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= 039405
(100 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TEE|A Chain A, Crystal Structure Of C205f Mutant Of Pks18 From
Mycobacterium Tuberculosis
pdb|1TEE|B Chain B, Crystal Structure Of C205f Mutant Of Pks18 From
Mycobacterium Tuberculosis
pdb|1TEE|C Chain C, Crystal Structure Of C205f Mutant Of Pks18 From
Mycobacterium Tuberculosis
pdb|1TEE|D Chain D, Crystal Structure Of C205f Mutant Of Pks18 From
Mycobacterium Tuberculosis
Length = 393
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 34 KGYLAVYVGESQKKRFVIPASLLSQPSFQELLSKAEDE--FGFNHPMGGLTIPCRED 88
G A+ +G SQ + + P ++ + SF +LL ED G NH G+T E+
Sbjct: 226 DGCAALVIGASQVQEKLEPGKVVVRSSFSQLLDNTEDGIVLGVNH--NGITCELSEN 280
>pdb|4GSK|A Chain A, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
pdb|4GSK|B Chain B, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
Length = 615
Score = 28.9 bits (63), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 25/37 (67%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K+I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKSIIRKTKVLAIRDTSTMENVPSALTKNFLSV 227
>pdb|3RUJ|A Chain A, Crystal Structure Of N-Terminal Region Of Yeast Atg7
Length = 296
Score = 28.9 bits (63), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTXENVPSALTKNFLSV 227
>pdb|3T7F|A Chain A, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
Architecture And Mechanism In The Autophagy Pathway
Length = 291
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTXENVPSALTKNFLSV 227
>pdb|3T7H|A Chain A, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
Architecture And Mechanism In The Autophagy Pathway
pdb|3T7H|B Chain B, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
Architecture And Mechanism In The Autophagy Pathway
Length = 291
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 227
>pdb|3T7G|A Chain A, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
Architecture And Mechanism In The Autophagy Pathway
pdb|3T7G|B Chain B, Atg8 Transfer From Atg7 To Atg3: A Distinctive E1-E2
Architecture And Mechanism In The Autophagy Pathway
Length = 291
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 227
>pdb|4GSJ|A Chain A, Crystal Structure Of Atg7 Ntd K14a F16a D18a Mutant
Length = 291
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 227
>pdb|4GSL|A Chain A, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
pdb|4GSL|B Chain B, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
Length = 615
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 191 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 227
>pdb|3VH2|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg7 (1-613)
Length = 616
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 192 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 228
>pdb|3VH1|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg7 (1-595)
Length = 598
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 7 VVAHAKNILRQSKLFATRGTSMSKDVP----KGYLAV 39
+V + K I+R++K+ A R TS ++VP K +L+V
Sbjct: 192 IVNYDKCIIRKTKVLAIRDTSTMENVPSALTKNFLSV 228
>pdb|1TED|A Chain A, Crystal Structure Of A Type Iii Polyketide Synthase Pks18
From Mycobacterium Tuberculosis
pdb|1TED|B Chain B, Crystal Structure Of A Type Iii Polyketide Synthase Pks18
From Mycobacterium Tuberculosis
pdb|1TED|C Chain C, Crystal Structure Of A Type Iii Polyketide Synthase Pks18
From Mycobacterium Tuberculosis
pdb|1TED|D Chain D, Crystal Structure Of A Type Iii Polyketide Synthase Pks18
From Mycobacterium Tuberculosis
Length = 393
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 35 GYLAVYVGESQKKRFVIPASLLSQPSFQELLSKAEDE--FGFNHPMGGLTIPCRED 88
G A+ +G SQ + + P ++ + SF +LL ED G NH G+T E+
Sbjct: 227 GCAALVIGASQVQEKLEPGKVVVRSSFSQLLDNTEDGIVLGVNH--NGITCELSEN 280
>pdb|3U99|A Chain A, The Experimental X-Ray Structure Of The New Diheme
Cytochrome Type C From Shewanella Baltica Os155 Sb-Dhc
Length = 148
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 25 GTSMSKDVPKGYLAVYVGESQKKRFVIPASLLSQPSFQELLSKAEDEFGFN 75
G +S+ +P+ A Y E PA+LL ++ + + E+ FG N
Sbjct: 2 GRGLSRAIPQN--AEYTAECGSCHMAYPANLLPADKWRAITANLENHFGDN 50
>pdb|3EMK|A Chain A, 2.5a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
