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= 042098
(566 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B5X|A Chain A, Crystal Structure Of Msba From Vibrio Cholerae
pdb|3B5X|B Chain B, Crystal Structure Of Msba From Vibrio Cholerae
Length = 582
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 425 HAGLVDEGRRLF-DLMSSSFGLIPKSEHYSCMVDLYARAGHLSEAWDFVERMPEKVDEIV 483
H LV + LF D ++++ + E+ ++ AR H A +F+E MP+ +D ++
Sbjct: 418 HFALVSQNVHLFNDTIANNIAYAAEGEYTREQIEQAARQAH---AMEFIENMPQGLDTVI 474
Query: 484 --LGALLGACQKQK 495
G L Q+Q+
Sbjct: 475 GENGTSLSGGQRQR 488
>pdb|1N7Q|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase W291aW292A
DOUBLE MUTANT Complex With Hyaluronan Hexasacchride
Length = 721
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|1N7R|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase
W291a/w292a/f343v Mutant Complex With Hexasaccharide
Hyaluronan
Length = 721
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|1N7P|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase W292aF343V
Double Mutant
Length = 721
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|1N7N|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase W292a Mutant
Length = 721
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|1OJN|A Chain A, Specificity And Mechanism Of Streptococcus Pneumoniae
Hyaluronate Lyase: Complex Of The Tyr408phe Mutant With
6-sulphated Chondroitin Disaccharide
Length = 731
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 325 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 377
>pdb|1OJM|A Chain A, Specificity And Mechanism Of Streptococcus Pneumoniae
Hyaluronate Lyase: Complex With Unsulphated Chondroitin
Disaccharide
Length = 729
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|3HHD|A Chain A, Structure Of The Human Fatty Acid Synthase Ks-Mat Didomain
As A Framework For Inhibitor Design.
pdb|3HHD|B Chain B, Structure Of The Human Fatty Acid Synthase Ks-Mat Didomain
As A Framework For Inhibitor Design.
pdb|3HHD|C Chain C, Structure Of The Human Fatty Acid Synthase Ks-Mat Didomain
As A Framework For Inhibitor Design.
pdb|3HHD|D Chain D, Structure Of The Human Fatty Acid Synthase Ks-Mat Didomain
As A Framework For Inhibitor Design
Length = 965
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 13/84 (15%)
Query: 458 LYARAGHLSEAWDF--------VERMPEKVDEIVLGALLGACQKQKNTDVSQRVMQLLLE 509
L+ G+LS W VE++P +++VL K + R+++
Sbjct: 887 LFPATGYLSIVWKTLARALGLGVEQLPVVFEDVVLHQAT-ILPKTGTVSLEVRLLEASRA 945
Query: 510 IESSNSGNYVISSKIFANLKMWDD 533
E S +GN V+S K++ WDD
Sbjct: 946 FEVSENGNLVVSGKVY----QWDD 965
>pdb|1OJO|A Chain A, Specificity And Mechanism Of Streptococcus Pneumoniae
Hyaluronate Lyase: Complex Of The Tyr408phe Mutant With
4-sulphated Chondroitin Disaccharide
Length = 731
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 325 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 377
>pdb|1LOH|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase In Complex With
Hexasaccharide Hyaluronan Substrate
pdb|1LXK|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase In Complex With
Tetrasaccharide Hyaluronan Substrate
Length = 721
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
>pdb|1EGU|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase At 1.56 A Resolution
pdb|1F9G|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase Cocrystallized With Ascorbic Acid
pdb|1C82|A Chain A, Mechanism Of Hyaluronan Binding And Degradation: Structure
Of Streptococcus Pneumoniae Hyaluronate Lyase In Complex
With Hyaluronic Acid Disaccharide At 1.7 A Resolution
pdb|1OJP|A Chain A, Specificity And Mechanism Of Streptococcus Pneumoniae
Hyaluronate Lyase: Complex With 6-sulphated Chondroitin
Disaccharide
pdb|1W3Y|A Chain A, Crystal Structure Of S. Pneumoniae Hyaluronate Lyase In
Complex With Palmitoyl-Vitamin C
pdb|2BRP|A Chain A, Crystal Structure Of S.Pneumoniae Hyaluronate Lyase In
Complex With W249b
pdb|2BRV|X Chain X, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase From 70percent Saturated Malonate.
pdb|2BRW|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase From 30percent Pegmme.
pdb|2BRW|B Chain B, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase From 30percent Pegmme
Length = 731
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 325 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 377
>pdb|1N7O|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase F343v Mutant
Length = 721
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 498 DVSQRVMQLLLEIESSNSGNYVISSKIFANLKMWDDSAKMRALMREKGVSKTPGCSWI 555
+ QR+ L+ I S+S +F NLK + D + M++L+ + GV+ P S++
Sbjct: 323 ETKQRLQSLVKTIVQSDS-----YYDVFKNLKTYKDISLMQSLLSDAGVASVPRTSYL 375
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
0.322 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,276,142
Number of Sequences: 62578
Number of extensions: 651362
Number of successful extensions: 1523
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1523
Number of HSP's gapped (non-prelim): 13
length of query: 566
length of database: 14,973,337
effective HSP length: 104
effective length of query: 462
effective length of database: 8,465,225
effective search space: 3910933950
effective search space used: 3910933950
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)