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= 043070
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OGI|A Chain A, Crystal Structure Of A Putative Metal Dependent
Phosphohydrolase (Sag1661) From Streptococcus Agalactiae
Serogroup V At 1.85 A Resolution
pdb|2OGI|B Chain B, Crystal Structure Of A Putative Metal Dependent
Phosphohydrolase (Sag1661) From Streptococcus Agalactiae
Serogroup V At 1.85 A Resolution
Length = 196
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 60/144 (41%), Gaps = 28/144 (19%)
Query: 156 KRIQHVMGYRLA---MSNEVWDDKTKQGRAI---DSSRRLGQRRFALLLDDLREPIDLKT 209
KR HV+G A ++ DK K G A D ++ L F L+D + DLK
Sbjct: 26 KRFNHVLGVERAAIELAERYGYDKEKAGLAALLHDYAKELSDDEFLRLIDKYQPDPDLKK 85
Query: 210 AGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTS 269
G +I +G Y K+ +D+ +DI +A + T GSA S
Sbjct: 86 WGNNIWHGLVGIY-------KIQEDLAIKDQDI------LAAIAKH------TVGSAQXS 126
Query: 270 IRNPAVWENAVNDLINYPAEFPGM 293
+ V+ V D I + +FPG+
Sbjct: 127 TLDKIVY---VADYIEHNRDFPGV 147
>pdb|3LJW|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
pdb|3LJW|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
Length = 120
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 201 LREPIDLKTAGASIQNGS 218
++EPIDLKT IQNGS
Sbjct: 51 IKEPIDLKTIAQRIQNGS 68
>pdb|2KTB|B Chain B, Solution Structure Of The Second Bromodomain Of Human
Polybr Complex With An Acetylated Peptide From Histone 3
Length = 121
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 201 LREPIDLKTAGASIQNGS 218
++EPIDLKT IQNGS
Sbjct: 52 IKEPIDLKTIAQRIQNGS 69
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 201 LREPIDLKTAGASIQNGS 218
++EPIDLKT IQNGS
Sbjct: 49 IKEPIDLKTIAQRIQNGS 66
>pdb|1V61|A Chain A, Solution Structure Of The Pleckstrin Homology Domain Of
Alpha-Pix
Length = 132
Score = 29.3 bits (64), Expect = 3.9, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 2 VNSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKT 43
+ CM + I GS ++ +V C + Q +W NRLTK+
Sbjct: 87 IEGSDCMFE-ITGSTVERIVVHCNNNQDFQEWMEQLNRLTKS 127
>pdb|3JTX|A Chain A, Crystal Structure Of Aminotransferase (np_283882.1) From
Neisseria Meningitidis Z2491 At 1.91 A Resolution
pdb|3JTX|B Chain B, Crystal Structure Of Aminotransferase (np_283882.1) From
Neisseria Meningitidis Z2491 At 1.91 A Resolution
Length = 396
Score = 28.5 bits (62), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 58/136 (42%), Gaps = 26/136 (19%)
Query: 115 DNSVRIICLHGVSRLGKT----TLLYNLNKKFNDTRHNFGLV---------ILVKRIQHV 161
D + + CL ++LG++ +L+ + N G V L+ R H
Sbjct: 216 DGNKPLGCLQAAAQLGRSRQKLLXFTSLSXRSNVPGLRSGFVAGDAELLKNFLLYRTYHG 275
Query: 162 MGYRLAM---SNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGAS----- 213
+ + S WDD+ ID+ RRL Q +F ++ L++ D+K AS
Sbjct: 276 SAXSIPVQRASIAAWDDEQ---HVIDN-RRLYQEKFERVIPILQQVFDVKLPDASFYIWL 331
Query: 214 -IQNGSKVKYAWNLFQ 228
+ +G + +A NL+Q
Sbjct: 332 KVPDGDDLAFARNLWQ 347
>pdb|3KO2|A Chain A, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-7c)
pdb|3KO2|B Chain B, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-7c)
pdb|3KO2|F Chain F, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-7c)
pdb|3KO2|G Chain G, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-7c)
Length = 170
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 98 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 148
>pdb|3FD2|A Chain A, Crystal Structure Of MmsoiDNA COMPLEX WITH CALCIUM
Length = 373
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 98 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 148
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 301 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 351
>pdb|1M5X|A Chain A, Crystal Structure Of The Homing Endonuclease I-Msoi Bound
To Its Dna Substrate
pdb|1M5X|B Chain B, Crystal Structure Of The Homing Endonuclease I-Msoi Bound
To Its Dna Substrate
Length = 170
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 98 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 148
>pdb|3MIS|A Chain A, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-8g)
pdb|3MIS|B Chain B, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-8g)
Length = 161
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 93 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 143
>pdb|3MIP|A Chain A, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-8gcg)
pdb|3MIP|B Chain B, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
(-8gcg)
Length = 161
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 93 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 143
>pdb|2FLD|A Chain A, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
pdb|2FLD|B Chain B, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
Length = 165
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 47 IPFCRVKRKQSNVRLDVVKMAE----------DLQSLVDEGKGLKKAADPL 87
+P+ R+K+KQ+N L ++ + DL +VD+ + L K AD L
Sbjct: 93 VPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADEL 143
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 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,840,134
Number of Sequences: 62578
Number of extensions: 462720
Number of successful extensions: 1037
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1026
Number of HSP's gapped (non-prelim): 27
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
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: 53 (25.0 bits)