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= 040937
(508 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 16/74 (21%)
Query: 401 CDYYMKTGVCKFGEKCKFHHPID--RSAAKTPSQETVKLTLAGLPRREGAVHCPYYMKTG 458
C Y ++G C++G KC+F H + R A + P +T C + G
Sbjct: 15 CRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYKTEL--------------CHKFKLQG 60
Query: 459 TCKYGATCKFDHPP 472
C YG+ C F H P
Sbjct: 61 RCPYGSRCHFIHNP 74
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 13/69 (18%)
Query: 190 CPYFLKTQRCKFGSKCKFNHPKDKLIGSSDSGNGDVSALPERPSEPP--CAFYLKNGTCK 247
C + ++ RC++G+KC+F H G G++ P C + G C
Sbjct: 15 CRTYSESGRCRYGAKCQFAH-----------GLGELRQANRHPKYKTELCHKFKLQGRCP 63
Query: 248 FGATCKFDH 256
+G+ C F H
Sbjct: 64 YGSRCHFIH 72
>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 = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 30/72 (41%), Gaps = 16/72 (22%)
Query: 401 CDYYMKTGVCKFGEKCKFHHPID--RSAAKTPSQETVKLTLAGLPRREGAVHCPYYMKTG 458
C + ++G CK+GEKC+F H RS + P +T C + G
Sbjct: 9 CRPFEESGTCKYGEKCQFAHGFHELRSLTRHPKYKTEL--------------CRTFHTIG 54
Query: 459 TCKYGATCKFDH 470
C YG C F H
Sbjct: 55 FCPYGPRCHFIH 66
>pdb|4II1|A Chain A, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|B Chain B, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|C Chain C, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|D Chain D, Crystal Structure Of The Zinc Finger Of Zgpat
Length = 167
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 218 SDSGNGDVSAL---PERPSEPPCAFYLKNGTCKFGATCKFDHPKDFQLPSV 265
++ G+ V L P S PC F+L+ G C+F C+F H + L +
Sbjct: 57 AEDGSAGVRVLYLYPTHKSLKPCPFFLE-GKCRFKENCRFSHGQVVSLDEL 106
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 317 CPFYLKTGSCKYGSTCRYNHPERTAIN 343
CPF+L+ G C++ CR++H + +++
Sbjct: 79 CPFFLE-GKCRFKENCRFSHGQVVSLD 104
>pdb|2V6M|A Chain A, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|B Chain B, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|C Chain C, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|D Chain D, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V7P|A Chain A, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|B Chain B, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|C Chain C, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|D Chain D, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
Length = 310
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 155 FDHPIWVPEGGIPDWKEVPVIASSESLPERPGE 187
F HP+WV G D + + + + +RPGE
Sbjct: 51 FAHPVWVRAGSYGDLEGARAVVLAAGVAQRPGE 83
>pdb|4A73|A Chain A, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|B Chain B, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|C Chain C, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|D Chain D, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
Length = 310
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 155 FDHPIWVPEGGIPDWKEVPVIASSESLPERPGE 187
F HP+WV G D + + + + +RPGE
Sbjct: 51 FAHPVWVRAGSYGDLEGARAVVLAAGVAQRPGE 83
>pdb|2E37|A Chain A, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|B Chain B, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|C Chain C, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|D Chain D, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|E Chain E, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|F Chain F, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|G Chain G, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|H Chain H, Structure Of Tt0471 Protein From Thermus Thermophilus
Length = 310
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 155 FDHPIWVPEGGIPDWKEVPVIASSESLPERPGE 187
F HP+WV G D + + + + +RPGE
Sbjct: 51 FAHPVWVRAGSYGDLEGARAVVLAAGVAQRPGE 83
>pdb|2XXB|A Chain A, Penta-Mutant Of Thermus Thermophilus Lactate
Dehydrogenase, Complex With Amp
pdb|2XXB|B Chain B, Penta-Mutant Of Thermus Thermophilus Lactate
Dehydrogenase, Complex With Amp
pdb|2XXJ|A Chain A, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|B Chain B, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|C Chain C, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|D Chain D, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|3ZZN|A Chain A, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|B Chain B, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|C Chain C, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|D Chain D, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
Length = 310
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 155 FDHPIWVPEGGIPDWKEVPVIASSESLPERPGE 187
F HP+WV G D + + + + +RPGE
Sbjct: 51 FAHPVWVWAGSYGDLEGARAVVLAAGVAQRPGE 83
>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
Protein
Length = 98
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 29/79 (36%), Gaps = 12/79 (15%)
Query: 432 QETVKLTLAGLPRREGAVHCPY---------YMKTGTCKYGATCKFDHPPPGEVMAISAL 482
+E K + G R A +CPY Y TG C G C F H P E L
Sbjct: 13 RELCKFYITGFCAR--AENCPYMHGDFPCKLYHTTGNCINGDDCMFSHDPLTEETR-ELL 69
Query: 483 DGTSTAVGEEVKGDEKESE 501
D E DEKE E
Sbjct: 70 DKMLADDAEAGAEDEKEVE 88
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
0.315 0.133 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,742,029
Number of Sequences: 62578
Number of extensions: 743033
Number of successful extensions: 1248
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1204
Number of HSP's gapped (non-prelim): 39
length of query: 508
length of database: 14,973,337
effective HSP length: 103
effective length of query: 405
effective length of database: 8,527,803
effective search space: 3453760215
effective search space used: 3453760215
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)