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= 042237
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OCA|A Chain A, The Crystal Structure Of T4 Uvsw
Length = 510
Score = 29.3 bits (64), Expect = 0.55, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 27 QTITRVIFDIVKEHGPLTVAETWERVQQAGVSGLTGKSHMKIV 69
QTI RV+ ++HG T+A W+ + AGV + + K V
Sbjct: 434 QTIGRVL----RKHGSKTIATVWDLIDDAGVKPKSANTKKKYV 472
>pdb|3IZS|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|G Chain G, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 256
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 42/105 (40%), Gaps = 21/105 (20%)
Query: 5 YLSTKPKPKMKPIELKAPPEQTQ---TITR----VIFDIVKEHGPLTVAETWERVQQAGV 57
Y+ + + K+ I LK PP Q T+ R F + ++ P T AE ER+ +
Sbjct: 55 YVRVQRQKKILSIRLKVPPTIAQFQYTLDRNTAAETFKLFNKYRPETAAEKKERLTKEAA 114
Query: 58 SGLTGKSHMK--------------IVLRWMRERQKLRLICNHVGP 88
+ GKS +V ++ KL LI N V P
Sbjct: 115 AVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDP 159
>pdb|3UAM|A Chain A, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
pdb|3UAM|B Chain B, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
pdb|3UAM|C Chain C, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
pdb|3UAM|D Chain D, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
pdb|3UAM|E Chain E, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
pdb|3UAM|F Chain F, Crystal Structure Of A Chitin Binding Domain From
Burkholderia Pseudomallei
Length = 216
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 73 MRERQKLRLICNHVGPHKQFLYTTWFTKPNNLNQAK 108
+R Q L++ ++ PHK +T W TKP QA+
Sbjct: 108 VRSGQSLQISWSYSMPHKTRRWTYWITKPGWDTQAR 143
>pdb|4H3Y|A Chain A, Crystal Structure Of An Asymmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In One
Half-Site
pdb|4H3Y|B Chain B, Crystal Structure Of An Asymmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In One
Half-Site
pdb|4H3Z|A Chain A, Crystal Structure Of A Symmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In Both
Half-Sites
pdb|4H3Z|B Chain B, Crystal Structure Of A Symmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In Both
Half-Sites
Length = 276
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 5/88 (5%)
Query: 32 VIFDIVKEHGPLTVAETWERVQQAGVSGLTGKSHMKIVLRWMRERQKLRLICNHVGPHKQ 91
+ D V H P + + VQ + V GL H + R L+ H +Q
Sbjct: 172 ALIDAVVRHLPGVLNDAQSAVQDSFVDGLLDCPHYTRPEEYDGVRVPDVLLGGHHAEIEQ 231
Query: 92 F-----LYTTWFTKPNNLNQAKSGKDLS 114
+ L TW +P+ + QA+ K LS
Sbjct: 232 WRRREALRNTWLKRPDLIVQARKNKLLS 259
>pdb|2VRQ|A Chain A, Structure Of An Inactive Mutant Of Arabinofuranosidase
From Thermobacillus Xylanilyticus In Complex With A
Pentasaccharide
pdb|2VRQ|B Chain B, Structure Of An Inactive Mutant Of Arabinofuranosidase
From Thermobacillus Xylanilyticus In Complex With A
Pentasaccharide
pdb|2VRQ|C Chain C, Structure Of An Inactive Mutant Of Arabinofuranosidase
From Thermobacillus Xylanilyticus In Complex With A
Pentasaccharide
Length = 496
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 28 TITRVIFDIVKEHGPLTVAETWERVQQAGVSG 59
T T +F++ K H + +TWE V++ G G
Sbjct: 366 TPTYHVFNMFKVHQDAELLDTWESVERTGPEG 397
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
0.319 0.134 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,628,745
Number of Sequences: 62578
Number of extensions: 129260
Number of successful extensions: 270
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 266
Number of HSP's gapped (non-prelim): 7
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
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: 45 (21.9 bits)