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= 003315
(831 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 = 37.4 bits (85), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 29/130 (22%), Positives = 59/130 (45%), Gaps = 11/130 (8%)
Query: 392 QKGMASATIKQFLEFKDMGFFLNKVCYDVIVDSLCKLGE----------VEKAMILFKEM 441
+KG ++ + E + G L++ Y+V++ +C L E + + +FK+M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 442 KDRQIVPDVVNYTTMICGYCLQGKLGDALDLFKEMKEMGHKPDIITYNVLAGAFAQYGAV 501
++VP+ +T + A D+ K+MK G +P + +Y F + G
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 502 QKAFDLLNYM 511
KA+++ +M
Sbjct: 157 DKAYEVDAHM 166
Score = 37.0 bits (84), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 35/179 (19%), Positives = 73/179 (40%), Gaps = 9/179 (5%)
Query: 252 KKGSMQEAVEVFLEMEKAGVTPNAFAYSTCI---------EGLCMNGMLDLGYELLLKWE 302
KKG + EA+ ++ E + GV + + Y+ + N L G+++ +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 303 EADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHMEKQGVVPDVYAYSALISGYCKFGKIN 362
+ + +T R ++ E A ++ M+ G+ P + +Y + G+C+ G +
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 363 KALLLHHEMTSKGIKTNCGVLSVILKGLCQKGMASATIKQFLEFKDMGFFLNKVCYDVI 421
KA + M + L+ +LK A K +D+ ++K +D+I
Sbjct: 158 KAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMI 216
Score = 34.3 bits (77), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 28/127 (22%), Positives = 52/127 (40%), Gaps = 9/127 (7%)
Query: 422 VDSLCKLGEVEKAMILFKEMKDRQIVPDVVNYTTM--ICGYCLQGK-------LGDALDL 472
+D K G+V +A+ L+ E + + +Y + +C L D+
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 473 FKEMKEMGHKPDIITYNVLAGAFAQYGAVQKAFDLLNYMKRHGLEPNFVTHNMIIEGLCM 532
FK+M P+ T+ A + AFD++ MK G++P ++ + G C
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 533 GGRVEEA 539
G ++A
Sbjct: 153 KGDADKA 159
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 50/123 (40%), Gaps = 17/123 (13%)
Query: 703 KINLKGSSSSPDAL--------QCKEDVVDASVFWNEMKEMGIRPDVISYTVLI------ 748
K K SP+AL K DV++A ++E + G++ Y VL+
Sbjct: 15 KAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLA 74
Query: 749 ---AKLCNTQNLEDGITVFNEISDRGLEPDTVTYTALLCGYLAKGDLDRAIALVDEMSVK 805
+ L G +F ++ + P+ T+T +AK D + A +V +M
Sbjct: 75 EAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF 134
Query: 806 GIQ 808
GIQ
Sbjct: 135 GIQ 137
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 26/59 (44%)
Query: 239 NEYTYVIVIKALCKKGSMQEAVEVFLEMEKAGVTPNAFAYSTCIEGLCMNGMLDLGYEL 297
NE T+ + K + A ++ +M+ G+ P +Y + G C G D YE+
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|3SJL|A Chain A, Crystal Structure Of The P107s-MaugPRE-Methylamine
Dehydrogenase Complex
pdb|3SJL|B Chain B, Crystal Structure Of The P107s-MaugPRE-Methylamine
Dehydrogenase Complex
Length = 373
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 291 LDLGYELLLKWEEADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHME-KQGVV 342
D Y+ +++ EE PL F YTV I W C L HM+ KQGV
Sbjct: 171 FDSKYDRVMRGEEKFTPLEEFGYTVFITW----------NCRLCHMQRKQGVA 213
>pdb|3ORV|A Chain A, Crystal Structure Of The Y294h-MaugPRE-Methylamine
Dehydrogenase Complex
pdb|3ORV|B Chain B, Crystal Structure Of The Y294h-MaugPRE-Methylamine
Dehydrogenase Complex
Length = 373
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 291 LDLGYELLLKWEEADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHME-KQGVV 342
D Y+ +++ EE PL F YTV I W C L HM+ KQGV
Sbjct: 171 FDSKYDRVMRGEEKFTPLEEFGYTVFITW----------NCRLCHMQRKQGVA 213
>pdb|3SLE|A Chain A, Crystal Structure Of The P107c-MaugPRE-Methylamine
Dehydrogenase Complex
pdb|3SLE|B Chain B, Crystal Structure Of The P107c-MaugPRE-Methylamine
Dehydrogenase Complex
Length = 373
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 291 LDLGYELLLKWEEADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHME-KQGVV 342
D Y+ +++ EE PL F YTV I W C L HM+ KQGV
Sbjct: 171 FDSKYDRVMRGEEKFTPLEEFGYTVFITW----------NCRLCHMQRKQGVA 213
>pdb|3L4M|A Chain A, Crystal Structure Of The MaugPRE-Methylamine Dehydrogenase
Complex.
