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= psy3486
(222 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|Q Chain Q, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 76 LIKLIKPYTRIHIPFISRQLNIETSDVESLLVSLILDNTVRGRIDQSN 123
L K+I+P+ + I IS+ + ++T VE L +ILD G +DQ N
Sbjct: 347 LCKIIEPFECVEISHISKIIGLDTQQVEGKLSQMILDKIFYGVLDQGN 394
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 1 MDDPFIREHIEDLLRNIRTQVLIKLIKPYTRIHIPFISRQLNIETSDVLIKL 52
M D R H L + L K+I+P+ + I IS+ + ++T V KL
Sbjct: 326 MGDELTRSHFNALYDTLLESNLCKIIEPFECVEISHISKIIGLDTQQVEGKL 377
>pdb|3TXM|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Gd(3+) Complex
pdb|3TXN|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Native Data
Length = 394
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 76 LIKLIKPYTRIHIPFISRQLNIETSDVESLLVSLILDNTVRGRIDQSN 123
L ++I+PY+R+ + ++ + + VE L +ILD G +DQ
Sbjct: 307 LCRIIEPYSRVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGE 354
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 27/51 (52%)
Query: 2 DDPFIREHIEDLLRNIRTQVLIKLIKPYTRIHIPFISRQLNIETSDVLIKL 52
+D ++ H+ L + Q L ++I+PY+R+ + ++ + + V KL
Sbjct: 287 EDVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQVAHVAESIQLPMPQVEKKL 337
>pdb|4IIW|A Chain A, 2.6 Angstrom Crystal Structure Of Putative Yceg-like
Protein Lmo1499 From Listeria Monocytogenes
pdb|4IIW|B Chain B, 2.6 Angstrom Crystal Structure Of Putative Yceg-like
Protein Lmo1499 From Listeria Monocytogenes
Length = 349
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 177 ALKDAKNDRLWFKTNTKLGKLYFDR--EDFNKL 207
AL K+D L+F NTK GK+YF + E+ NKL
Sbjct: 308 ALYPEKSDYLYFLANTKTGKVYFSKTLEEHNKL 340
>pdb|4FA8|E Chain E, Multi-Pronged Modulation Of Cytokine Signaling
pdb|4FA8|F Chain F, Multi-Pronged Modulation Of Cytokine Signaling
pdb|4FA8|G Chain G, Multi-Pronged Modulation Of Cytokine Signaling
Length = 147
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 14/79 (17%)
Query: 105 LLVSLILDNTVRGRIDQSNYKEMMSRYKQLLLYIKSAVTRNYSEKSINSILDYISTSKNM 164
LLV I+++T+R R + N ++ + ++L L +KS T++Y E +
Sbjct: 54 LLVQDIMEDTMRFRDNTPNAIAIV-QLQELSLRLKSCFTKDYEEH-------------DK 99
Query: 165 ELLQDFYETTLEALKDAKN 183
++ FYET L+ L+ KN
Sbjct: 100 ACVRTFYETPLQLLEKVKN 118
>pdb|1HMC|A Chain A, Three-Dimensional Structure Of Dimeric Human Recombinant
Macrophage Colony Stimulating Factor
pdb|1HMC|B Chain B, Three-Dimensional Structure Of Dimeric Human Recombinant
Macrophage Colony Stimulating Factor
Length = 148
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 14/79 (17%)
Query: 105 LLVSLILDNTVRGRIDQSNYKEMMSRYKQLLLYIKSAVTRNYSEKSINSILDYISTSKNM 164
LLV I+++T+R R + N ++ + ++L L +KS T++Y E +
Sbjct: 52 LLVQDIMEDTMRFRDNTPNAIAIV-QLQELSLRLKSCFTKDYEEH-------------DK 97
Query: 165 ELLQDFYETTLEALKDAKN 183
++ FYET L+ L+ KN
Sbjct: 98 ACVRTFYETPLQLLEKVKN 116
>pdb|3UEZ|E Chain E, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|3UEZ|F Chain F, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|3UEZ|G Chain G, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|3UEZ|H Chain H, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|3UF2|A Chain A, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|B Chain B, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|C Chain C, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|D Chain D, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|E Chain E, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|F Chain F, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|G Chain G, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|H Chain H, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|I Chain I, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|3UF2|J Chain J, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine
pdb|4ADF|G Chain G, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|H Chain H, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|I Chain I, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|J Chain J, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|K Chain K, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|L Chain L, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|S Chain S, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|T Chain T, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|U Chain U, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|V Chain V, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|W Chain W, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
pdb|4ADF|X Chain X, Crystal Structure Of The Human Colony-Stimulating Factor 1
(Hcsf-1) Cytokine In Complex With The Viral Receptor
Barf1
Length = 153
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 14/79 (17%)
Query: 105 LLVSLILDNTVRGRIDQSNYKEMMSRYKQLLLYIKSAVTRNYSEKSINSILDYISTSKNM 164
LLV I+++T+R R + N ++ + ++L L +KS T++Y E +
Sbjct: 59 LLVQDIMEDTMRFRDNTPNAIAIV-QLQELSLRLKSCFTKDYEEH-------------DK 104
Query: 165 ELLQDFYETTLEALKDAKN 183
++ FYET L+ L+ KN
Sbjct: 105 ACVRTFYETPLQLLEKVKN 123
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
0.323 0.138 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,635,159
Number of Sequences: 62578
Number of extensions: 202322
Number of successful extensions: 607
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 595
Number of HSP's gapped (non-prelim): 23
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
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: 49 (23.5 bits)