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= 043999
(574 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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 71/152 (46%), Gaps = 12/152 (7%)
Query: 334 AERLLDQMKMAGI--SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL 391
+E L + K I SP + KL D G+ +A RL+++ + NG S YNVL
Sbjct: 9 SENLSRKAKKKAIQQSPEALLKQKL-DMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 392 IRAFSKAGNSKMAS---------DLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEM 442
+ S A + +S D+ ++M + P+E T+T V DD E AF+M
Sbjct: 68 LYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDM 127
Query: 443 YSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA 474
M+ G P + +YG + G C KG+ +A
Sbjct: 128 VKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 9/125 (7%)
Query: 257 KNGLQKDGFEFYEKMQLNGVSPSLYTYN-----CLIHEYCNEGK----VSEGFKLFDEMR 307
K G + Y++ + NGV S Y YN C + E E +S GF +F +M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 308 HREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETD 367
+V N T+ + + A ++ QMK GI P + +Y + GFC G+ D
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 368 KAFRL 372
KA+ +
Sbjct: 158 KAYEV 162
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 190 DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA 229
D AF+++ Q++ G P + Y + G C+ GD ++A
Sbjct: 120 DPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159
>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 = 55.5 bits (132), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 43/152 (28%), Positives = 68/152 (44%), Gaps = 12/152 (7%)
Query: 334 AERLLDQMKMAGI--SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL 391
+E L + K I SP + KL D G+ +A RL+++ + NG S YNVL
Sbjct: 9 SENLSRKAKKKAIQQSPEALLKQKL-DXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 392 IRAFSKAGNSKMAS---------DLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEM 442
+ S A + +S D+ ++ + P+E T+T V DD E AF+
Sbjct: 68 LYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDX 127
Query: 443 YSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA 474
+ G P + +YG + G C KG+ +A
Sbjct: 128 VKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 53/125 (42%), Gaps = 9/125 (7%)
Query: 257 KNGLQKDGFEFYEKMQLNGVSPSLYTYN-----CLIHEYCNEGK----VSEGFKLFDEMR 307
K G + Y++ + NGV S Y YN C + E E +S GF +F +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXI 97
Query: 308 HREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETD 367
+V N T+ + + A + Q K GI P + +Y + GFC G+ D
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 368 KAFRL 372
KA+ +
Sbjct: 158 KAYEV 162
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 190 DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA 229
D AF+ + Q + G P + Y + G C+ GD ++A
Sbjct: 120 DPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLC-QDGKWPEAEVLLNQ 550
+YN ++ G+ ++G + +L + + GL P++ SY++ + + QD E L Q
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226
Query: 551 MLKLGLK 557
M + GLK
Sbjct: 227 MSQEGLK 233
>pdb|3LCR|A Chain A, Thioesterase From Tautomycetin Biosynthhetic Pathway
pdb|3LCR|B Chain B, Thioesterase From Tautomycetin Biosynthhetic Pathway
Length = 319
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 6/62 (9%)
Query: 385 VVTYNVLIRAFSKAGNSK---MASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFE 441
VV V F+ AG+S +A ++ RE+E RG+ P V +LIDS+ D + E
Sbjct: 140 VVQAEVADGEFALAGHSSGGVVAYEVARELEARGLAPRGV---VLIDSYSFDGDGGRPEE 196
Query: 442 MY 443
++
Sbjct: 197 LF 198
>pdb|3FP2|A Chain A, Crystal Structure Of Tom71 Complexed With Hsp82 C-Terminal
Fragment
pdb|3FP3|A Chain A, Crystal Structure Of Tom71
pdb|3FP4|A Chain A, Crystal Structure Of Tom71 Complexed With Ssa1 C-Terminal
Fragment
Length = 537
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 61/142 (42%), Gaps = 15/142 (10%)
Query: 239 LGLVATQHTYTVLICGLFKNGLQKDGFEFYEK-MQLNGVSPSLYTYN----CLIHEYCNE 293
+ L T ++Y L L ++ F+F++K + LN P Y + ++ +Y N
Sbjct: 270 INLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKN- 328
Query: 294 GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS-PNVIT 352
E F+ + NV Y L C L K+ + E+E ++ K+ + P V T
Sbjct: 329 --AKEDFQKAQSLNPE----NVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPT 382
Query: 353 YNKLIDGFCDAGETDKAFRLFN 374
+ + D G+ D A + ++
Sbjct: 383 F--FAEILTDRGDFDTAIKQYD 402
>pdb|3LCA|A Chain A, Structure Of Tom71 Complexed With Hsp70 Ssa1 C Terminal
Tail Indicating Conformational Plasticity
Length = 533
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 61/142 (42%), Gaps = 15/142 (10%)
Query: 239 LGLVATQHTYTVLICGLFKNGLQKDGFEFYEK-MQLNGVSPSLYTYN----CLIHEYCNE 293
+ L T ++Y L L ++ F+F++K + LN P Y + ++ +Y N