pdb|3L4M|B Chain B, Crystal Structure Of The MaugPRE-Methylamine Dehydrogenase
Complex.
pdb|3L4O|A Chain A, Crystal Structure Of The MaugPRE-Methylamine Dehydrogenase
Complex After Treatment With Hydrogen Peroxide
pdb|3L4O|B Chain B, Crystal Structure Of The MaugPRE-Methylamine Dehydrogenase
Complex After Treatment With Hydrogen Peroxide
pdb|3PXS|A Chain A, Crystal Structure Of Diferrous Maug In Complex With
Pre-Methylamine Dehydrogenase:
pdb|3PXS|B Chain B, Crystal Structure Of Diferrous Maug In Complex With
Pre-Methylamine Dehydrogenase:
pdb|3PXT|A Chain A, Crystal Structure Of Ferrous Co Adduct Of Maug In Complex
With Pre- Methylamine Dehydrogenase
pdb|3PXT|B Chain B, Crystal Structure Of Ferrous Co Adduct Of Maug In Complex
With Pre- Methylamine Dehydrogenase
pdb|3PXW|A Chain A, Crystal Structure Of Ferrous No Adduct Of Maug In Complex
With Pre- Methylamine Dehydrogenase
pdb|3PXW|B Chain B, Crystal Structure Of Ferrous No Adduct Of Maug In Complex
With Pre- Methylamine Dehydrogenase
pdb|3SWS|A Chain A, Crystal Structure Of The Quinone Form Of Methylamine
Dehydrogenase In Complex With The Diferric Form Of Maug
pdb|3SWS|B Chain B, Crystal Structure Of The Quinone Form Of Methylamine
Dehydrogenase In Complex With The Diferric Form Of Maug
pdb|3SXT|A Chain A, Crystal Structure Of The Quinol Form Of Methylamine
Dehydrogenase In Complex With The Diferrous Form Of Maug
pdb|3SXT|B Chain B, Crystal Structure Of The Quinol Form Of Methylamine
Dehydrogenase In Complex With The Diferrous Form Of Maug
Length = 373
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 291 LDLGYELLLKWEEADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHME-KQGVV 342
D Y+ +++ EE PL F YTV I W C L HM+ KQGV
Sbjct: 171 FDSKYDRVMRGEEKFTPLEEFGYTVFITW----------NCRLCHMQRKQGVA 213
>pdb|3SVW|A Chain A, Crystal Structure Of The P107v-MaugPRE-Methylamine
Dehydrogenase Complex
pdb|3SVW|B Chain B, Crystal Structure Of The P107v-MaugPRE-Methylamine
Dehydrogenase Complex
Length = 373
Score = 34.7 bits (78), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 291 LDLGYELLLKWEEADIPLSAFAYTVVIRWFCDQNKLEKAECVLLHME-KQGVV 342
D Y+ +++ EE PL F YTV I W C L HM+ KQGV
Sbjct: 171 FDSKYDRVMRGEEKFTPLEEFGYTVFITW----------NCRLCHMQRKQGVA 213
>pdb|3SHW|A Chain A, Crystal Structure Of Zo-1 Pdz3-Sh3-Guk Supramodule Complex
With Connexin-45 Peptide
Length = 468
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 586 KSSCNKLITNLLILRDNNNALKLFKTMITLNAEPSKSMYDKLIGALCQAEEMEQAQLVF 644
+ S KL LR NN+ LF T I LN SM D GAL +A + +Q QLV+
Sbjct: 328 RKSARKLYERSHKLRKNNH--HLFTTTINLN-----SMNDGWYGALKEAIQQQQNQLVW 379
>pdb|3TSW|A Chain A, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|C Chain C, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|D Chain D, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSZ|A Chain A, Crystal Structure Of Pdz3-Sh3-Guk Core Module From Human
Zo-1 In Complex With 12mer Peptide From Human Jam-A
Cytoplasmic Tail
Length = 391
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 586 KSSCNKLITNLLILRDNNNALKLFKTMITLNAEPSKSMYDKLIGALCQAEEMEQAQLVF 644
+ S KL LR NN+ LF T I LN SM D GAL +A + +Q QLV+
Sbjct: 336 RKSARKLYERSHKLRKNNH--HLFTTTINLN-----SMNDGWYGALKEAIQQQQNQLVW 387
>pdb|3LH5|A Chain A, Crystal Structure Of The Sh3-Guanylate Kinase Core Domain
Of Zo-1
Length = 251
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 586 KSSCNKLITNLLILRDNNNALKLFKTMITLNAEPSKSMYDKLIGALCQAEEMEQAQLVF 644
+ S KL LR NN+ LF T I LN SM D GAL +A + +Q QLV+
Sbjct: 196 RKSARKLYERSHKLRKNNH--HLFTTTINLN-----SMNDGWYGALKEAIQQQQNQLVW 247
