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= 008796
(553 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HRX|A Chain A, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
pdb|3HRX|B Chain B, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
pdb|3HRX|C Chain C, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
pdb|3HRX|D Chain D, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
pdb|3HRX|E Chain E, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
pdb|3HRX|F Chain F, Crystal Structure Of Phenylacetic Acid Degradation Protein
Paag
Length = 254
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 397 NLQLVSQYLTILGNLALAL-HDTVQAREILRSSLTLAKKLYDIPTQIWALS 446
L L+S L+ LAL L H V A +++ +L+LAK+L PT+ +AL+
Sbjct: 154 ELLLLSPRLSAEEALALGLVHRVVPAEKLMEEALSLAKELAQGPTRAYALT 204
>pdb|2QV6|A Chain A, Gtp Cyclohydrolase Iii From M. Jannaschii (Mj0145)
Complexed With Gtp And Metal Ions
pdb|2QV6|B Chain B, Gtp Cyclohydrolase Iii From M. Jannaschii (Mj0145)
Complexed With Gtp And Metal Ions
pdb|2QV6|C Chain C, Gtp Cyclohydrolase Iii From M. Jannaschii (Mj0145)
Complexed With Gtp And Metal Ions
pdb|2QV6|D Chain D, Gtp Cyclohydrolase Iii From M. Jannaschii (Mj0145)
Complexed With Gtp And Metal Ions
Length = 268
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 48/122 (39%), Gaps = 8/122 (6%)
Query: 373 RQQDFQEARNRLAKGLQI---AHNHMGNLQLVSQYLTILGNLALALHDTVQAREILRSSL 429
R+ D Q ++RL L + AH + + I + L H +Q R
Sbjct: 23 RESDLQALQSRLYADLNLMFGAHKGLVFYTRFDNLIAITNGIDLITHKRIQESIRNRYPF 82
Query: 430 TLAKKLYDIPTQIWALSVLTALYQQLGDRGNEMENDEYRRKKLDELQKRLADAYSSIHHI 489
T++ + T A + T Q+ G DE R++ LD + + D Y I HI
Sbjct: 83 TVSMVIASAETPYEAQKLATETLQEYGS-----AQDENRKEVLDVANELVVDGYVQIAHI 137
Query: 490 EL 491
++
Sbjct: 138 DI 139
>pdb|1SRA|A Chain A, Structure Of A Novel Extracellular Ca2+-Binding Module In
Bm-40(Slash)sparc(Slash)osteonectin
Length = 151
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 431 LAKKLYDIPTQI--WALSVLTALYQQLGDRGNEMENDEYRRKKLDELQKRLADAYSSIHH 488
L +L + P ++ W +VL LY++ D E + R KK+ E +KRL + H
Sbjct: 4 LDSELTEFPLRMRDWLKNVLVTLYERDEDNNLLTEKQKLRVKKIHENEKRLE---AGDHP 60
Query: 489 IELISK 494
+EL+++
Sbjct: 61 VELLAR 66
>pdb|3MP4|A Chain A, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|B Chain B, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|C Chain C, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|D Chain D, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|E Chain E, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|F Chain F, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP5|A Chain A, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|B Chain B, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|C Chain C, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|D Chain D, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|E Chain E, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|F Chain F, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
Length = 298
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 39/177 (22%), Positives = 65/177 (36%), Gaps = 37/177 (20%)
Query: 269 FIRFPTILQACESMIEMLRGQYAHSVGCYSEAAFHYVEAAKITESKSMQAMCHAYAAVSY 328
F RF IL+A +S +RG + ++GC E + A++T+ +
Sbjct: 120 FQRFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTK--------------KF 165
Query: 329 FCIGDAESSSQAIDLIGPVYQMKDTINGVREEASL-------HFAYGLLLMRQQDFQEAR 381
+ +G E S +G MKD ++ V +E L H YG Q
Sbjct: 166 YSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYG------QALANTL 219
Query: 382 NRLAKGLQIAHNHMGNLQLVSQYLTILGNLA----------LALHDTVQAREILRSS 428
L G+ + + + L GNLA L +H V +++L +
Sbjct: 220 MALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAG 276
>pdb|2CW6|A Chain A, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|B Chain B, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|C Chain C, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|D Chain D, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|E Chain E, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|F Chain F, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|3MP3|A Chain A, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|B Chain B, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|C Chain C, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|D Chain D, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|E Chain E, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|F Chain F, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
Length = 298
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 39/177 (22%), Positives = 65/177 (36%), Gaps = 37/177 (20%)
Query: 269 FIRFPTILQACESMIEMLRGQYAHSVGCYSEAAFHYVEAAKITESKSMQAMCHAYAAVSY 328
F RF IL+A +S +RG + ++GC E + A++T+ +
Sbjct: 120 FQRFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTK--------------KF 165
Query: 329 FCIGDAESSSQAIDLIGPVYQMKDTINGVREEASL-------HFAYGLLLMRQQDFQEAR 381
+ +G E S +G MKD ++ V +E L H YG Q
Sbjct: 166 YSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYG------QALANTL 219
Query: 382 NRLAKGLQIAHNHMGNLQLVSQYLTILGNLA----------LALHDTVQAREILRSS 428
L G+ + + + L GNLA L +H V +++L +
Sbjct: 220 MALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAG 276
>pdb|4ATM|A Chain A, Crystal Structure Of The Bar Domain Of Human Amphiphysin,
Isoform 1 At 1.8 Angstrom Resolution Featuring Increased
Order At The N-Terminus
Length = 243
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 28/117 (23%), Positives = 51/117 (43%), Gaps = 13/117 (11%)
Query: 5 TAILH-VHLMQWDDENSVLRSINQCDRVWESIDPNRRGQCLGLL--FYNELLHIFYRL-- 59
T LH V+ W V +CD +WE + L L + + I R+
Sbjct: 79 TESLHEVYEPDWYGREDVKMVGEKCDVLWEDFHQKLVDESLLTLDTYLGQFPDIKNRIAK 138
Query: 60 ---RICDYKNAAHHVDNLDAAMKADKQKM----QEIQQLSSELDALNQSLSRPDLPS 109
++ DY +A HH++ L ++ + D+ ++ +E Q+ + N L + +LPS
Sbjct: 139 RSRKLVDYDSARHHLEALQSSKRKDESRISKAEEEFQKAQKVFEEFNVDL-QEELPS 194
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 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,507,730
Number of Sequences: 62578
Number of extensions: 538177
Number of successful extensions: 1355
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1354
Number of HSP's gapped (non-prelim): 12
length of query: 553
length of database: 14,973,337
effective HSP length: 104
effective length of query: 449
effective length of database: 8,465,225
effective search space: 3800886025
effective search space used: 3800886025
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)