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= 004791
(730 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 = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 56/130 (43%), Gaps = 11/130 (8%)
Query: 210 INGCCKVGNVGEAELYVSKIVQAGLSPDTFTYTSLILGYCR----------NKDVEKGFR 259
++ C K G+V EA + + G+ + Y +++L C N + +GF
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHY-NVLLYVCSLAEAATESSPNPGLSRGFD 91
Query: 260 VFMMMPKKGCRRNEVSYTNLIHGLCEAKRVDEALDLFRRMGEDDCRPTVRTYTVVIFGLC 319
+F M NE ++TN + A D+ ++M +P +R+Y +FG C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 320 RVGRKSEALE 329
R G +A E
Sbjct: 152 RKGDADKAYE 161
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/135 (20%), Positives = 58/135 (42%), Gaps = 11/135 (8%)
Query: 490 IDTLCKRGRVEEAQVLFDSLEKKGIKAGEVIYTALI----------DGYCKEGKIDDAHS 539
+D K+G V EA L+D + G++ + Y L+ + G +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFD 91
Query: 540 LLERMLSDDCLPNSYTYNALIDGLYRERKVQEALLLVEKMTKMGVKPTVYTYTILIEEVL 599
+ ++M+ D +PN T+ + + A +V++M G++P + +Y +
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 600 KEGDFDHAHRLLDQM 614
++GD D A+ + M
Sbjct: 152 RKGDADKAYEVDAHM 166
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 446 PTLITYNSLIYGQCREGHLDSAYKV 470
P L +Y ++G CR+G D AY+V
Sbjct: 138 PRLRSYGPALFGFCRKGDADKAYEV 162
>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 = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 53/130 (40%), Gaps = 11/130 (8%)
Query: 210 INGCCKVGNVGEAELYVSKIVQAGLSPDTFTYTSLILGYCR----------NKDVEKGFR 259
++ C K G+V EA + + G+ + Y +++L C N + +GF
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHY-NVLLYVCSLAEAATESSPNPGLSRGFD 91
Query: 260 VFMMMPKKGCRRNEVSYTNLIHGLCEAKRVDEALDLFRRMGEDDCRPTVRTYTVVIFGLC 319
+F NE ++TN + A D ++ +P +R+Y +FG C
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 320 RVGRKSEALE 329
R G +A E
Sbjct: 152 RKGDADKAYE 161
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 25/131 (19%), Positives = 54/131 (41%), Gaps = 11/131 (8%)
Query: 490 IDTLCKRGRVEEAQVLFDSLEKKGIKAGEVIYTALI----------DGYCKEGKIDDAHS 539
+D K+G V EA L+D + G++ + Y L+ + G +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFD 91
Query: 540 LLERMLSDDCLPNSYTYNALIDGLYRERKVQEALLLVEKMTKMGVKPTVYTYTILIEEVL 599
+ ++ + D +PN T+ + + A V++ G++P + +Y +
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 600 KEGDFDHAHRL 610
++GD D A+ +
Sbjct: 152 RKGDADKAYEV 162
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/116 (19%), Positives = 45/116 (38%), Gaps = 9/116 (7%)
Query: 326 EALEFFNEMSARGCEPNVHTYTVLIDCLCKENKVDEAS---------ELLNRMLEKGLFP 376
EAL ++E G + + + Y VL+ E+S ++ + + + P
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVP 103
Query: 377 NVVTYNALIDGYCKEGLMEAALQILDLMKSNNCSPNARTYNELICGFCKRKNVHRA 432
N T+ + E A + K+ P R+Y + GFC++ + +A
Sbjct: 104 NEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 446 PTLITYNSLIYGQCREGHLDSAYKV 470
P L +Y ++G CR+G D AY+V
Sbjct: 138 PRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 38.1 bits (87), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 45/83 (54%), Gaps = 8/83 (9%)
