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= 004354
(759 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PXX|A Chain A, Human Putative Methyltransferase Mgc2408
Length = 215
Score = 83.2 bits (204), Expect = 5e-16, Method: Composition-based stats.
Identities = 57/180 (31%), Positives = 87/180 (48%), Gaps = 30/180 (16%)
Query: 29 ENWDKFFTIRGIGDS--FEWYAEWPQLRDPLISLIGAPTSSPPPQILVPGCGNSRLSEHL 86
E WD+ + +G DS ++W+ ++ R L P P +ILV GCGNS LS L
Sbjct: 8 EYWDQRY--QGAADSAPYDWFGDFSSFRALL-----EPELRPEDRILVLGCGNSALSYEL 60
Query: 87 YDAGFHGITNVDFSKVVISDMLRRNVRDRSDMRWRVMDMTSM------------QGGLDA 134
+ GF +T+VD+S VV++ M + +RW MD+ + +G LDA
Sbjct: 61 FLGGFPNVTSVDYSSVVVAAM-QACYAHVPQLRWETMDVRKLDFPSASFDVVLEKGTLDA 119
Query: 135 LMEPEL--------GHKLGNQYLSEVKRLLKSGGKFVCLTLAESHVLGLLFPKFRFGWKM 186
L+ E G +Q LSEV R+L GG+F+ +T A H + + +GW +
Sbjct: 120 LLAGERDPWTVSSEGVHTVDQVLSEVSRVLVPGGRFISMTSAAPHFRTRHYAQAYYGWSL 179
>pdb|3CCF|A Chain A, Crystal Structure Of Putative Methyltransferase
(Yp_321342.1) From Anabaena Variabilis Atcc 29413 At
1.90 A Resolution
pdb|3CCF|B Chain B, Crystal Structure Of Putative Methyltransferase
(Yp_321342.1) From Anabaena Variabilis Atcc 29413 At
1.90 A Resolution
Length = 279
Score = 33.5 bits (75), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 41/147 (27%), Positives = 63/147 (42%), Gaps = 27/147 (18%)
Query: 26 TSKENWDKFFTIRGIGDSFEWYAEWPQLRDPLISLIGAPTSSPPPQILVPGCGNSRLSEH 85
T+K WD T+ SF W Q + L+ L+ P IL GCG +L+E
Sbjct: 25 TAKNFWDA--TLYQDKHSFVW-----QYGEDLLQLL---NPQPGEFILDLGCGTGQLTEK 74
Query: 86 LYDAGFHGITNVDFSKVVISDMLRRNVR----DRSDMR-WRV---MDMTSMQGGLDALME 137
+ +G + D + I + R+N D +D R +RV +D L + E
Sbjct: 75 IAQSGAE-VLGTDNAATXI-EKARQNYPHLHFDVADARNFRVDKPLDAVFSNAXLHWVKE 132
Query: 138 PELGHKLGNQYLSEVKRLLKSGGKFVC 164
PE ++ + + LKSGG+FV
Sbjct: 133 PEAA-------IASIHQALKSGGRFVA 152
>pdb|3J1S|H Chain H, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 218
Score = 32.7 bits (73), Expect = 0.79, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 27 SKENWDKFFTIRGIGDSFEWYAEWPQLRDPLISLIGAPTSSPPPQILVPGCGNS 80
+ E+ ++ RG +EW+ W Q L+++ A T+ P L PGCG++
Sbjct: 88 TTEDTATYYCARG-DYGYEWFTYWGQ--GTLVTVSAAKTTPPSVYPLAPGCGDT 138
>pdb|2H6L|A Chain A, X-Ray Crystal Structure Of The Metal-Containing Protein
Af0104 From Archaeoglobus Fulgidus. Northeast Structural
Genomics Consortium Target Gr103.
pdb|2H6L|B Chain B, X-Ray Crystal Structure Of The Metal-Containing Protein
Af0104 From Archaeoglobus Fulgidus. Northeast Structural
Genomics Consortium Target Gr103.