Sbjct: 266 INLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKN- 324
Query: 294 GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS-PNVIT 352
E F+ + NV Y L C L K+ + E+E ++ K+ + P V T
Sbjct: 325 --AKEDFQKAQSLNPE----NVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPT 378
Query: 353 YNKLIDGFCDAGETDKAFRLFN 374
+ + D G+ D A + ++
Sbjct: 379 F--FAEILTDRGDFDTAIKQYD 398
>pdb|3Q2O|A Chain A, Crystal Structure Of Purk: N5-Carboxyaminoimidazole
Ribonucleotide Synthetase
pdb|3Q2O|B Chain B, Crystal Structure Of Purk: N5-Carboxyaminoimidazole
Ribonucleotide Synthetase
pdb|3QFF|A Chain A, Crystal Structure Of Adp Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3QFF|B Chain B, Crystal Structure Of Adp Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3R5H|A Chain A, Crystal Structure Of Adp-Air Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3R5H|B Chain B, Crystal Structure Of Adp-Air Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
Length = 389
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 93 TQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLD 134
T++FP + N + L+ESI+ A + LS +A+ Y + D
Sbjct: 209 TKVFPVAENIHVNNILHESIVPARITEELSQKAIAYAKVLAD 250
>pdb|4DLK|A Chain A, Crystal Structure Of Atp-ca++ Complex Of Purk: N5-
Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|4DLK|B Chain B, Crystal Structure Of Atp-ca++ Complex Of Purk: N5-
Carboxyaminoimidazole Ribonucleotide Synthetase
Length = 380
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 93 TQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLD 134
T++FP + N + L+ESI+ A + LS +A+ Y + D
Sbjct: 203 TKVFPVAENIHVNNILHESIVPARITEELSQKAIAYAKVLAD 244
>pdb|3V4S|A Chain A, Crystal Structure Of Adp-atp Complex Of Purk:
N5-carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3V4S|B Chain B, Crystal Structure Of Adp-atp Complex Of Purk:
N5-carboxyaminoimidazole Ribonucleotide Synthetase
Length = 387
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 93 TQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLD 134
T++FP + N + L+ESI+ A + LS +A+ Y + D
Sbjct: 209 TKVFPVAENIHVNNILHESIVPARITEELSQKAIAYAKVLAD 250
>pdb|3L6A|A Chain A, Crystal Structure Of The C-Terminal Region Of Human P97
Length = 364
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD-DMEKAFEMYSLMQK 448
++ + +GN+ A + VREM E+ ++I S RSD D EKA + SL+++
Sbjct: 17 TVVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASSLISLLKQ 76
Query: 449 SGFS 452
G +
Sbjct: 77 EGIA 80
>pdb|2NVK|X Chain X, Crystal Structure Of Thioredoxin Reductase From Drosophila
Melanogaster
Length = 488
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 376 LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI 416
LK G P+V+ ++++R F + +MA + MEERGI
Sbjct: 206 LKGLGYEPTVMVRSIVLRGF----DQQMAELVAASMEERGI 242
>pdb|3DGH|A Chain A, Crystal Structure Of Drosophila Thioredoxin Reductase,
C-Terminal 8- Residue Truncation
pdb|3DGH|B Chain B, Crystal Structure Of Drosophila Thioredoxin Reductase,
C-Terminal 8- Residue Truncation
Length = 483
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 376 LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI 416
LK G P+V+ ++++R F + +MA + MEERGI
Sbjct: 206 LKGLGYEPTVMVRSIVLRGF----DQQMAELVAASMEERGI 242
>pdb|3DH9|A Chain A, Crystal Structure Of Drosophila Thioredoxin Reductase,
Wild-Type
pdb|3DH9|B Chain B, Crystal Structure Of Drosophila Thioredoxin Reductase,
Wild-Type
Length = 482
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 376 LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI 416
LK G P+V+ ++++R F + +MA + MEERGI
Sbjct: 202 LKGLGYEPTVMVRSIVLRGF----DQQMAELVAASMEERGI 238
>pdb|1AA0|A Chain A, Fibritin Deletion Mutant E (Bacteriophage T4)
Length = 113
Score = 29.6 bits (65), Expect = 4.7, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 344 AGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKM 403
AGI V+ N L++G G T + L N +K+N + + VT V +K S +
Sbjct: 20 AGIKGQVVALNTLVNGTNPNGSTVEERGLTNSIKANETNIASVTQEV---NTAKGNISSL 76
Query: 404 ASDLVREMEERGITP 418
D V+ ++E G P
Sbjct: 77 QGD-VQALQEAGYIP 90
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 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,186,010
Number of Sequences: 62578
Number of extensions: 658101
Number of successful extensions: 1563
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1537
Number of HSP's gapped (non-prelim): 30
length of query: 574
length of database: 14,973,337
effective HSP length: 104
effective length of query: 470
effective length of database: 8,465,225
effective search space: 3978655750
effective search space used: 3978655750
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)