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= 020423
(326 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 = 204 bits (520), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 105/252 (41%), Positives = 155/252 (61%), Gaps = 7/252 (2%)
Query: 67 LPPWFSVAPMMDWTDNHYRTLARLISKHAWLYTEMLAAETIIYQQGNLDRFLAFSPEQHP 126
L P SVAPM+D TD H+R L R +S LYTEM + ++ +GN +R LAF PE+HP
Sbjct: 2 LDPRLSVAPMVDRTDRHFRFLVRQVSLGVRLYTEMTVDQAVL--RGNRERLLAFRPEEHP 59
Query: 127 IVLQIGGSNLDNLAKATELANAYNYDEINLNCGCPSPKVAGHGCFGVSLMLDPKFVGEAM 186
I LQ+ GS+ +LA+A + A+ YDEINLN GCPS K A G +G L+LD V E +
Sbjct: 60 IALQLAGSDPKSLAEAARIGEAFGYDEINLNLGCPSEK-AQEGGYGACLLLDLARVREIL 118
Query: 187 SVIAANTNVPVSVKCRIGVDDHDSYNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISPAE 246
+ VPV+VK R+G++ ++Y L + ++ + + F++H+R ALL +S
Sbjct: 119 KAMGEAVRVPVTVKMRLGLEGKETYRGLAQSVEAMAE-AGVKVFVVHARSALL-ALSTKA 176
Query: 247 NRTIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWYT 306
NR IPPL++++ + L DFP LTF NGGI +++E L++ VM+GRA Y++P +
Sbjct: 177 NREIPPLRHDWVHRLKGDFPQLTFVTNGGIRSLEEALFHLKR-VDGVMLGRAVYEDP-FV 234
Query: 307 LGHVDTAIYGAP 318
L D ++G P
Sbjct: 235 LEEADRRVFGLP 246
>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 = 194 bits (493), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 102/252 (40%), Positives = 151/252 (59%), Gaps = 7/252 (2%)
Query: 67 LPPWFSVAPMMDWTDNHYRTLARLISKHAWLYTEMLAAETIIYQQGNLDRFLAFSPEQHP 126
L P SVAP +D TD H+R L R +S LYTE + ++ +GN +R LAF PE+HP
Sbjct: 23 LDPRLSVAPXVDRTDRHFRFLVRQVSLGVRLYTEXTVDQAVL--RGNRERLLAFRPEEHP 80
Query: 127 IVLQIGGSNLDNLAKATELANAYNYDEINLNCGCPSPKVAGHGCFGVSLMLDPKFVGEAM 186
I LQ+ GS+ +LA+A + A+ YDEINLN GCPS K A G +G L+LD V E +
Sbjct: 81 IALQLAGSDPKSLAEAARIGEAFGYDEINLNLGCPSEK-AQEGGYGACLLLDLARVREIL 139
Query: 187 SVIAANTNVPVSVKCRIGVDDHDSYNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISPAE 246
VPV+VK R+G++ ++Y L + + + + + F++H+R ALL +S
Sbjct: 140 KAXGEAVRVPVTVKXRLGLEGKETYRGLAQSV-EAXAEAGVKVFVVHARSALL-ALSTKA 197
Query: 247 NRTIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWYT 306
NR IPPL++++ + L DFP LTF NGGI +++E L++ V +GRA Y++P +
Sbjct: 198 NREIPPLRHDWVHRLKGDFPQLTFVTNGGIRSLEEALFHLKR-VDGVXLGRAVYEDP-FV 255
Query: 307 LGHVDTAIYGAP 318
L D ++G P
Sbjct: 256 LEEADRRVFGLP 267
>pdb|1VHN|A Chain A, Crystal Structure Of A Putative Flavin Oxidoreductase With
Flavin
Length = 318
Score = 64.3 bits (155), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 59/237 (24%), Positives = 107/237 (45%), Gaps = 29/237 (12%)
Query: 73 VAPMMDWTDNHYRTLARLISKHAW----LYTEMLAAETIIYQQGNLDRFLAFSPEQHPIV 128
+AP +TD+ +RTLA W ++E ++A+ + + L P + +
Sbjct: 9 LAPXAGYTDSAFRTLA-----FEWGADFAFSEXVSAKGFLXNSQKTEELLP-QPHERNVA 62
Query: 129 LQIGGSNLDNLAKATELANAYNYDEINLNCGCPSPKVAGHGCFGVSLMLDPKFVGEAMSV 188
+QI GS + L++A + + Y I+LN GCP KV G G +L+ D + +
Sbjct: 63 VQIFGSEPNELSEAARILSE-KYKWIDLNAGCPVRKVVKEGA-GGALLKDLRHFRYIVRE 120
Query: 189 IAANTNVPVSVKCRIGVDDHDSYNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISPAENR 248
+ + + SVK R+G + ++ + IY++ IH+R + + AE +
Sbjct: 121 LRKSVSGKFSVKTRLGWEKNE-----VEEIYRILVEEGVDEVFIHTRTVVQSFTGRAEWK 175
Query: 249 TIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRK-GAHHVMVGRAAYQNPW 304
+ L+ + P TF ++G I T ++ AL + G ++V R A PW
Sbjct: 176 ALSVLE--------KRIP--TF-VSGDIFTPEDAKRALEESGCDGLLVARGAIGRPW 221
>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 = 0.063, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 239 LNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMVGRA 298
L G A +R P E + R FP+++ GI + D+V AALR G V++ A
Sbjct: 145 LIGTGRAVSRYKPEAIVETVGLVSRHFPEVSVITGAGIESGDDVAAALRLGTRGVLLASA 204
Query: 299 AY--QNPWYTL 307
A ++P+ +
Sbjct: 205 AVKAKDPYAKI 215
>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 = 0.82, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 305
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 = 0.84, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 305
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 = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 86 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 122
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>pdb|1VH7|A Chain A, Crystal Structure Of A Cyclase Subunit Of
