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= 034748
(85 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LOM|A Chain A, Backbone Structure Of Human Membrane Protein Higd1a
Length = 93
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 18 KKRVRNPLVPIGALMTAGVLTAGLISFR-QGNSHLGQLLMRARVVVQGATVGLM-VGTAY 75
+K P VP+G A ++ GL + +GN+ + L+ RV QG VG M VG Y
Sbjct: 22 RKAKEAPFVPVGIAGFAAIVAYGLYKLKSRGNTKMSIHLIHMRVAAQGFVVGAMTVGMGY 81
>pdb|1KFV|A Chain A, Crystal Structure Of Lactococcus Lactis
Formamido-Pyrimidine Dna Glycosylase (Alias Fpg Or Mutm)
Non Covalently Bound To An Ap Site Containing Dna.
pdb|1KFV|B Chain B, Crystal Structure Of Lactococcus Lactis
Formamido-Pyrimidine Dna Glycosylase (Alias Fpg Or Mutm)
Non Covalently Bound To An Ap Site Containing Dna
Length = 271
Score = 29.6 bits (65), Expect = 0.48, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 3 KIGTVEPTLEDFSEK--KKRVRNPLVPIGALMTAGVLTAGLISFRQGNSHLGQLLMRARV 60
KIG EPT EDF EK ++++R I + L AGL GN ++ ++L A++
Sbjct: 130 KIGP-EPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGL-----GNIYVDEVLWLAKI 183
Query: 61 VVQGATVGLMVGTAYYYGDT 80
+ T L+ + + D+
Sbjct: 184 HPEKETNQLIESSIHLLHDS 203
>pdb|1PJI|A Chain A, Crystal Structure Of Wild Type Lactococcus Lactis Fpg
Complexed To A 1,3 Propanediol Containing Dna
pdb|1PM5|A Chain A, Crystal Structure Of Wild Type Lactococcus Lactis Fpg
Complexed To A Tetrahydrofuran Containing Dna
pdb|1XC8|A Chain A, Crystal Structure Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And A Fapy-Dg Containing
Dna
pdb|3C58|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And A N7-Benzyl-Fapy-Dg
Containing Dna
pdb|2XZF|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And An Oxidized Pyrimidine
Containing Dna At 293k
pdb|2XZU|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And An Oxidized Pyrimidine
Containing Dna At 310k
Length = 271
Score = 29.3 bits (64), Expect = 0.53, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 3 KIGTVEPTLEDFSEK--KKRVRNPLVPIGALMTAGVLTAGLISFRQGNSHLGQLLMRARV 60
KIG EPT EDF EK ++++R I + L AGL GN ++ ++L A++
Sbjct: 130 KIGP-EPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGL-----GNIYVDEVLWLAKI 183
Query: 61 VVQGATVGLMVGTAYYYGDT 80
+ T L+ + + D+
Sbjct: 184 HPEKETNQLIESSIHLLHDS 203
>pdb|1TDZ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis
Fpg (Mutm) And A Fapy-Dg Containing Dna
Length = 272
Score = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 3 KIGTVEPTLEDFSEK--KKRVRNPLVPIGALMTAGVLTAGLISFRQGNSHLGQLLMRARV 60
KIG EPT EDF EK ++++R I + L AGL GN ++ ++L A++
Sbjct: 131 KIGP-EPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGL-----GNIYVDEVLWLAKI 184
Query: 61 VVQGATVGLMVGTAYYYGDT 80
+ T L+ + + D+
Sbjct: 185 HPEKETNQLIESSIHLLHDS 204
>pdb|1NNJ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis
Fpg And An Abasic Site Containing Dna
pdb|1PJJ|A Chain A, Complex Between The Lactococcus Lactis Fpg And An Abasic
Site Containing Dna
Length = 271
Score = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 3 KIGTVEPTLEDFSEK--KKRVRNPLVPIGALMTAGVLTAGLISFRQGNSHLGQLLMRARV 60
KIG EPT EDF EK ++++R I + L AGL GN ++ ++L A++
Sbjct: 130 KIGP-EPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGL-----GNIYVDEVLWLAKI 183
Query: 61 VVQGATVGLMVGTAYYYGDT 80
+ T L+ + + D+
Sbjct: 184 HPEKETNQLIESSIHLLHDS 203
>pdb|3VN3|A Chain A, Fungal Antifreeze Protein Exerts Hyperactivity By
Constructing An Inequable Beta-Helix
pdb|3VN3|B Chain B, Fungal Antifreeze Protein Exerts Hyperactivity By
Constructing An Inequable Beta-Helix
Length = 223
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 26 VPIGALMTAGVLTAGLISFRQGNSHLGQLLMRARVVVQGATV 67
+ +GA +L ++F+ G+S G++L + V +Q AT+
Sbjct: 179 IEVGAKFEGTILAKTAVTFKTGSSLNGRILAQTSVALQSATI 220
>pdb|2PBY|A Chain A, Probable Glutaminase From Geobacillus Kaustophilus Hta426
pdb|2PBY|B Chain B, Probable Glutaminase From Geobacillus Kaustophilus Hta426
pdb|2PBY|C Chain C, Probable Glutaminase From Geobacillus Kaustophilus Hta426
pdb|2PBY|D Chain D, Probable Glutaminase From Geobacillus Kaustophilus Hta426
Length = 308
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 3 KIGTVEPT------LEDFSEKKKRVRNPLVPIGALMTAGVLTAGLISFR 45
K+G +EPT + EK + NP++ GAL+ ++ G +S R
Sbjct: 87 KVG-MEPTDYPFHSIAKLEEKPAKPLNPMINAGALVVTSMIQGGSVSER 134
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 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,459,206
Number of Sequences: 62578
Number of extensions: 76021
Number of successful extensions: 166
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 165
Number of HSP's gapped (non-prelim): 7
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
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)