Query: 447 TLITYNSLIYGQCREGHLDSAYKVLHLINESGLVPDQFTYSVFIDTLCKR----GRVEEA 502
TL YN+++ G R+G VL ++ ++GL PD +Y+ + + ++ G +E
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 503 QVLFDSLEKKGIKAGEVIYTALI 525
+ + ++G+K + ++TA++
Sbjct: 224 ---LEQMSQEGLKL-QALFTAVL 242
>pdb|3REN|A Chain A, Cpf_2247, A Novel Alpha-Amylase From Clostridium
Perfringens
pdb|3REN|B Chain B, Cpf_2247, A Novel Alpha-Amylase From Clostridium
Perfringens
Length = 350
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 493 LCKRGRVEEAQVLFDSLEKKGIKAGEVIYTALIDGYCKEGKIDDAHSLL 541
L RG E + LFD +EK K+G IYT ID EG I HS+L
Sbjct: 14 LVPRGSHXEEKXLFDFIEKDLSKSGYGIYTNYIDK-SSEGDITKGHSVL 61
>pdb|3L0P|A Chain A, Crystal Structures Of Iron Containing Adenylate Kinase
From Desulfovibrio Gigas
pdb|3L0S|A Chain A, Crystal Structures Of Zinc, Cobalt And Iron Containing
Adenylate Kinase From Gram-Negative Bacteria
Desulfovibrio Gigas
pdb|3L0S|C Chain C, Crystal Structures Of Zinc, Cobalt And Iron Containing
Adenylate Kinase From Gram-Negative Bacteria
Desulfovibrio Gigas
Length = 223
Score = 33.1 bits (74), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 11/70 (15%)
Query: 462 GHLDSAYKVLHLINESGLVPDQFTYSVFIDTLCKRGR-----------VEEAQVLFDSLE 510
G + K I+ LVPD T + ++TL +G+ +AQ LF++L+
Sbjct: 41 GGTELGKKAKEFIDRGDLVPDDITIPMVLETLESKGKDGWLLDGFPRNTVQAQKLFEALQ 100
Query: 511 KKGIKAGEVI 520
+KG+K VI
Sbjct: 101 EKGMKINFVI 110
>pdb|2XB4|A Chain A, Crystal Structures Of Zinc Containing Adenylate Kinase
From Desulfovibrio Gigas
Length = 223
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 11/70 (15%)
Query: 462 GHLDSAYKVLHLINESGLVPDQFTYSVFIDTLCKRGR-----------VEEAQVLFDSLE 510
G + K I+ LVPD T + ++TL +G+ +AQ LF++L+
Sbjct: 41 GGTELGKKAKEFIDRGDLVPDDITIPMVLETLESKGKDGWLLDGFPRNTVQAQKLFEALQ 100
Query: 511 KKGIKAGEVI 520
+KG+K VI
Sbjct: 101 EKGMKINFVI 110
>pdb|3ASG|A Chain A, Mama D159k Mutant 2
pdb|3ASG|B Chain B, Mama D159k Mutant 2
pdb|3ASH|A Chain A, Mama D159k Mutant 1
pdb|3ASH|B Chain B, Mama D159k Mutant 1
Length = 186
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 36/122 (29%), Positives = 58/122 (47%), Gaps = 15/122 (12%)
Query: 527 GYCKEGKIDDAHSLLERMLSDDCLPNSYTYNALIDGLYRERKVQEALLLVEKMTKMG-VK 585
Y K G +D LLER L+D P++ ++ Y + VQ+ L V + K+
Sbjct: 51 AYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQ--VQKYDLAVPLLIKVAEAN 106
Query: 586 PTVYTYTILIEEVLKE-GDFDHAHRLLDQM-VSLGLKPD---VYTYTAFIQAYCSIGKLD 640
P + + LK G FD A +D ++LGL+P+ V+ AF +Y +G+ +
Sbjct: 107 PINFNVRFRLGVALKNLGRFDEA---IDSFKIALGLRPNEGKVHRAIAF--SYEQMGRHE 161
Query: 641 EA 642
EA
Sbjct: 162 EA 163