pdb|2H6L|C Chain C, X-Ray Crystal Structure Of The Metal-Containing Protein
Af0104 From Archaeoglobus Fulgidus. Northeast Structural
Genomics Consortium Target Gr103
Length = 146
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 26/96 (27%), Positives = 44/96 (45%), Gaps = 11/96 (11%)
Query: 246 NQTRREYSHGSDILYSLEDLQLGAKGDMKNLSPGCRFELILGGEGDFCFSYRAVLLDARE 305
+Q ++EY ++ LE L L K+ P C ++LG +G+ Y L A
Sbjct: 55 DQEKKEYVK-KELXEPLEILSLSGNVSXKDSKPFCHIHVLLGKDGEV---YGGHLFSAE- 109
Query: 306 NSGPFMYNCGVFIVPKT-RAHEWLFSSEEGQWLVVE 340
++ C VF++P + A E F + G +L +E
Sbjct: 110 -----VFACEVFVLPLSGEAPERAFDEQTGLFLWLE 140
>pdb|3S96|A Chain A, Crystal Structure Of 3b5h10
pdb|3S96|C Chain C, Crystal Structure Of 3b5h10
Length = 220
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 34 FFTIRGIGDSFEWYAEWPQLRDPLISLIGAPTSSPPPQILVPG 76
+F RG GD++ W+A W Q L+++ A T+ P L PG
Sbjct: 94 YFCARG-GDNYLWFAYWGQ--GTLVTVSAAKTTPPSVYPLAPG 133
>pdb|1AHP|A Chain A, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
pdb|1AHP|B Chain B, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
Length = 797
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 14/80 (17%)
Query: 361 MDEIQKDLSPLVKQLAPGKDDQGAQIPFMMAGDGIKHRNVVHQATSSLTGPIIVE----- 415
++EI LV++ PG + A++ + H VH A + G V
Sbjct: 372 INEINTRFKTLVEKTWPGDEKVWAKL-------AVVHDKQVHMANLCVVGGFAVNGVAAL 424
Query: 416 --DLVYENVDPEFSRIWPSE 433
DLV +++ PE+ ++WP++
Sbjct: 425 HSDLVVKDLFPEYHQLWPNK 444
>pdb|1L5V|A Chain A, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With Glucose-1-Phosphate
pdb|1L5V|B Chain B, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With Glucose-1-Phosphate
pdb|1L5W|A Chain A, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With The Products Of The Enzymatic Reaction
Between Glucose-1-Phosphate And Maltotetraose
pdb|1L5W|B Chain B, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With The Products Of The Enzymatic Reaction
Between Glucose-1-Phosphate And Maltotetraose
pdb|1L6I|A Chain A, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With The Products Of The Enzymatic Reaction
Between Glucose-1-Phosphate And Maltopentaose
pdb|1L6I|B Chain B, Crystal Structure Of The Maltodextrin Phosphorylase
Complexed With The Products Of The Enzymatic Reaction
Between Glucose-1-Phosphate And Maltopentaose
pdb|2ASV|A Chain A, X-Ray Studies On Protein Complexes: Enzymatic Catalysis In
Crystals Of E. Coli Maltodextrin Phosphorylase (Malp)
pdb|2ASV|B Chain B, X-Ray Studies On Protein Complexes: Enzymatic Catalysis In
Crystals Of E. Coli Maltodextrin Phosphorylase (Malp)
pdb|2AV6|A Chain A, X-Ray Studies On Maltodextrin Phosphorylase Complexes:
Recognition Of Substrates And Cathalitic Mechanism Of
Phosphorylase Family
pdb|2AV6|B Chain B, X-Ray Studies On Maltodextrin Phosphorylase Complexes:
Recognition Of Substrates And Cathalitic Mechanism Of
Phosphorylase Family
pdb|2AW3|A Chain A, X-Ray Studies On Maltodextrin Phosphorylase Complexes:
Recognition Of Substrates And Cathalitic Mechanism Of
Phosphorylase Family
pdb|2AW3|B Chain B, X-Ray Studies On Maltodextrin Phosphorylase Complexes:
Recognition Of Substrates And Cathalitic Mechanism Of
Phosphorylase Family
pdb|2AZD|A Chain A, X-Ray Studies On Maltodextrin Phosphorylase (Malp)
Complexes: Recognition Of Substrates And Catalytic
Mechanism Of Phosphorylase Family
pdb|2AZD|B Chain B, X-Ray Studies On Maltodextrin Phosphorylase (Malp)
Complexes: Recognition Of Substrates And Catalytic
Mechanism Of Phosphorylase Family
Length = 796
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 14/80 (17%)
Query: 361 MDEIQKDLSPLVKQLAPGKDDQGAQIPFMMAGDGIKHRNVVHQATSSLTGPIIVE----- 415
++EI LV++ PG + A++ + H VH A + G V
Sbjct: 371 INEINTRFKTLVEKTWPGDEKVWAKL-------AVVHDKQVHMANLCVVGGFAVNGVAAL 423
Query: 416 --DLVYENVDPEFSRIWPSE 433
DLV +++ PE+ ++WP++
Sbjct: 424 HSDLVVKDLFPEYHQLWPNK 443
>pdb|2ECP|A Chain A, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
pdb|2ECP|B Chain B, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
Length = 796
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 14/80 (17%)
Query: 361 MDEIQKDLSPLVKQLAPGKDDQGAQIPFMMAGDGIKHRNVVHQATSSLTGPIIVE----- 415
++EI LV++ PG + A++ + H VH A + G V
Sbjct: 371 INEINTRFKTLVEKTWPGDEKVWAKL-------AVVHDKQVHMANLCVVGGFAVNGVAAL 423
Query: 416 --DLVYENVDPEFSRIWPSE 433
DLV +++ PE+ ++WP++
Sbjct: 424 HSDLVVKDLFPEYHQLWPNK 443
