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= 042576
(313 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LZC|A Chain A, Crystal Structure Of Dph2 From Pyrococcus Horikoshii
pdb|3LZC|B Chain B, Crystal Structure Of Dph2 From Pyrococcus Horikoshii
pdb|3LZD|A Chain A, Crystal Structure Of Dph2 From Pyrococcus Horikoshii With
4fe-4s Cluster
pdb|3LZD|B Chain B, Crystal Structure Of Dph2 From Pyrococcus Horikoshii With
4fe-4s Cluster
Length = 378
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 71/242 (29%), Positives = 124/242 (51%), Gaps = 25/242 (10%)
Query: 10 IPCLYVFVEIKIDVNRLIDTIKVNYSDPGKL----ILAGTIQFASAIRAAKPELEKQGFK 65
+P ++V ++ V ++ +K N + KL I+ T Q ++ AK LE +GF+
Sbjct: 124 VPTIFVPAFARVSV---VEALKENIGEIKKLGRKIIVTTTAQHIHQLKEAKEFLESEGFE 180
Query: 66 VMIPQ--SKPLSAGEVLGCTAPKIPARESDFNLVFIADGRFHLEAFMISNPGIKTFRYDP 123
V I + S+ G+VLGC R ++FI G FH ++ K DP
Sbjct: 181 VSIGRGDSRISWPGQVLGCNYSVAKVRGE--GILFIGSGIFHPLGLAVATRK-KVLAIDP 237
Query: 124 YLGKLFLEEYDNKGMRETRKR--AIEKAMKEARTWGIVLGTLGRQGNPRILE--RLQKRM 179
Y + + R RKR I KAM +A+ +G+++ ++G R+ E R+ K +
Sbjct: 238 YTKAFSWIDPE----RFIRKRWAQIAKAM-DAKKFGVIVSI--KKGQLRLAEAKRIVKLL 290
Query: 180 EKKGFDYVVIMMSEISPARVALFEDSVDAWIQIACPRLSIDWGDAFTKPLLTPFEAEIAL 239
+K G + +I+M++++ ++ F +A++ +ACPR+ +D A+ KP+LTP E EI L
Sbjct: 291 KKHGREARLIVMNDVNYHKLEGF--PFEAYVVVACPRVPLDDYGAWRKPVLTPKEVEILL 348
Query: 240 GV 241
G+
Sbjct: 349 GL 350
>pdb|1XNF|A Chain A, Crystal Structure Of E.Coli Tpr-Protein Nlpi
pdb|1XNF|B Chain B, Crystal Structure Of E.Coli Tpr-Protein Nlpi
Length = 275
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 21/43 (48%)
Query: 134 DNKGMRETRKRAIEKAMKEARTWGIVLGTLGRQGNPRILERLQ 176
D K +E K+ EK+ KE W IV LG + ERL+
Sbjct: 159 DEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLXERLK 201
>pdb|2NYK|A Chain A, Crystal Structure Of M157 From Mouse Cytomegalovirus
Length = 285
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 9 RIPCLYVFVEIKIDVNRLIDTIKVNYS-DPGKLILAGTIQFASA 51
R CL++ ++ DV DT++V Y+ GK+ + G+ +F+++
Sbjct: 100 RYACLFLGFDVICDVYHTTDTVRVAYTGQTGKINIQGSGKFSTS 143
>pdb|3GXA|A Chain A, Crystal Structure Of Gna1946
pdb|3GXA|B Chain B, Crystal Structure Of Gna1946
pdb|3GXA|C Chain C, Crystal Structure Of Gna1946
pdb|3GXA|D Chain D, Crystal Structure Of Gna1946
pdb|3GXA|E Chain E, Crystal Structure Of Gna1946
pdb|3GXA|F Chain F, Crystal Structure Of Gna1946
Length = 275
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 158 IVLGTLGRQGNPRILERLQKRMEKKGFDYVVIMMSEISPARVALFEDSVDAWIQIACPRL 217
IV GT + E++Q +EKKG+ ++ ++ +AL E +D + P L
Sbjct: 25 IVFGTTVGDFGDMVKEQIQPELEKKGYTVKLVEFTDYVRPNLALAEGELDINVFQHKPYL 84
Query: 218 SIDWGDAFTKPLLTPFEAEIA-LGVIPG 244
D+ + F+ A LG+ PG
Sbjct: 85 D-DFKKEHNLDITEVFQVPTAPLGLYPG 111
>pdb|3IR1|A Chain A, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
pdb|3IR1|B Chain B, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
pdb|3IR1|C Chain C, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
pdb|3IR1|D Chain D, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
pdb|3IR1|E Chain E, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
pdb|3IR1|F Chain F, Crystal Structure Of Lipoprotein Gna1946 From Neisseria
Meningitidis
Length = 245
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 158 IVLGTLGRQGNPRILERLQKRMEKKGFDYVVIMMSEISPARVALFEDSVDAWIQIACPRL 217
IV GT + E++Q +EKKG+ ++ ++ +AL E +D + P L
Sbjct: 3 IVFGTTVGDFGDMVKEQIQPELEKKGYTVKLVEFTDYVRPNLALAEGELDINVFQHKPYL 62
Query: 218 SIDWGDAFTKPLLTPFEAEIA-LGVIPG 244
D+ + F+ A LG+ PG
Sbjct: 63 D-DFKKEHNLDITEVFQVPTAPLGLYPG 89
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 0.139 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,638,411
Number of Sequences: 62578
Number of extensions: 401445
Number of successful extensions: 743
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 736
Number of HSP's gapped (non-prelim): 8
length of query: 313
length of database: 14,973,337
effective HSP length: 99
effective length of query: 214
effective length of database: 8,778,115
effective search space: 1878516610
effective search space used: 1878516610
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)