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= 039483
(360 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NOG|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOG|E Chain E, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
Length = 169
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 220 DQCWWTPIHYAAYHRNYLILKLILKIDRTAAKIADKDRKMTALHL 264
D WTP+H AAY + I++++LK A AD +T LHL
Sbjct: 44 DHVGWTPLHLAAYFGHLEIVEVLLK--NGADVNADDSLGVTPLHL 86
>pdb|2Y1L|E Chain E, Caspase-8 In Complex With Darpin-8.4
pdb|2Y1L|F Chain F, Caspase-8 In Complex With Darpin-8.4
Length = 169
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 18/25 (72%)
Query: 220 DQCWWTPIHYAAYHRNYLILKLILK 244
D WTP+H AA++ + I++++LK
Sbjct: 44 DASGWTPLHLAAFNGHLEIVEVLLK 68
>pdb|2BKK|B Chain B, Crystal Structure Of Aminoglycoside Phosphotransferase Aph
(3')-Iiia In Complex With The Inhibitor Ar_3a
pdb|2BKK|D Chain D, Crystal Structure Of Aminoglycoside Phosphotransferase Aph
(3')-Iiia In Complex With The Inhibitor Ar_3a
Length = 169
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 220 DQCWWTPIHYAAYHRNYLILKLILK 244
D+ WTP+H AAY + I++++LK
Sbjct: 77 DKSGWTPLHLAAYRGHLEIVEVLLK 101
>pdb|3NOC|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOC|E Chain E, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
Length = 169
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 220 DQCWWTPIHYAAYHRNYLILKLILKIDRTAAKIADKDR-KMTALHL 264
D WTP+H AA+ + I++++LK A + KD +T LHL
Sbjct: 44 DFTGWTPLHLAAHFGHLEIVEVLLK---NGADVNAKDSLGVTPLHL 86
>pdb|1JT2|A Chain A, Structural Basis For The Substrate Specificity Of The
Ferul Domain Of The Cellulosomal Xylanase Z From C.
Thermocellum
Length = 268
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 9/42 (21%)
Query: 255 KDRKMTALHLVHGPKGCQN---------NMLASSLMDEGDAK 287
KD+K + L+L+HG G +N N++A +L+ EG K
Sbjct: 58 KDKKYSVLYLLHGIGGSENDWFEGGGRANVIADNLIAEGKIK 99
>pdb|1JJF|A Chain A, Structural Basis For The Substrate Specificity Of The
Feruloyl Esterase Domain Of The Cellulosomal Xylanase Z
Of Clostridium Thermocellum
Length = 268
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 9/42 (21%)
Query: 255 KDRKMTALHLVHGPKGCQN---------NMLASSLMDEGDAK 287
KD+K + L+L+HG G +N N++A +L+ EG K
Sbjct: 58 KDKKYSVLYLLHGIGGSENDWFEGGGRANVIADNLIAEGKIK 99
>pdb|1N11|A Chain A, D34 Region Of Human Ankyrin-R And Linker
Length = 437
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 52/222 (23%), Positives = 87/222 (39%), Gaps = 49/222 (22%)
Query: 79 AKGDTRSRHVAAKFDHCDIVSVLIERAKLVQHEDEELESGVGASRQMIRMTNKEKHTTLH 138
AK D H AA+ H ++V +L+E + + L + G HT LH
Sbjct: 77 AKDDQTPLHCAARIGHTNMVKLLLEN-----NANPNLATTAG-------------HTPLH 118
Query: 139 EAYNKIPLCMAAEYEHSSHTVVAILKSCTSVSHIYMKAPMERQALHAATMHIDLCKFNHT 198
+AA H TV+A+L+ S +A M ++ +H+ K+
Sbjct: 119 ---------IAAREGHVE-TVLALLEKEAS------QACMTKKGF--TPLHVA-AKYG-- 157
Query: 199 LSNDCAVQQLFEGKKSMIKGIDQCWWTPIHYAAYHRNYLILKLILKIDRTAAKIADKDRK 258
V +L + + + TP+H A +H N I+KL+L R + +
Sbjct: 158 ---KVRVAELLLERDAHPNAAGKNGLTPLHVAVHHNNLDIVKLLLP--RGGSPHSPAWNG 212
Query: 259 MTALHLVHGPKGCQNNM-LASSLMDEGDAKGNTTVHFFAAVH 299
T LH+ QN + +A SL+ G + +V +H
Sbjct: 213 YTPLHIA----AKQNQVEVARSLLQYGGSANAESVQGVTPLH 250
>pdb|2J8S|D Chain D, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|2J8S|E Chain E, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|4DX5|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX5|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
Length = 169
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 216 IKGIDQCWWTPIHYAAYHRNYLILKLILK 244
+ D WTP+H AAY + I++++LK
Sbjct: 40 VNAADVVGWTPLHLAAYWGHLEIVEVLLK 68
>pdb|4HB5|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267.
pdb|4HB5|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267
Length = 169
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 42/97 (43%), Gaps = 23/97 (23%)
Query: 220 DQCWWTPIHYAAYHRNYLILKLILKIDRTAAKIADKDRK----MTALHLVHGPKGCQNN- 274
D TP+HYAA + + I+KL+L +K AD + K T LH +N
Sbjct: 34 DSDGRTPLHYAAENGHKEIVKLLL------SKGADPNAKDSDGRTPLHYA-----AENGH 82
Query: 275 -----MLASSLMDEG--DAKGNTTVHFFAAVHRKEIF 304
+L S D D+ G T +H+ A KEI
Sbjct: 83 KEIVKLLLSKGADPNAKDSDGRTPLHYAAENGHKEIV 119
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
0.320 0.130 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,321,601
Number of Sequences: 62578
Number of extensions: 346033
Number of successful extensions: 782
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 759
Number of HSP's gapped (non-prelim): 33
length of query: 360
length of database: 14,973,337
effective HSP length: 100
effective length of query: 260
effective length of database: 8,715,537
effective search space: 2266039620
effective search space used: 2266039620
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: 52 (24.6 bits)