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= 018385
(357 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BP1|A Chain A, Crystal Structure Of Bpi, The Human Bactericidal
Permeability-Increasing Protein
Length = 456
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 81/321 (25%), Positives = 149/321 (46%), Gaps = 22/321 (6%)
Query: 5 LTLGLETQKGTLKLSLVDCGCYVKDISIKL-DGGASWLYQGMINAFEEQIVSAVENAITK 63
L LG G ++ C ++ + + + WL I F ++I SA+ N +
Sbjct: 117 LKLGSNPTSGKPTITCSSCSSHINSVHVHISKSKVGWL----IQLFHKKIESALRNKMNS 172
Query: 64 KLKEGI-----SKLDSLLQSLPKEIPVDDHASLNITFVDNPLLTSSSIEFDINGLFTARK 118
++ E + SKL Q+LP +D A +N V P T+ +++ + G F +
Sbjct: 173 QVCEKVTNSVSSKLQPYFQTLPVMTKIDSVAGINYGLVAPPATTAETLDVQMKGEFYSEN 232
Query: 119 KASIPNYYNSNLQPPV--FCSDQSKMLGISLDEAVLNSASALYYDAEFMQWTV--DKVPD 174
+ P + PPV F + +M+ + L + N+A +Y +A ++ T+ D +P
Sbjct: 233 HHNPPPF-----APPVMEFPAAHDRMVYLGLSDYFFNTAGLVYQEAGVLKMTLRDDMIPK 287
Query: 175 QS--LLNTAGWRFIIPQLYRKYPNDDMNLNISLSSPPVIRVAEDNIDATVHADL-IIDVL 231
+S L T + +P++ +K+PN + +++S S+PP + V + D+ VL
Sbjct: 288 ESKFRLTTKFFGTFLPEVAKKFPNMKIQIHVSASTPPHLSVQPTGLTFYPAVDVQAFAVL 347
Query: 232 ESGEVIPVACISLVIHGSCSVKILRNNLGGSVKLNGFTMSLTWSKIGKLRLYLIQPVVWA 291
+ + + I + GS V N L G +KL+ + L S IG + L+Q ++
Sbjct: 348 PNSALASLFLIGMHTTGSMEVSAESNRLVGELKLDRLLLELKHSNIGPFPVELLQDIMNY 407
Query: 292 VIQTVFVPYVNSHLGQGFPLP 312
++ + +P VN L +GFPLP
Sbjct: 408 IVPILVLPRVNEKLQKGFPLP 428
>pdb|1EWF|A Chain A, The 1.7 Angstrom Crystal Structure Of Bpi
Length = 456
Score = 98.2 bits (243), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 80/321 (24%), Positives = 149/321 (46%), Gaps = 22/321 (6%)
Query: 5 LTLGLETQKGTLKLSLVDCGCYVKDISIKLDGG-ASWLYQGMINAFEEQIVSAVENAITK 63
L LG G ++ C ++ + + + WL I F ++I SA+ N +
Sbjct: 117 LKLGSNPTSGKPTITCSSCSSHINSVHVHISKSKVGWL----IQLFHKKIESALRNKMNS 172
Query: 64 KLKEGI-----SKLDSLLQSLPKEIPVDDHASLNITFVDNPLLTSSSIEFDINGLFTARK 118
++ E + S+L Q+LP +D A +N V P T+ +++ + G F +
Sbjct: 173 QVCEKVTNSVSSELQPYFQTLPVMTKIDSVAGINYGLVAPPATTAETLDVQMKGEFYSEN 232
Query: 119 KASIPNYYNSNLQPPV--FCSDQSKMLGISLDEAVLNSASALYYDAEFMQWTV--DKVPD 174
+ P + PPV F + +M+ + L + N+A +Y +A ++ T+ D +P
Sbjct: 233 HHNPPPF-----APPVMEFPAAHDRMVYLGLSDYFFNTAGLVYQEAGVLKMTLRDDMIPK 287
Query: 175 QS--LLNTAGWRFIIPQLYRKYPNDDMNLNISLSSPPVIRVAEDNIDATVHADL-IIDVL 231
+S L T + +P++ +K+PN + +++S S+PP + V + D+ VL
Sbjct: 288 ESKFRLTTKFFGTFLPEVAKKFPNMKIQIHVSASTPPHLSVQPTGLTFYPAVDVQAFAVL 347
Query: 232 ESGEVIPVACISLVIHGSCSVKILRNNLGGSVKLNGFTMSLTWSKIGKLRLYLIQPVVWA 291
+ + + I + GS V N L G +KL+ + L S IG + L+Q ++
Sbjct: 348 PNSALASLFLIGMHTTGSMEVSAESNRLVGELKLDRLLLELKHSNIGPFPVELLQDIMNY 407
Query: 292 VIQTVFVPYVNSHLGQGFPLP 312
++ + +P VN L +GFPLP
Sbjct: 408 IVPILVLPRVNEKLQKGFPLP 428
>pdb|2J2M|A Chain A, Crystal Structure Analysis Of Catalase From
Exiguobacterium Oxidotolerans
pdb|2J2M|B Chain B, Crystal Structure Analysis Of Catalase From
Exiguobacterium Oxidotolerans
pdb|2J2M|C Chain C, Crystal Structure Analysis Of Catalase From
Exiguobacterium Oxidotolerans
pdb|2J2M|D Chain D, Crystal Structure Analysis Of Catalase From
Exiguobacterium Oxidotolerans
Length = 491
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 232 ESGEVIPV-ACISLVIHGSCSVKILRNNLGGSVKLNGFTMSLTWSKIG 278
E G +PV A S VIHG+ S + LR+ G SVK +T W +G
Sbjct: 83 EEGTEVPVFARFSTVIHGTHSPETLRDPRGFSVKF--YTEEGNWDFVG 128
>pdb|3H5Q|A Chain A, Crystal Structure Of A Putative Pyrimidine-Nucleoside
Phosphorylase From Staphylococcus Aureus
Length = 436
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 97 DNPLLTSSSIEFDINGLFTARKKASIPNYYNSNLQPPVFCSDQSKMLGISLDEAVLNSAS 156
D LT+ I F I G K IP+Y S+L ++ D + ++L A +NS
Sbjct: 15 DGHTLTTEEINFFIGGYV----KGDIPDYQASSLAXAIYFQDXNDDERVALTXAXVNSGD 70
Query: 157 AL 158
+
Sbjct: 71 XI 72
>pdb|2AYI|A Chain A, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|B Chain B, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|C Chain C, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|D Chain D, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|E Chain E, Wild-Type Ampt From Thermus Thermophilus
Length = 408
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 34 LDGGASWLYQGMINAFEEQIVSAVENAITKKLKEGI 69
LD +WLY+GM AF E + K EG+
Sbjct: 77 LDKAPAWLYEGMARAFREGAARLAVSGSDPKALEGL 112
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 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,314,739
Number of Sequences: 62578
Number of extensions: 408209
Number of successful extensions: 917
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 911
Number of HSP's gapped (non-prelim): 7
length of query: 357
length of database: 14,973,337
effective HSP length: 100
effective length of query: 257
effective length of database: 8,715,537
effective search space: 2239893009
effective search space used: 2239893009
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: 52 (24.6 bits)