>pdb|1QOX|A Chain A, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|B Chain B, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|C Chain C, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|D Chain D, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|E Chain E, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|F Chain F, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|G Chain G, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|H Chain H, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|I Chain I, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|J Chain J, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|K Chain K, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|L Chain L, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|M Chain M, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|N Chain N, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|O Chain O, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
pdb|1QOX|P Chain P, Beta-Glucosidase From Bacillus Circulans Sp. Alkalophilus
Length = 449
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 31/53 (58%), Gaps = 9/53 (16%)
Query: 576 VEKMTKMGVKPTVYTYTILIEEVLKEG-------DFDHAHRLLDQMVSLGLKP 621
V+ + +GVK VY ++I VL +G D+ HRL+D++++ G++P
Sbjct: 64 VQLLKDLGVK--VYRFSISWPRVLPQGTGEVNRAGLDYYHRLVDELLANGIEP 114
>pdb|3AS8|A Chain A, Mama Msr-1 P41212
pdb|3ASF|A Chain A, Mama Msr-1 C2
pdb|3ASF|B Chain B, Mama Msr-1 C2
Length = 186
Score = 30.4 bits (67), Expect = 3.9, Method: Composition-based stats.
Identities = 41/152 (26%), Positives = 66/152 (43%), Gaps = 12/152 (7%)
Query: 495 KRGRVEEAQVLFDSLEKKGIKAGEVIYTALIDGYCKEGKIDDAHSLLERMLSDDCLPNSY 554
K GR EA V+ + + EV I Y K G +D LLER ++D P++
Sbjct: 20 KAGRYSEAVVMLEQVYDADAFDVEVALHLGI-AYVKTGAVDRGTELLERSIAD--APDNI 76
Query: 555 TYNALIDGLYRERKVQEALLLVEKMTKMG-VKPTVYTYTILIEEVLKE-GDFDHAHRLLD 612
++ Y + VQ+ L V + K+ P + + L G FD A +D
Sbjct: 77 KVATVLGLTYVQ--VQKYDLAVPLLVKVAEANPVNFNVRFRLGVALDNLGRFDEA---ID 131
Query: 613 QM-VSLGLKPDV-YTYTAFIQAYCSIGKLDEA 642
++LGL+P+ + A +Y +G +EA
Sbjct: 132 SFKIALGLRPNEGKVHRAIAYSYEQMGSHEEA 163
>pdb|3AGR|A Chain A, Crystal Structure Of Nucleoside Triphosphate Hydrolases
From Neospora Caninum
pdb|3AGR|B Chain B, Crystal Structure Of Nucleoside Triphosphate Hydrolases
From Neospora Caninum
Length = 602
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 518 EVIYTALIDGYCKEGKIDDAHSLLERMLSDDCL 550
E+ + A+ + C+ KID SL ER+ DDC
Sbjct: 378 EISFKAMNEIQCRVNKIDPTKSLAERLRIDDCF 410
>pdb|2XZ2|A Chain A, Crystal Structure Of Cstf-50 Homodimerization Domain
Length = 66
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 26/45 (57%)
Query: 379 VTYNALIDGYCKEGLMEAALQILDLMKSNNCSPNARTYNELICGF 423
+ Y +I +GL + A+++ L+K++ C+P+ R + +I G
Sbjct: 18 ILYRLMISQLMYDGLEKFAMELSMLVKADQCAPSERLLHVMIAGM 62
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
0.323 0.138 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,914,722
Number of Sequences: 62578
Number of extensions: 787793
Number of successful extensions: 1762
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1733
Number of HSP's gapped (non-prelim): 25
length of query: 730
length of database: 14,973,337
effective HSP length: 106
effective length of query: 624
effective length of database: 8,340,069
effective search space: 5204203056
effective search space used: 5204203056
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)