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 229 QHLKRLGLSLNEYTYVIVIKALCKKGSMQEAVEVFLEMEKAGVTPNAFAYSTCIEGLCMN 288
Q KR L+L+ Y V++ ++G+ +E V V ++ AG+TP+ +Y+ ++ CM
Sbjct: 156 QRQKRKLLTLDMYNAVML--GWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ--CMG 211
>pdb|3QRE|A Chain A, Crystal Structure Of An Enoyl-Coa Hydratase Echa12_1 From
Mycobacterium Marinum
Length = 298
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 10/85 (11%)
Query: 634 AEEMEQAQLVFNVLVDKGLTPHLVTYTMMIHGYCKINCLRE-ARDVFNDMKQRGITPDVV 692
AEE Q LV V+ + L P + Y I YC + + R V+ D T DVV
Sbjct: 203 AEEAAQLGLVKEVVTPEQLMPRALEYAEDIARYCSPSSMAVIKRQVYGDA-----TRDVV 257
Query: 693 TYTVLFDAHSKINLKGSSSSPDALQ 717
T +H+++ L+ + PD ++
Sbjct: 258 EAT----SHAEVLLREAMPRPDVIE 278
>pdb|3QIT|A Chain A, Thioesterase Domain From Curacin Biosynthetic Pathway
pdb|3QIT|B Chain B, Thioesterase Domain From Curacin Biosynthetic Pathway
pdb|3QIT|C Chain C, Thioesterase Domain From Curacin Biosynthetic Pathway
pdb|3QIT|D Chain D, Thioesterase Domain From Curacin Biosynthetic Pathway
Length = 286
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 4/32 (12%)
Query: 285 LCMNGMLDLGYELLLKWEEADIPLSAFAYTVV 316
LC++G+L+ G L W+E +PL+A Y VV
Sbjct: 30 LCIHGILEQG----LAWQEVALPLAAQGYRVV 57
>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 = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 26/127 (20%), Positives = 49/127 (38%), Gaps = 9/127 (7%)
Query: 422 VDSLCKLGEVEKAMILFKEMKDRQIVPDVVNYTTM--ICGYC-------LQGKLGDALDL 472
+D K G+V +A+ L+ E + + +Y + +C L D+
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 473 FKEMKEMGHKPDIITYNVLAGAFAQYGAVQKAFDLLNYMKRHGLEPNFVTHNMIIEGLCM 532
FK+ P+ T+ A + AFD + K G++P ++ + G C
Sbjct: 93 FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCR 152
Query: 533 GGRVEEA 539
G ++A
Sbjct: 153 KGDADKA 159
>pdb|3NNF|A Chain A, Halogenase Domain From Cura Module With Fe, Chloride, And
Alpha- Ketoglutarate
pdb|3NNL|A Chain A, Halogenase Domain From Cura Module (Crystal Form Iii)
pdb|3NNL|B Chain B, Halogenase Domain From Cura Module (Crystal Form Iii)
pdb|3NNM|A Chain A, Halogenase Domain From Cura Module (Crystal Form Iv)
pdb|3NNM|B Chain B, Halogenase Domain From Cura Module (Crystal Form Iv)
Length = 344
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 687 ITPDVVTYTVLFDAHSKINLKGSSSSPDALQCKEDVVDASVFWNEMKEMGIRPDVISYTV 746
I P Y+V FD H K N+K S D E V +A+ +N++ E DVI YT+
Sbjct: 179 IFPGQFYYSV-FDLHLKNNIKWDESQGD---LNEYVANANTIYNKITE-----DVIDYTI 229
Query: 747 LIAKLCNTQNLEDGITVFNE 766
+ NL D FN+
Sbjct: 230 KDGYEEDEYNLGDAF-FFNK 248
>pdb|3NNJ|A Chain A, Halogenase Domain From Cura Module (Apo Hal)
pdb|3NNJ|B Chain B, Halogenase Domain From Cura Module (Apo Hal)
Length = 344
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 687 ITPDVVTYTVLFDAHSKINLKGSSSSPDALQCKEDVVDASVFWNEMKEMGIRPDVISYTV 746
I P Y+V FD H K N+K S D E V +A+ +N++ E DVI YT+
Sbjct: 179 IFPGQFYYSV-FDLHLKNNIKWDESQGD---LNEYVANANTIYNKITE-----DVIDYTI 229
Query: 747 LIAKLCNTQNLEDGITVFNE 766
+ NL D FN+
Sbjct: 230 KDGYEEDEYNLGDAF-FFNK 248
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 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,529,775
Number of Sequences: 62578
Number of extensions: 955300
Number of successful extensions: 2153
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2122
Number of HSP's gapped (non-prelim): 40
length of query: 831
length of database: 14,973,337
effective HSP length: 107
effective length of query: 724
effective length of database: 8,277,491
effective search space: 5992903484
effective search space used: 5992903484
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: 56 (26.2 bits)