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= 024151
(271 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AF0|A Chain A, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 45 LGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF----YQIFRNNAEVAALEHK 100
+G + + + + + GGL + GT S G Y+Y +++R + A+EH
Sbjct: 393 IGNIGHIAKALALGASAVMMGGL---LAGTTESPGEYFYHEGKRVKVYRGMGSIEAMEHT 449
Query: 101 KRGIGDGSVGML 112
+RG G +L
Sbjct: 450 QRGSASGKRSIL 461
>pdb|4AF0|B Chain B, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 45 LGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF----YQIFRNNAEVAALEHK 100
+G + + + + + GGL + GT S G Y+Y +++R + A+EH
Sbjct: 393 IGNIGHIAKALALGASAVMMGGL---LAGTTESPGEYFYHEGKRVKVYRGMGSIEAMEHT 449
Query: 101 KRGIGDGSVGML 112
+RG G +L
Sbjct: 450 QRGSASGKRSIL 461
>pdb|2IEE|A Chain A, Crystal Structure Of Yckb_bacsu From Bacillus Subtilis.
Northeast Structural Genomics Consortium Target Sr574.
pdb|2IEE|B Chain B, Crystal Structure Of Yckb_bacsu From Bacillus Subtilis.
Northeast Structural Genomics Consortium Target Sr574
Length = 271
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 30/69 (43%)
Query: 194 VFPTLIMVSNPSIQFMLYETMLKKIKERRALRKKDNSGVTALEVTFWFCFLSPPFFNPSI 253
FP L + +P I++ + L K AL+KK N + LS FFN +
Sbjct: 190 AFPDLNITIHPDIKYXPNKQALVXKKSNAALQKKXNEALKEXSKDGSLTKLSKQFFNKAD 249
Query: 254 LNSVLGAPI 262
++ + A +
Sbjct: 250 VSKKIDADV 258
>pdb|3IZS|J Chain J, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O5H|L Chain L, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3J16|H Chain H, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 165
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGV 80
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 82 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVGC 141
Query: 81 YYYF 84
F
Sbjct: 142 RVDF 145
>pdb|3BRY|A Chain A, Crystal Structure Of The Ralstonia Pickettii Toluene
Transporter Tbux
pdb|3BRY|B Chain B, Crystal Structure Of The Ralstonia Pickettii Toluene
Transporter Tbux
Length = 441
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 44 KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF 84
LGT+ + Q+ G GR+ G L P+++G G Y F
Sbjct: 164 NLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDF 204
>pdb|3JYW|K Chain K, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
pdb|3J2K|8 Chain 8, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 138
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQG 79
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 76 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVG 134
>pdb|1S1I|K Chain K, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 131
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQG 79
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 70 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVG 128
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
0.320 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,024,651
Number of Sequences: 62578
Number of extensions: 257084
Number of successful extensions: 608
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 607
Number of HSP's gapped (non-prelim): 7
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
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)