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= 047253
(679 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ANV|A Chain A, Crystal Structure Of P22 Lysozyme Mutant L86m
pdb|2ANV|B Chain B, Crystal Structure Of P22 Lysozyme Mutant L86m
pdb|2ANX|A Chain A, Crystal Structure Of Bacteriophage P22 Lysozyme Mutant
L87m
pdb|2ANX|B Chain B, Crystal Structure Of Bacteriophage P22 Lysozyme Mutant
L87m
Length = 146
Score = 32.7 bits (73), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 301 NYGVPCFFGCTLLREENLRSFSWALKAFLAFMD-GKAPQTIL 341
N G F G T+LR+ NL+++ A AFL + GK P +L
Sbjct: 93 NIGKSAFAGSTVLRQLNLKNYQAAADAFLLWKKAGKDPDILL 134
>pdb|3MGH|A Chain A, Binary Complex Of A Dna Polymerase Lambda Loop Mutant
pdb|3MGH|C Chain C, Binary Complex Of A Dna Polymerase Lambda Loop Mutant
pdb|3MGI|A Chain A, Ternary Complex Of A Dna Polymerase Lambda Loop Mutant
pdb|3PML|A Chain A, Crystal Structure Of A Polymerase Lambda Variant With A
Dgtp Analog Opposite A Templating T
pdb|3PML|B Chain B, Crystal Structure Of A Polymerase Lambda Variant With A
Dgtp Analog Opposite A Templating T
pdb|3PMN|A Chain A, Ternary Crystal Structure Of Polymerase Lambda Variant
With A Gt Mispair At The Primer Terminus With Mn2+ In
The Active Site
pdb|3PNC|A Chain A, Ternary Crystal Structure Of A Polymerase Lambda Variant
With A Gt Mispair At The Primer Terminus And Sodium At
Catalytic Metal Site
pdb|3UPQ|A Chain A, Crystal Structure Of The Pre-Catalytic Ternary Complex Of
Polymerase Lambda With An Ratp Analog Opposite A
Templating T.
pdb|3UQ0|A Chain A, Crystal Structure Of The Post-Catalytic Product Complex Of
Polymerase Lambda With An Ramp At The Primer Terminus
Length = 329
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 8 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 64
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 65 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 100
>pdb|1RZT|A Chain A, Crystal Structure Of Dna Polymerase Lambda Complexed With
A Two Nucleotide Gap Dna Molecule
pdb|1RZT|E Chain E, Crystal Structure Of Dna Polymerase Lambda Complexed With
A Two Nucleotide Gap Dna Molecule
pdb|1RZT|I Chain I, Crystal Structure Of Dna Polymerase Lambda Complexed With
A Two Nucleotide Gap Dna Molecule
pdb|1RZT|M Chain M, Crystal Structure Of Dna Polymerase Lambda Complexed With
A Two Nucleotide Gap Dna Molecule
Length = 331
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 5 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 61
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 62 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 97
>pdb|3UQ2|A Chain A, Crystal Structure Of The Post-Catalytic Product Complex Of
Polymerase Lambda With An Rcmp Inserted Opposite A
Templating G And Damp Inserted Opposite A Templating T
At The Primer Terminus.
pdb|4FO6|A Chain A, Crystal Structure Of The Pre-Catalytic Ternary Complex Of
Polymerase Lambda With A Datp Analog Opposite A
Templating T And An Rcmp At The Primer Terminus
Length = 329
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 8 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 64
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 65 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 100
>pdb|1XSN|A Chain A, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With A One Nucleotide Dna Gap And Ddttp
pdb|1XSP|A Chain A, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With Nicked Dna And Pyrophosphate
pdb|2PFN|A Chain A, Na In The Active Site Of Dna Polymerase Lambda
pdb|2PFO|A Chain A, Dna Polymerase Lambda In Complex With Dna And Dupnpp
pdb|2PFP|A Chain A, Dna Polymerase Lambda In Complex With Dna And Dctp
pdb|2PFQ|A Chain A, Manganese Promotes Catalysis In A Dna Polymerase
Lambda-Dna Crystal
pdb|3HW8|A Chain A, Ternary Complex Of Dna Polymerase Lambda Of A Two
Nucleotide Gapped Dna Substrate With A C In The Scrunch
Site
pdb|3HWT|A Chain A, Ternary Complex Of Dna Polymerase Lambda Bound To A Two
Nucleotide Gapped Dna Substrate With A Scrunched Da
Length = 335
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 9 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 65
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 66 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 101
>pdb|3C5F|A Chain A, Structure Of A Binary Complex Of The R517a Pol Lambda
Mutant
pdb|3C5F|B Chain B, Structure Of A Binary Complex Of The R517a Pol Lambda
Mutant
Length = 335
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 9 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 65
