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= psy15047
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
Rich Element By The Tandem Zinc Finger Domain Of Tis11d
Length = 70
Score = 92.0 bits (227), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/63 (61%), Positives = 52/63 (82%)
Query: 59 FKTELCRLHDETGVCKFGTGCKFAHGAHELRVIPRHPRYRTKLCQSYHQDGFCPYGQRCY 118
+KTELCR +E+G CK+G C+FAHG HELR + RHP+Y+T+LC+++H GFCPYG RC+
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHGFHELRSLTRHPKYKTELCRTFHTIGFCPYGPRCH 63
Query: 119 FIH 121
FIH
Sbjct: 64 FIH 66
Score = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 96 RYRTKLCQSYHQDGFCPYGQRCYFIH 121
RY+T+LC+ + + G C YG++C F H
Sbjct: 3 RYKTELCRPFEESGTCKYGEKCQFAH 28
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 39 TDTWNANGRYSHFYHSRENL-----FKTELCRLHDETGVCKFGTGCKFAHGAHE 87
T + +++H +H +L +KTELCR G C +G C F H A E
Sbjct: 17 TCKYGEKCQFAHGFHELRSLTRHPKYKTELCRTFHTIGFCPYGPRCHFIHNADE 70
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 35/63 (55%), Positives = 46/63 (73%)
Query: 59 FKTELCRLHDETGVCKFGTGCKFAHGAHELRVIPRHPRYRTKLCQSYHQDGFCPYGQRCY 118
+KTELCR + E+G C++G C+FAHG ELR RHP+Y+T+LC + G CPYG RC+
Sbjct: 10 YKTELCRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKLQGRCPYGSRCH 69
Query: 119 FIH 121
FIH
Sbjct: 70 FIH 72
Score = 33.9 bits (76), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 96 RYRTKLCQSYHQDGFCPYGQRCYFIH 121
RY+T+LC++Y + G C YG +C F H
Sbjct: 9 RYKTELCRTYSESGRCRYGAKCQFAH 34
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 13/72 (18%)
Query: 29 ATEERYSSKPTDTWNANGR-----YSHFYHSRENL--------FKTELCRLHDETGVCKF 75
T RY ++ T++ +GR F H L +KTELC G C +
Sbjct: 5 TTSSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKLQGRCPY 64
Query: 76 GTGCKFAHGAHE 87
G+ C F H E
Sbjct: 65 GSRCHFIHNPTE 76
>pdb|3IF9|A Chain A, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|B Chain B, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|C Chain C, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|D Chain D, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
Length = 382
Score = 30.0 bits (66), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 5 KYYHTHYPWDHNEKMDKHWASLRPATEE 32
K T P N K+D+ WA LRP T++
Sbjct: 293 KKAKTMLPAIQNMKVDRFWAGLRPGTKD 320
>pdb|1RYI|A Chain A, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|B Chain B, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|C Chain C, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|D Chain D, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
Length = 382
Score = 29.6 bits (65), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 5 KYYHTHYPWDHNEKMDKHWASLRPATEE 32
K T P N K+D+ WA LRP T++
Sbjct: 293 KKAKTMLPAIQNMKVDRFWAGLRPGTKD 320
>pdb|1NG3|A Chain A, Complex Of Thio (Glycine Oxidase) With Acetyl-Glycine
pdb|1NG3|B Chain B, Complex Of Thio (Glycine Oxidase) With Acetyl-Glycine
pdb|1NG4|A Chain A, Structure Of Thio (Glycine Oxidase) From Bacillus Subtilis
pdb|1NG4|B Chain B, Structure Of Thio (Glycine Oxidase) From Bacillus Subtilis
Length = 390
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 5 KYYHTHYPWDHNEKMDKHWASLRPATEE 32
K T P N K+D+ WA LRP T++
Sbjct: 301 KKAKTMLPPIQNMKVDRFWAGLRPGTKD 328
>pdb|3MKR|B Chain B, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 320
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 36 SKPTDTWNANGRYSHFYHSRENLFKTELCRLHDETGVCKFG 76
+ PT W N + H F+T + LHD+ GV +FG
Sbjct: 10 TSPTQIWCNNSQLP-VDHILAGSFETAMRLLHDQVGVTQFG 49
>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
Protein
Length = 98
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 24/63 (38%), Gaps = 15/63 (23%)
Query: 60 KTELCRLHDETGVCKFGTGCKFAHGAHELRVIPRHPRYRTKLCQSYHQDGFCPYGQRCYF 119
K ELC+ + TG C C + HG C+ YH G C G C F
Sbjct: 12 KRELCKFYI-TGFCARAENCPYMHGDFP--------------CKLYHTTGNCINGDDCMF 56
Query: 120 IHE 122
H+
Sbjct: 57 SHD 59
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 0.136 0.469
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,037,138
Number of Sequences: 62578
Number of extensions: 189580
Number of successful extensions: 403
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 389
Number of HSP's gapped (non-prelim): 21
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
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: 47 (22.7 bits)