus Thermophilus Hb8
Length = 297
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 18 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSPT 73
GV+ M DPK + E M+ + ++PV K RIG V+ DFI + L+P
Sbjct: 60 GVARMSDPKIIKEIMAAV----SIPVMAKVRIGHFVEAMILEAIGVDFIDESEVLTPA 113
>pdb|1VH7|A Chain A, Crystal Structure Of A Cyclase Subunit Of
Imidazolglycerolphosphate Synthase
Length = 265
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 76 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 112
>pdb|2YZR|A Chain A, Crystal Structure Of Pyridoxine Biosynthesis Protein
From Methanocaldococcus Jannaschii
pdb|2YZR|B Chain B, Crystal Structure Of Pyridoxine Biosynthesis Protein
From Methanocaldococcus Jannaschii
pdb|2YZR|C Chain C, Crystal Structure Of Pyridoxine Biosynthesis Protein
From Methanocaldococcus Jannaschii
Length = 330
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 18 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG 50
GV+ M DP + E M + ++PV KCRIG
Sbjct: 56 GVARMSDPALIEEIMDAV----SIPVMAKCRIG 84
>pdb|2WJZ|A Chain A, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
pdb|2WJZ|C Chain C, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
pdb|2WJZ|E Chain E, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
pdb|3ZR4|A Chain A, Structural Evidence For Ammonia Tunneling Across The
(Beta- Alpha)8 Barrel Of The Imidazole Glycerol
Phosphate Synthase Bienzyme Complex
pdb|3ZR4|C Chain C, Structural Evidence For Ammonia Tunneling Across The
(Beta- Alpha)8 Barrel Of The Imidazole Glycerol
Phosphate Synthase Bienzyme Complex
pdb|3ZR4|E Chain E, Structural Evidence For Ammonia Tunneling Across The
(Beta- Alpha)8 Barrel Of The Imidazole Glycerol
Phosphate Synthase Bienzyme Complex
Length = 253
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>pdb|4EWN|D Chain D, Structure Of Hisf-D130v+d176v With Bound Rcdrp
Length = 253
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>pdb|1GPW|A Chain A, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex.
pdb|1GPW|C Chain C, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex.
pdb|1GPW|E Chain E, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex
Length = 253
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>pdb|3IIO|A Chain A, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIO|B Chain B, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIO|C Chain C, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIO|D Chain D, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIO|E Chain E, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIO|F Chain F, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
Length = 262
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 75 DIPFTVGGGIHDFETASELILRGADKVEINTAAVENP 111
>pdb|3IIP|A Chain A, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIP|B Chain B, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIP|C Chain C, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIP|D Chain D, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIP|E Chain E, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
pdb|3IIP|F Chain F, Evolutionary Optimization Of Computationally Designed
Enzymes: Kemp Eliminases Of The Ke07 Series
Length = 256
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 75 DIPFTVGGGIHDFETASELILRGADKVEINTAAVENP 111
>pdb|2O0T|A Chain A, The Three Dimensional Structure Of Diaminopimelate
Decarboxylase From Mycobacterium Tuberculosis Reveals A
Tetrameric Enzyme Organisation
pdb|2O0T|B Chain B, The Three Dimensional Structure Of Diaminopimelate
Decarboxylase From Mycobacterium Tuberculosis Reveals A
Tetrameric Enzyme Organisation
pdb|2O0T|C Chain C, The Three Dimensional Structure Of Diaminopimelate
Decarboxylase From Mycobacterium Tuberculosis Reveals A
Tetrameric Enzyme Organisation
pdb|2O0T|D Chain D, The Three Dimensional Structure Of Diaminopimelate
Decarboxylase From Mycobacterium Tuberculosis Reveals A
Tetrameric Enzyme Organisation
Length = 467
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 102 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 141
E AL FP TL+G +V E+ AA++ G H++V
Sbjct: 99 ELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVV 138
>pdb|2RKX|A Chain A, The 3d Structure Of Chain D, Cyclase Subunit Of
Imidazoleglycerol_evolvedcerolphosphate Synthase
Length = 255
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVEINTAAVENP 110
>pdb|1HKV|A Chain A, Mycobacterium Diaminopimelate Dicarboxylase (Lysa)
pdb|1HKV|B Chain B, Mycobacterium Diaminopimelate Dicarboxylase (Lysa)
Length = 453
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 102 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 141
E AL FP TL+G +V E+ AA++ G H++V
Sbjct: 97 ELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVV 136
>pdb|1HKW|A Chain A, Mycobacterium Diaminopimelate Dicarboxylase (Lysa)
pdb|1HKW|B Chain B, Mycobacterium Diaminopimelate Dicarboxylase (Lysa)
Length = 453
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 102 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 141
E AL FP TL+G +V E+ AA++ G H++V
Sbjct: 97 ELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVV 136
>pdb|1VZW|A Chain A, Crystal Structure Of The Bifunctional Protein Pria
pdb|2VEP|A Chain A, Crystal Structure Of The Full Length Bifunctional Enzyme
Pria
Length = 244
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 151
D+ L+GGI D + AAL G V +G AA + P +
Sbjct: 75 DIKVELSGGIRDDDTLAAALATGCTRVNLGTAALETPEW 113
>pdb|2X30|A Chain A, Crystal Structure Of The R139n Mutant Of A Bifunctional
Enzyme Pria
Length = 240
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 151