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 66 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 101
>pdb|1XSL|A Chain A, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With A One Nucleotide Dna Gap
pdb|1XSL|E Chain E, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With A One Nucleotide Dna Gap
pdb|1XSL|I Chain I, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With A One Nucleotide Dna Gap
pdb|1XSL|M Chain M, Crystal Structure Of Human Dna Polymerase Lambda In
Complex With A One Nucleotide Dna Gap
pdb|2BCQ|A Chain A, Dna Polymerase Lambda In Complex With A Dna Duplex
Containing An Unpaired Dtmp
pdb|2BCR|A Chain A, Dna Polymerase Lambda In Complex With A Dna Duplex
Containing An Unpaired Damp
pdb|2BCS|A Chain A, Dna Polymerase Lambda In Complex With A Dna Duplex
Containing An Unpaired Dcmp
pdb|2BCU|A Chain A, Dna Polymerase Lambda In Complex With A Dna Duplex
Containing An Unpaired Damp And A T:t Mismatch
pdb|2BCV|A Chain A, Dna Polymerase Lambda In Complex With Dttp And A Dna
Duplex Containing An Unpaired Dtmp
pdb|2GWS|A Chain A, Crystal Structure Of Human Dna Polymerase Lambda With A GG
MISMATCH In The Primer Terminus
pdb|2GWS|E Chain E, Crystal Structure Of Human Dna Polymerase Lambda With A GG
MISMATCH In The Primer Terminus
pdb|2GWS|I Chain I, Crystal Structure Of Human Dna Polymerase Lambda With A GG
MISMATCH In The Primer Terminus
pdb|2GWS|M Chain M, Crystal Structure Of Human Dna Polymerase Lambda With A GG
MISMATCH In The Primer Terminus
Length = 335
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 9 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 65
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 66 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 101
>pdb|3C5G|A Chain A, Structure Of A Ternary Complex Of The R517k Pol Lambda
Mutant
pdb|3C5G|B Chain B, Structure Of A Ternary Complex Of The R517k Pol Lambda
Mutant
Length = 335
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 147 ANNHNHELLEPNQVRFLPAYRTISETDKSRILMFAKTGISVQQMMRLME--LEKCVEPGY 204
A NHN + E +V AY + DK R L +AK +++ + + E C PG
Sbjct: 9 ATNHNLHITEKLEV-LAKAYSV--QGDKWRALGYAKAINALKSFHKPVTSYQEACSIPGI 65
Query: 205 LPFTEKDVRNLLQS--IRKLDPEDESVDLLRMCRNI 238
+ + +L+S +RKLD ESV +L + NI
Sbjct: 66 GKRMAEKIIEILESGHLRKLDHISESVPVLELFSNI 101
>pdb|2BC0|A Chain A, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: Wild-Type Nox
pdb|2BC0|B Chain B, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: Wild-Type Nox
Length = 490
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 13/75 (17%)
Query: 274 FGDA---VVFDTTHRLTALDMPLGIWVGVNNYGVPCFF----------GCTLLREENLRS 320
+GDA VVFD ++ L + +W+G G F G + E ++S
Sbjct: 58 YGDANEIVVFDQNSNISFLGXGMALWIGEQIAGPEGLFYSDKEELESLGAKVYMESPVQS 117
Query: 321 FSWALKAFLAFMDGK 335
+ K A +DGK
Sbjct: 118 IDYDAKTVTALVDGK 132
>pdb|2JC6|A Chain A, Crystal Structure Of Human Calmodulin-Dependent Protein
Kinase 1d
pdb|2JC6|C Chain C, Crystal Structure Of Human Calmodulin-Dependent Protein
Kinase 1d
Length = 334
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 203 GYLPFTEKDVRNLLQSIRKLDPE-------DESVDLLRMCRNIKEKDPNFRY 247
GY PF +++ L + I K + E D S RN+ EKDPN RY
Sbjct: 218 GYPPFYDENDSKLFEQILKAEYEFDSPYWDDISDSAKDFIRNLMEKDPNKRY 269
>pdb|2BC1|A Chain A, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: C44s Nox
pdb|2BC1|B Chain B, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: C44s Nox
pdb|2BCP|A Chain A, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: C44s Nox With Azide
pdb|2BCP|B Chain B, Structural Analysis Of Streptococcus Pyogenes Nadh
Oxidase: C44s Nox With Azide
Length = 490
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 13/75 (17%)
Query: 274 FGDA---VVFDTTHRLTALDMPLGIWVGVNNYGVPCFF----------GCTLLREENLRS 320
+GDA VVFD ++ L + +W+G G F G + E ++S
Sbjct: 58 YGDANEIVVFDQNSNISFLGSGMALWIGEQIAGPEGLFYSDKEELESLGAKVYMESPVQS 117
Query: 321 FSWALKAFLAFMDGK 335
+ K A +DGK
Sbjct: 118 IDYDAKTVTALVDGK 132
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
0.321 0.134 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,672,146
Number of Sequences: 62578
Number of extensions: 790139
Number of successful extensions: 1467
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1467
Number of HSP's gapped (non-prelim): 11
length of query: 679
length of database: 14,973,337
effective HSP length: 105
effective length of query: 574
effective length of database: 8,402,647
effective search space: 4823119378
effective search space used: 4823119378
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: 55 (25.8 bits)