>pdb|1QM5|A Chain A, Phosphorylase Recognition And Phosphorylysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1QM5|B Chain B, Phosphorylase Recognition And Phosphorylysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1E4O|A Chain A, Phosphorylase Recognition And Phosphorolysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1E4O|B Chain B, Phosphorylase Recognition And Phosphorolysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
Length = 796
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 14/80 (17%)
Query: 361 MDEIQKDLSPLVKQLAPGKDDQGAQIPFMMAGDGIKHRNVVHQATSSLTGPIIVE----- 415
++EI LV++ PG + A++ + H VH A + G V
Sbjct: 371 INEINTRFKTLVEKTWPGDEKVWAKL-------AVVHDKQVHMANLCVVGGFAVNGVAAL 423
Query: 416 --DLVYENVDPEFSRIWPSE 433
DLV +++ PE+ ++WP++
Sbjct: 424 HSDLVVKDLFPEYHQLWPNK 443
>pdb|2VPW|A Chain A, Polysulfide Reductase With Bound Menaquinone
pdb|2VPW|E Chain E, Polysulfide Reductase With Bound Menaquinone
pdb|2VPX|A Chain A, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPX|E Chain E, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPY|A Chain A, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPY|E Chain E, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPZ|A Chain A, Polysulfide Reductase Native Structure
pdb|2VPZ|E Chain E, Polysulfide Reductase Native Structure
Length = 765
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 16/111 (14%)
Query: 317 FIVPKTRAHEWLFSSEEGQWLV--------VESSKAARLIMVLLDTSHASASMD-EIQKD 367
FI +T AHE LF ++ G W+ +E + I L+T S +D E K
Sbjct: 501 FIQLRTPAHEPLFDTKPGWWIARELGLRLGLEQYFPWKTIEEYLETRLQSLGLDLETMKG 560
Query: 368 LSPLVKQLAPGKDD--QGAQIPFMMAGDGI-----KHRNVVHQATSSLTGP 411
+ LV++ P +D + ++PF A I + + HQ T P
Sbjct: 561 MGTLVQRGKPWLEDWEKEGRLPFGTASGKIELYCQRFKEAGHQPLPVFTPP 611
>pdb|4DCQ|B Chain B, Crystal Structure Of The Fab Fragment Of 3b5h10, An
Antibody-Specific For Extended Polyglutamine Repeats
(Orthorhombic Form)
Length = 218
Score = 31.2 bits (69), Expect = 2.3, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 34 FFTIRGIGDSFEWYAEWPQLRDPLISLIGAPTSSPPPQILVPG 76
+F RG G++F W+A W Q L+++ A T+ P L PG
Sbjct: 94 YFCARG-GNNFLWFAYWGQ--GTLVTVSAAKTTPPSVYPLAPG 133
>pdb|1CBV|H Chain H, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
pdb|1NBV|H Chain H, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
Length = 219
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 46 WYAEWPQLRDPLISLIGAPTSSPPPQILVPGCGNS 80
W+A W Q L+++ A T+ P L PGCG++
Sbjct: 107 WFAYWGQ--GTLVTVSAAKTTPPSVYPLAPGCGDT 139
>pdb|4AV2|A Chain A, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|B Chain B, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|C Chain C, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|D Chain D, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|E Chain E, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|F Chain F, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|G Chain G, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|H Chain H, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|I Chain I, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|J Chain J, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|K Chain K, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|L Chain L, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis
Length = 745
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 645 SGMTCPAADFVEGSFLLTVKDALSEQGLFIV----NLVSRSQATKDMVISRMKMVFNHLF 700
SGM A+D V G L++KD +Q L +V NL R Q + R +++
Sbjct: 344 SGMNIVASDSVNGKMTLSLKDVPWDQALDLVMQARNLDMRQQGNIVNIAPRDELLAKDKA 403
Query: 701 CLQLEEDV 708
LQ E+D+
Sbjct: 404 FLQAEKDI 411
>pdb|4AR0|A Chain A, N0 Domain Of Neisseria Meningitidis Pilus Assembly Protein
Pilq
Length = 128
Score = 29.6 bits (65), Expect = 6.8, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 645 SGMTCPAADFVEGSFLLTVKDALSEQGLFIV----NLVSRSQATKDMVISRMKMVFNHLF 700
SGM A+D V G L++KD +Q L +V NL R Q + R +++
Sbjct: 54 SGMNIVASDSVNGKMTLSLKDVPWDQALDLVMQARNLDMRQQGNIVNIAPRDELLAKDKA 113
Query: 701 CLQLEEDV 708
LQ E+D+
Sbjct: 114 FLQAEKDI 121
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 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,480,546
Number of Sequences: 62578
Number of extensions: 801031
Number of successful extensions: 1754
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1748
Number of HSP's gapped (non-prelim): 18
length of query: 759
length of database: 14,973,337
effective HSP length: 106
effective length of query: 653
effective length of database: 8,340,069
effective search space: 5446065057
effective search space used: 5446065057
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: 55 (25.8 bits)