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= 005969
(667 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PLU|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi With 1 Lu+3 Ion
In The Putative Calcium Binding Site
pdb|1O88|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
30mm Ca2+
pdb|1O8D|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
5mm Ca2+
pdb|1O8E|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
1mm Ca2+
pdb|1O8F|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
30mm Ca2+
pdb|1O8G|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
5mm Ca2+
pdb|1O8H|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
0.3mm Ca2+ Added
pdb|1O8I|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
No Ca2+ Added
pdb|1O8J|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
30mm Ca2+
pdb|1O8K|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
20mm Ca2+
pdb|1O8L|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
5mm Ca2+
pdb|1O8M|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
No Ca2+ Added
pdb|1AIR|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi (Ec16) To A
Resolution Of 2.2 Angstroms With 128 Waters
pdb|2PEC|A Chain A, The Refined Three-Dimensional Structure Of Pectate Lyase C
From Erwinia Chrysanthemi At 2.2 Angstroms Resolution:
Implications For An Enzymatic Mechanism
Length = 353
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 13/84 (15%)
Query: 164 HGLVIKNGFDYELLVA-----NSLVNMYF-QCAGIWSAEKMFKDVEIRDVVSWNTIIGAL 217
+G +K G Y L++ +SL+N G WS + + VEI++ TIIGA
Sbjct: 41 NGKKVKGGA-YPLVITYTGNEDSLINAAAANICGQWSKDP--RGVEIKEFTKGITIIGAN 97
Query: 218 AESENFGKALELYLRMSVDIVFPN 241
S NFG ++++ S D+V N
Sbjct: 98 GSSANFG----IWIKKSSDVVVQN 117
>pdb|2EWE|A Chain A, Crystal Structure Of Pectate Lyase C R218k Mutant In
Complex With Pentagalacturonic Acid
Length = 353
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 13/84 (15%)
Query: 164 HGLVIKNGFDYELLVA-----NSLVNMYF-QCAGIWSAEKMFKDVEIRDVVSWNTIIGAL 217
+G +K G Y L++ +SL+N G WS + + VEI++ TIIGA
Sbjct: 41 NGKKVKGGA-YPLVITYTGNEDSLINAAAANICGQWSKDP--RGVEIKEFTKGITIIGAN 97
Query: 218 AESENFGKALELYLRMSVDIVFPN 241
S NFG ++++ S D+V N
Sbjct: 98 GSSANFG----IWIKKSSDVVVQN 117
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
0.324 0.139 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,048,299
Number of Sequences: 62578
Number of extensions: 763729
Number of successful extensions: 1989
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1987
Number of HSP's gapped (non-prelim): 7
length of query: 667
length of database: 14,973,337
effective HSP length: 105
effective length of query: 562
effective length of database: 8,402,647
effective search space: 4722287614
effective search space used: 4722287614
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)