Imidazolglycerolphosphate Synthase
Length = 265
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 76 DIPFTVGGGIHDFETASELILRGADKVSINTAAVENP 112
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 75 DIPFTVGGGIHDFETASELILRGADKVEINTAAVENP 111
>pdb|2RKX|A Chain A, The 3d Structure Of Chain D, Cyclase Subunit Of
Imidazoleglycerol_evolvedcerolphosphate Synthase
Length = 255
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 303
D+ FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 74 DIPFTVGGGIHDFETASELILRGADKVEINTAAVENP 110
>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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 172 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG 204
GV+ M DP + E M + ++PV KCRIG
Sbjct: 56 GVARMSDPALIEEIMDAV----SIPVMAKCRIG 84
>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 = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 172 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSPT 227
GV+ M DPK + E M+ + ++PV K RIG V+ DFI + L+P
Sbjct: 60 GVARMSDPKIIKEIMAAV----SIPVMAKVRIGHFVEAMILEAIGVDFIDESEVLTPA 113
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 256 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 295
E AL FP TL+G +V E+ AA++ G H++V
Sbjct: 99 ELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVV 138
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 256 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 295
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 = 2.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 256 EYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHHVMV 295
E AL FP TL+G +V E+ AA++ G H++V
Sbjct: 97 ELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVV 136
>pdb|2CMU|A Chain A, Crystal Structure Of A Putative Peptidyl-Arginine
Deiminase
Length = 342
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 58 KAEMVARQYLPPWFSVAPMM-DWTDNHYRTLARLISKHAWLYT 99
K E+ A+Q L W+S + D TD+H TLAR + K +Y+
Sbjct: 180 KKELGAKQVL--WYSYGYLKGDDTDSHTDTLARFLDKDTIVYS 220
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 305
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 = 2.9, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 267 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWY 305
D+ L+GGI D + AAL G V +G AA + P +
Sbjct: 75 DIKVELSGGIRDDDTLAAALATGCTRVNLGTAALETPEW 113
>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 = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 172 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSP 226
GV+ M DP V E M+ + ++PV K RIG V+ D+I + L+P
Sbjct: 60 GVARMADPTIVEEVMNAV----SIPVMAKARIGHIVEARVLEAMGVDYIDESEVLTP 112
>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 = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 172 GVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIG--VDDHDSYNQLCDFIYKVSSLSP 226
GV+ M DP V E M+ + ++PV K RIG V+ D+I + L+P
Sbjct: 57 GVARMADPTIVEEVMNAV----SIPVMAKARIGHIVEARVLEAMGVDYIDESEVLTP 109
>pdb|3HVM|A Chain A, Agmatine Deiminase From Helicobacter Pylori
Length = 330
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 58 KAEMVARQYLPPWFSVAPMM-DWTDNHYRTLARLISKHAWLYT 99
K E+ A+Q L W+S + D TD+H TLAR + K +Y+
Sbjct: 178 KKELGAKQVL--WYSYGYLKGDDTDSHTDTLARFLDKDTIVYS 218
>pdb|1FU1|A Chain A, Crystal Structure Of Human Xrcc4
pdb|1FU1|B Chain B, Crystal Structure Of Human Xrcc4
Length = 203
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 235 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 277
RKALL+G PA+ T K Y+ ++ D++F L G N
Sbjct: 71 RKALLSGAGPADVYTFNFSKESXYFFFEKNLKDVSFRL-GSFN 112
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
0.322 0.136 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,326,619
Number of Sequences: 62578
Number of extensions: 357622
Number of successful extensions: 1043
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1011
Number of HSP's gapped (non-prelim): 43
length of query: 326
length of database: 14,973,337
effective HSP length: 99
effective length of query: 227
effective length of database: 8,778,115
effective search space: 1992632105
effective search space used: 1992632105
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)