From Brucella Melitensis
pdb|3EMK|B Chain B, 2.5a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
From Brucella Melitensis
pdb|3EMK|C Chain C, 2.5a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
From Brucella Melitensis
pdb|3EMK|D Chain D, 2.5a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
From Brucella Melitensis
Length = 246
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 37 LAVYVGESQKKRFVIPASLLSQPSFQELLSKAEDEFG 73
LA +GE + FV PA+L + + + L KAE+E G
Sbjct: 47 LAAELGE---RIFVFPANLSDREAVKALGQKAEEEMG 80
>pdb|3ENN|A Chain A, 2.1a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
FROM BRUCELLA Melitensis (P43212)
pdb|3ENN|B Chain B, 2.1a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
FROM BRUCELLA Melitensis (P43212)
pdb|3ENN|C Chain C, 2.1a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
FROM BRUCELLA Melitensis (P43212)
pdb|3ENN|D Chain D, 2.1a Crystal Structure Of GlucoseRIBITOL DEHYDROGENASE
FROM BRUCELLA Melitensis (P43212)
Length = 249
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 37 LAVYVGESQKKRFVIPASLLSQPSFQELLSKAEDEFG 73
LA +GE + FV PA+L + + + L KAE+E G
Sbjct: 50 LAAELGE---RIFVFPANLSDREAVKALGQKAEEEMG 83
>pdb|3NMA|A Chain A, Mutant P169s Of Foot-And-Mouth Disease Virus Rna Dependent
Rna- Polymerase
Length = 476
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3KMQ|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna, Tetragonal
Structure
pdb|3KMS|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna Trigonal
Structure
Length = 476
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|1U09|A Chain A, Footand Mouth Disease Virus Rna-Dependent Rna Polymerase
pdb|1WNE|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna
pdb|2E9R|X Chain X, Foot-And-Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna And With Ribavirin
pdb|2E9T|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9T|D Chain D, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9Z|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase In Complex
With A Template- Primer Rna, Atp And Utp
pdb|2EC0|A Chain A, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
pdb|2EC0|D Chain D, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
Length = 476
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3NL0|A Chain A, Mutant P44s M296i Of Foot-And-Mouth Disease Virus
Rna-Dependent Rna Polymerase
Length = 475
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3NKY|A Chain A, Structure Of A Mutant P44s Of Foot-And-Mouth Disease Virus
Rna- Dependent Rna Polymerase
Length = 476
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3KNA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
pdb|3KOA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
And Gtp
Length = 476
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|4IQX|A Chain A, Mutant P44s P169s M296i Of Foot-and-mouth Disease Virus
Rna-dependent Rna Polymerase
Length = 481
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3KLV|A Chain A, M296i G62s Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
Length = 476
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|2D7S|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With Vpg Protein
pdb|2F8E|X Chain X, Foot And Mouth Disease Virus Rna-dependent Rna Polymerase
In Complex With Uridylylated Vpg Protein
Length = 474
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 21 FATRGTSMSKDVPKGYLAVYVGESQKKRFVIP-ASLLSQPSFQEL 64
FA RGT K + LAV+ G + +R P L PS++ L
Sbjct: 414 FARRGTIQEKLISVAGLAVHSGPDEYRRLFEPFQGLFEIPSYRSL 458
>pdb|3PQS|A Chain A, The Crystal Structures Of Porcine Pathogen Aph87_tbpb
Length = 521
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 15 LRQSKLFATRGTSMSKDVPKGYLAVYVGE 43
LR +G SK++PKG + VY GE
Sbjct: 116 LRDKGYVYYKGVHPSKELPKGNIIVYQGE 144
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
0.319 0.133 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,608,918
Number of Sequences: 62578
Number of extensions: 86499
Number of successful extensions: 235
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 229
Number of HSP's gapped (non-prelim): 26
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)