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= 008454
(565 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 65/147 (44%), Gaps = 15/147 (10%)
Query: 227 IIESCNKFLSSLLD--SERVDI--ALGFYKEMRRNRISPNVYTLNMVMHAFCKLGI---- 278
I +S L LD S++ D+ AL Y E RRN + + Y N++++ C L
Sbjct: 21 IQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV-CSLAEAATE 79
Query: 279 ------IERAVEVFKNMESMGFIPSVTTYNTLISGHCNKGLLSLAMKFKNLMEKNGIQPN 332
+ R ++FK M +P+ T+ K +A M+ GIQP
Sbjct: 80 SSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPR 139
Query: 333 VITFNTLIFGFCKKGKLHEANRIFSEM 359
+ ++ +FGFC+KG +A + + M
Sbjct: 140 LRSYGPALFGFCRKGDADKAYEVDAHM 166
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 67/153 (43%), Gaps = 12/153 (7%)
Query: 357 SEMKATNVSPNVVTYNTLINGYGQVGNSEMGASLYEEMLRNGIKVDILTYNALILGLCK- 415
++ KA SP + L + + G+ LY+E RNG+++ YN L L +C
Sbjct: 16 AKKKAIQQSPEALLKQKL-DMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL-LYVCSL 73
Query: 416 -EGKTKKAAY--------LVKDLDKNSLVPNASTYSALITGQCVRKNSERAFQLYKSMIR 466
E T+ + + K + + +VPN +T++ + + E AF + K M
Sbjct: 74 AEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKA 133
Query: 467 SGCRPNKHIFEMLMSTFCQNEDFDRAAEVLLEM 499
G +P + + FC+ D D+A EV M
Sbjct: 134 FGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 40/186 (21%), Positives = 81/186 (43%), Gaps = 17/186 (9%)
Query: 311 KGLLSLAMKFKNLMEKNGIQPNVITFNTLIFGFCKKGK----------LHEANRIFSEMK 360
KG + A++ + +NG+Q + +N L++ C + L IF +M
Sbjct: 39 KGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 361 ATNVSPNVVTYNTLINGYGQVGNSEMGASLYEEMLRNGIKVDILTYNALILGLCKEGKTK 420
V PN T+ + EM + ++M GI+ + +Y + G C++G
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 421 KAAYLVKDLDKNSLVPNASTYSALITGQCVRKNSERAF---QLYKSMIRSGCRPNKHIFE 477
KA + + ++ +VP +AL+ KN+++ + Q + ++R + +K F+
Sbjct: 158 KAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVR---QVSKSTFD 214
Query: 478 MLMSTF 483
M+ F
Sbjct: 215 MIEEWF 220
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 22/97 (22%), Positives = 43/97 (44%), Gaps = 2/97 (2%)
Query: 218 QMRDYGFLPIIESCNKFLSSLLDSERVDIALGF--YKEMRRNRISPNVYTLNMVMHAFCK 275
Q+ Y + ++ C+ ++ S ++ GF +K+M +++ PN T
Sbjct: 58 QLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVA 117
Query: 276 LGIIERAVEVFKNMESMGFIPSVTTYNTLISGHCNKG 312
E A ++ K M++ G P + +Y + G C KG
Sbjct: 118 KDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKG 154
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/130 (20%), Positives = 58/130 (44%), Gaps = 11/130 (8%)
Query: 345 KKGKLHEANRIFSEMKATNVSPNVVTYNTL--INGYGQVGNSE-------MGASLYEEML 395
KKG + EA R++ E + V + YN L + + G ++++M+
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 396 RNGIKVDILTY-NALILGLCKEGKTKKAAYLVKDLDKNSLVPNASTYSALITGQCVRKNS 454
+ + + T+ N L + K+ + A +VK + + P +Y + G C + ++
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDD-PEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 455 ERAFQLYKSM 464
++A+++ M
Sbjct: 157 DKAYEVDAHM 166
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 227 IIESCNKFLSSLLD--SERVDI--ALGFYKEMRRNRISPNVYTLNMVMHAFCKLGI---- 278
I +S L LD S++ D+ AL Y E RRN + + Y N++++ C L
Sbjct: 21 IQQSPEALLKQKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV-CSLAEAATE 79
Query: 279 ------IERAVEVFKNMESMGFIPSVTTYNTLISGHCNKGLLSLAMKFKNLMEKNGIQPN 332
+ R ++FK +P+ T+ K A + GIQP
Sbjct: 80 SSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPR 139
Query: 333 VITFNTLIFGFCKKGKLHEANRI 355
+ ++ +FGFC+KG +A +
Sbjct: 140 LRSYGPALFGFCRKGDADKAYEV 162
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 12/149 (8%)
Query: 357 SEMKATNVSPNVVTYNTLINGYGQVGNSEMGASLYEEMLRNGIKVDILTYNALILGLCK- 415
++ KA SP + L + + G+ LY+E RNG+++ YN L+ +C
Sbjct: 16 AKKKAIQQSPEALLKQKL-DXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSL 73
Query: 416 -EGKTKKAAY--------LVKDLDKNSLVPNASTYSALITGQCVRKNSERAFQLYKSMIR 466
E T+ + + K + +VPN +T++ + + E AF K
Sbjct: 74 AEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKA 133
Query: 467 SGCRPNKHIFEMLMSTFCQNEDFDRAAEV 495
G +P + + FC+ D D+A EV
Sbjct: 134 FGIQPRLRSYGPALFGFCRKGDADKAYEV 162
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/166 (20%), Positives = 69/166 (41%), Gaps = 14/166 (8%)
Query: 311 KGLLSLAMKFKNLMEKNGIQPNVITFNTLIFGFCKKGK----------LHEANRIFSEMK 360
KG + A++ + +NG+Q + +N L++ C + L IF +
Sbjct: 39 KGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQXI 97
Query: 361 ATNVSPNVVTYNTLINGYGQVGNSEMGASLYEEMLRNGIKVDILTYNALILGLCKEGKTK 420