D+ L+GGI D + AAL G V +G AA + P +
Sbjct: 75 DIKVELSGGIRDDDTLAAALATGCTRVNLGTAALETPEW 113
>pdb|3STG|A Chain A, Crystal Structure Of A58p, Del(N59), And Loop 7 Truncated
Mutant Of 3- Deoxy-D-Manno-Octulosonate 8-Phosphate
Synthase (Kdo8ps) From Neisseria Meningitidis
pdb|3STG|B Chain B, Crystal Structure Of A58p, Del(N59), And Loop 7 Truncated
Mutant Of 3- Deoxy-D-Manno-Octulosonate 8-Phosphate
Synthase (Kdo8ps) From Neisseria Meningitidis
pdb|3STG|C Chain C, Crystal Structure Of A58p, Del(N59), And Loop 7 Truncated
Mutant Of 3- Deoxy-D-Manno-Octulosonate 8-Phosphate
Synthase (Kdo8ps) From Neisseria Meningitidis
pdb|3STG|D Chain D, Crystal Structure Of A58p, Del(N59), And Loop 7 Truncated
Mutant Of 3- Deoxy-D-Manno-Octulosonate 8-Phosphate
Synthase (Kdo8ps) From Neisseria Meningitidis
Length = 268
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|2NV2|A Chain A, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|C Chain C, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|E Chain E, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|G Chain G, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|I Chain I, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|K Chain K, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|M Chain M, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|O Chain O, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|Q Chain Q, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|S Chain S, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|U Chain U, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
pdb|2NV2|W Chain W, Structure Of The Plp Synthase Complex Pdx12 (YAADE) FROM
BACILLUS Subtilis
Length = 294
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 18 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSP 72
GV+ M DP V E M+ + ++PV K RIG V+ D+I + L+P
Sbjct: 57 GVARMADPTIVEEVMNAV----SIPVMAKARIGHIVEARVLEAMGVDYIDESEVLTP 109
>pdb|2NV1|A Chain A, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
pdb|2NV1|B Chain B, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
pdb|2NV1|C Chain C, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
pdb|2NV1|D Chain D, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
pdb|2NV1|E Chain E, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
pdb|2NV1|F Chain F, Structure Of The Synthase Subunit Pdx1 (Yaad) Of Plp
Synthase From Bacillus Subtilis
Length = 305
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 18 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSP 72
GV+ M DP V E M+ + ++PV K RIG V+ D+I + L+P
Sbjct: 60 GVARMADPTIVEEVMNAV----SIPVMAKARIGHIVEARVLEAMGVDYIDESEVLTP 112
>pdb|3STF|A Chain A, Crystal Structure Of A Mutant (S211a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STF|B Chain B, Crystal Structure Of A Mutant (S211a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STF|C Chain C, Crystal Structure Of A Mutant (S211a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STF|D Chain D, Crystal Structure Of A Mutant (S211a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 280
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3STC|A Chain A, Crystal Structure Of Loop 7 Truncated Mutant Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STC|B Chain B, Crystal Structure Of Loop 7 Truncated Mutant Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STC|C Chain C, Crystal Structure Of Loop 7 Truncated Mutant Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STC|D Chain D, Crystal Structure Of Loop 7 Truncated Mutant Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 269
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3QQ1|A Chain A, Crystal Structure Of A Double Mutant [a58p, Del(N59)] Of
3-Deoxy-D- Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ1|B Chain B, Crystal Structure Of A Double Mutant [a58p, Del(N59)] Of
3-Deoxy-D- Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ1|C Chain C, Crystal Structure Of A Double Mutant [a58p, Del(N59)] Of
3-Deoxy-D- Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ1|D Chain D, Crystal Structure Of A Double Mutant [a58p, Del(N59)] Of
3-Deoxy-D- Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 279
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3QQ0|A Chain A, Crystal Structure Of A Deletion Mutant (N59) Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ0|B Chain B, Crystal Structure Of A Deletion Mutant (N59) Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ0|C Chain C, Crystal Structure Of A Deletion Mutant (N59) Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QQ0|D Chain D, Crystal Structure Of A Deletion Mutant (N59) Of
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 279
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3QPZ|A Chain A, Crystal Structure Of The N59a Mutant Of The
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPZ|B Chain B, Crystal Structure Of The N59a Mutant Of The
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPZ|C Chain C, Crystal Structure Of The N59a Mutant Of The
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPZ|D Chain D, Crystal Structure Of The N59a Mutant Of The
3-Deoxy-D-Manno- Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 280
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|2QKF|A Chain A, Crystal Structure Of 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Synthase (Kdo8ps) From Neisseria
Meningitidis
pdb|2QKF|B Chain B, Crystal Structure Of 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Synthase (Kdo8ps) From Neisseria
Meningitidis
