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= 009556
(532 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 36.2 bits (82), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 426 NLVMLNVLINAFGVAGKYKEALSVYHLMKDIGISPDLVTYSTLMKAFIR 474
L M N ++ + G +KE + V ++KD G++PDL++Y+ ++ R
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR 212
>pdb|3LVT|A Chain A, The Crystal Structure Of A Protein In The Glycosyl
Hydrolase Family 38 From Enterococcus Faecalis To 2.55a
Length = 899
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 12/84 (14%)
Query: 263 GKYGELVEALEVFEKMQQESIRPDIV--TW-NSLIRWHCKA----GDVAKALELFTQ-MQ 314
G E EA ++E + RP+ V TW N H +A D K + +F + +
Sbjct: 681 GXVTETHEADSIYEVV----TRPNQVSDTWENPTNPQHQQAFVNVHDQNKGVTIFNEGLN 736
Query: 315 EQGFYPDPKIFITIISCLGELGKW 338
E D I +T+I C+GELG W
Sbjct: 737 EYEVLADGTIAVTLIRCVGELGDW 760
>pdb|3GRR|A Chain A, Crystal Structure Of The Complex Between S-Adenosyl
Homocysteine And Methanocaldococcus Jannaschi Dim1.
pdb|3GRU|A Chain A, Crystal Structure Of The Complex Between Amp And
Methanocaldococcus Jannaschi Dim1
pdb|3GRV|A Chain A, Crystal Structure Of The Complex Between Adenosine And
Methanocaldococcus Jannaschi Dim1
pdb|3GRY|A Chain A, Crystal Structure Of The Complex Between S-Adenosyl
Methionine And Methanocaldococcus Jannaschi Dim1
Length = 295
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 307 LELFTQMQEQGFYPDPKIFITIISCLGELGKWDVIKKNF 345
+E+ ++ FYP PK++ I+ GK+ + +NF
Sbjct: 176 VEIVAKVPPSAFYPKPKVYSAIVKIKPNKGKYHIENENF 214
>pdb|3FYC|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
pdb|3FYC|B Chain B, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
Length = 265
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 307 LELFTQMQEQGFYPDPKIFITIISCLGELGKWDVIKKNF 345
+E+ ++ FYP PK++ I+ GK+ + +NF
Sbjct: 149 VEIVAKVPPSAFYPKPKVYSAIVKIKPNKGKYHIENENF 187
>pdb|3FYD|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
Length = 263
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 307 LELFTQMQEQGFYPDPKIFITIISCLGELGKWDVIKKNF 345
+E+ ++ FYP PK++ I+ GK+ + +NF
Sbjct: 147 VEIVAKVPPSAFYPKPKVYSAIVKIKPNKGKYHIENENF 185
>pdb|1ZRM|A Chain A, Crystal Structure Of The Reaction Intermediate Of
L-2-Haloacid Dehalogenase With 2-Chloro-N-Butyrate
pdb|1ZRN|A Chain A, Intermediate Structure Of L-2-haloacid Dehalogenase With
Monochloroacetate
Length = 232
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 454 KDIGISPDLVTYSTLMKAFIRAKKFHKVPEIYKQMESSG 492
+ +G+ D T STL A++R F +VP+ ++++ G
Sbjct: 73 RHLGLDLDARTRSTLCDAYLRLAPFSEVPDSLRELKRRG 111
>pdb|1QH9|A Chain A, Enzyme-Product Complex Of L-2-Haloacid Dehalogenase
pdb|1JUD|A Chain A, L-2-haloacid Dehalogenase
Length = 232
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 454 KDIGISPDLVTYSTLMKAFIRAKKFHKVPEIYKQMESSG 492
+ +G+ D T STL A++R F +VP+ ++++ G
Sbjct: 73 RHLGLDLDARTRSTLCDAYLRLAPFSEVPDSLRELKRRG 111
>pdb|4FQV|A Chain A, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|C Chain C, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|E Chain E, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
Length = 327
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 195 AGRLDDTWLIINEMRSKGFQLNSFVYGKVIGLYRDNGMWKKAVGIVEEIR 244
+GR+D WLI+N + F N G I L R + + K++GI E++
Sbjct: 222 SGRIDFHWLILNPNDTVTFSFN----GAFIALDRASFLRGKSMGIQSEVQ 267
>pdb|2OC3|A Chain A, Crystal Structure Of The Catalytic Domain Of Human Protein
Tyrosine Phosphatase Non-Receptor Type 18
Length = 303
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 332 LGELGKWDVIKKNFENMKDRGHGKIGAIYAILVDIYGQYGRFRDPEECIAALKLEGL--Q 389
LG G D + E ++ RG G+ GA+ A G F D + C AA K +G+
Sbjct: 3 LGSPGIPDSARSFLERLEARG-GREGAVLA---------GEFSDIQACSAAWKADGVCST 52
Query: 390 PSGSMF-CILANAYAQQGLCEQTVKVLQLMEPEG 422
+GS + N Y +QT +L L++ EG
Sbjct: 53 VAGSRPENVRKNRYKDVLPYDQTRVILSLLQEEG 86
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 0.139 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,436,660
Number of Sequences: 62578
Number of extensions: 569833
Number of successful extensions: 1314
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1298
Number of HSP's gapped (non-prelim): 20
length of query: 532
length of database: 14,973,337
effective HSP length: 103
effective length of query: 429
effective length of database: 8,527,803
effective search space: 3658427487
effective search space used: 3658427487
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)