V PN T+ + E ++ GI+ + +Y + G C++G
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 421 KAAYLVKDLDKNSLVPNASTYSALITGQCVRKNSERAFQLYKSMIR 466
KA + ++ +VP +AL+ V +++ A ++YK++ R
Sbjct: 158 KAYEVDAHXVESEVVPEEPELAALLK---VSXDTKNADKVYKTLQR 200
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 406 YNALILGLCKEGKTKKAAYLVKDLDKNSLVPNASTYSALITGQCVRKNSERA 457
YNA++LG ++G K+ Y++ + L P+ +Y+A + QC+ + + A
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL--QCMGRQDQDA 217
>pdb|4E14|A Chain A, Crystal Structure Of Kynurenine Formamidase Conjugated
With Phenylmethylsulfonyl Fluoride
pdb|4E15|A Chain A, Crystal Structure Of Kynurenine Formamidase Conjugated
With An Inhibitor
pdb|4E15|B Chain B, Crystal Structure Of Kynurenine Formamidase Conjugated
With An Inhibitor
Length = 303
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 13/87 (14%)
Query: 321 KNLMEKNGIQPNVITFNTLIFGFCKKGKLHEANRIFSEMKATNVSPNVVTYNTLINGYGQ 380
+ L EK GI T + L +G +G+ + +F K TN +P V + GY Q
Sbjct: 48 RELTEKQGI-----TVDHLRYG---EGR--QLVDVFYSEKTTNQAPLFVFVH---GGYWQ 94
Query: 381 VGNSEMGASLYEEMLRNGIKVDILTYN 407
+ M S+ ++R G +V ++ YN
Sbjct: 95 EMDMSMSCSIVGPLVRRGYRVAVMDYN 121
>pdb|4E11|A Chain A, Crystal Structure Of Kynurenine Formamidase From
Drosophila Melanogaster
Length = 303
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 13/87 (14%)
Query: 321 KNLMEKNGIQPNVITFNTLIFGFCKKGKLHEANRIFSEMKATNVSPNVVTYNTLINGYGQ 380
+ L EK GI T + L +G +G+ + +F K TN +P V + GY Q
Sbjct: 48 RELTEKQGI-----TVDHLRYG---EGR--QLVDVFYSEKTTNQAPLFVFVH---GGYWQ 94
Query: 381 VGNSEMGASLYEEMLRNGIKVDILTYN 407
+ M S+ ++R G +V ++ YN
Sbjct: 95 EMDMSMSCSIVGPLVRRGYRVAVMDYN 121
>pdb|2Y5D|A Chain A, Crystal Structure Of C296a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
pdb|2Y5D|B Chain B, Crystal Structure Of C296a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
Length = 534
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 3 LPPKSLLTTVCSTKGGAFNSLSTINIFPFRRLSTMVTTLDKNPTFVN 49
LPP +L + +C + G + + + ++ F + TL +P FV
Sbjct: 207 LPPGAL-SIICGSSAGLLDQIRSFDVVSFTGSADTAATLRAHPAFVQ 252
>pdb|2Y52|A Chain A, Crystal Structure Of E496a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
pdb|2Y52|B Chain B, Crystal Structure Of E496a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
Length = 534
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 3 LPPKSLLTTVCSTKGGAFNSLSTINIFPFRRLSTMVTTLDKNPTFVN 49
LPP +L + +C + G + + + ++ F + TL +P FV
Sbjct: 207 LPPGAL-SIICGSSAGLLDQIRSFDVVSFTGSADTAATLRAHPAFVQ 252
>pdb|2Y53|A Chain A, Crystal Structure Of E257q Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
pdb|2Y53|B Chain B, Crystal Structure Of E257q Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
Length = 534
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 3 LPPKSLLTTVCSTKGGAFNSLSTINIFPFRRLSTMVTTLDKNPTFVN 49
LPP +L + +C + G + + + ++ F + TL +P FV
Sbjct: 207 LPPGAL-SIICGSSAGLLDQIRSFDVVSFTGSADTAATLRAHPAFVQ 252
>pdb|2VRO|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase From
Burkholderia Xenovorans Lb400
pdb|2VRO|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase From
Burkholderia Xenovorans Lb400
Length = 532
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 3 LPPKSLLTTVCSTKGGAFNSLSTINIFPFRRLSTMVTTLDKNPTFVN 49
LPP +L + +C + G + + + ++ F + TL +P FV
Sbjct: 205 LPPGAL-SIICGSSAGLLDQIRSFDVVSFTGSADTAATLRAHPAFVQ 250
>pdb|2Y51|A Chain A, Crystal Structure Of E167a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
pdb|2Y51|B Chain B, Crystal Structure Of E167a Mutant Of The Box Pathway
Encoded Aldh From Burkholderia Xenovorans Lb400
Length = 534
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 3 LPPKSLLTTVCSTKGGAFNSLSTINIFPFRRLSTMVTTLDKNPTFVN 49
LPP +L + +C + G + + + ++ F + TL +P FV
Sbjct: 207 LPPGAL-SIICGSSAGLLDQIRSFDVVSFTGSADTAATLRAHPAFVQ 252
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 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,173,963
Number of Sequences: 62578
Number of extensions: 652378
Number of successful extensions: 1359
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1337
Number of HSP's gapped (non-prelim): 23
length of query: 565
length of database: 14,973,337
effective HSP length: 104
effective length of query: 461
effective length of database: 8,465,225
effective search space: 3902468725
effective search space used: 3902468725
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: 54 (25.4 bits)