pdb|2QKF|C Chain C, Crystal Structure Of 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Synthase (Kdo8ps) From Neisseria
Meningitidis
pdb|2QKF|D Chain D, Crystal Structure Of 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Synthase (Kdo8ps) From Neisseria
Meningitidis
Length = 280
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3QPY|A Chain A, Crystal Structure Of A Mutant (K57a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPY|B Chain B, Crystal Structure Of A Mutant (K57a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPY|C Chain C, Crystal Structure Of A Mutant (K57a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3QPY|D Chain D, Crystal Structure Of A Mutant (K57a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 280
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3STE|A Chain A, Crystal Structure Of A Mutant (Q202a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STE|B Chain B, Crystal Structure Of A Mutant (Q202a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STE|C Chain C, Crystal Structure Of A Mutant (Q202a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
pdb|3STE|D Chain D, Crystal Structure Of A Mutant (Q202a) Of
3-Deoxy-D-Manno-Octulosonate 8-Phosphate Synthase
(Kdo8ps) From Neisseria Meningitidis
Length = 280
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGR 143
F L GGIN ++ +++ L+ AH+V V R
Sbjct: 16 FVLFGGINVLESLDSTLQTCAHYVEVTR 43
>pdb|3SR2|A Chain A, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|B Chain B, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|E Chain E, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|F Chain F, Crystal Structure Of Human Xlf-Xrcc4 Complex
Length = 145
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 76 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 117
>pdb|3W03|C Chain C, Xlf-Xrcc4 Complex
pdb|3W03|D Chain D, Xlf-Xrcc4 Complex
Length = 184
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 91 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 132
>pdb|3MUD|A Chain A, Structure Of The Tropomyosin Overlap Complex From Chicken
Smooth Muscle
pdb|3MUD|B Chain B, Structure Of The Tropomyosin Overlap Complex From Chicken
Smooth Muscle
Length = 175
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 74 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 115
>pdb|1FU1|A Chain A, Crystal Structure Of Human Xrcc4
pdb|1FU1|B Chain B, Crystal Structure Of Human Xrcc4
Length = 203
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 71 RKALLSGAGPADVYTFNFSKESXYFFFEKNLKDVSFRL-GSFN 112
>pdb|3RWR|A Chain A, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|B Chain B, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|F Chain F, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|G Chain G, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|J Chain J, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|K Chain K, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|N Chain N, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|P Chain P, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|R Chain R, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|V Chain V, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|U Chain U, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|Y Chain Y, Crystal Structure Of The Human Xrcc4-Xlf Complex
Length = 163
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 71 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 112
>pdb|3II6|A Chain A, Structure Of Human Xrcc4 In Complex With The Tandem Brct
Domains Of Dna Ligaseiv.
pdb|3II6|B Chain B, Structure Of Human Xrcc4 In Complex With The Tandem Brct
Domains Of Dna Ligaseiv.
pdb|3II6|C Chain C, Structure Of Human Xrcc4 In Complex With The Tandem Brct
Domains Of Dna Ligaseiv.
pdb|3II6|D Chain D, Structure Of Human Xrcc4 In Complex With The Tandem Brct
Domains Of Dna Ligaseiv
Length = 203
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 71 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 112
>pdb|3Q4F|C Chain C, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|D Chain D, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|G Chain G, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|H Chain H, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
Length = 186
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 100 RKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRL-GSFN 141
>pdb|1IK9|A Chain A, Crystal Structure Of A Xrcc4-Dna Ligase Iv Complex
pdb|1IK9|B Chain B, Crystal Structure Of A Xrcc4-Dna Ligase Iv Complex
Length = 213
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 71 RKALLSGAGPADVYTFNFSKESAYFFFEKNLKDVSFRL-GSFN 112
>pdb|1UUR|A Chain A, Structure Of An Activated Dictyostelium Stat In Its
Dna-Unbound Form
pdb|1UUS|A Chain A, Structure Of An Activated Dictyostelium Stat In Its
Dna-Unbound Form
Length = 473
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 9/77 (11%)
Query: 60 LCDFIYKV-SSLSPTRHFIIHSRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTL 118
+ D IYK+ S T +IH + LLN +PP E A L+ TL
Sbjct: 13 ILDTIYKLLSEQEQTLVQMIHEQSLLLN--------RLPPTLDENSLAPLKSLSQKQITL 64
Query: 119 NGGINTVDEVNAALRKG 135
+G +NT A +KG
Sbjct: 65 SGQMNTEMSALDATKKG 81
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
0.321 0.138 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,882,680
Number of Sequences: 62578
Number of extensions: 371941
Number of successful extensions: 974
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 936
Number of HSP's gapped (non-prelim): 58
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
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: 51 (24.3 bits)