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= psy1132
(106 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4E7X|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|C Chain C, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|D Chain D, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|C Chain C, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|D Chain D, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E8F|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E8F|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
Length = 405
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 57 HSTFFGLLNTFVHIVMYAYYFLSALGP 83
+S +FG L+++ +++M YY + + P
Sbjct: 202 NSPYFGTLSSYGYVLMVLYYLIHVIKP 228
>pdb|4FHX|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - H336n Mutant Bound
To Mgatp
Length = 349
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 57 HSTFFGLLNTFVHIVMYAYYFLSALGP 83
+S +FG L+++ +++M YY + + P
Sbjct: 174 NSPYFGTLSSYGYVLMVLYYLIHVIKP 200
>pdb|4FH3|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity
pdb|4FH5|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mgutp Bound
pdb|4FHP|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Cautp Bound
pdb|4FHV|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mgctp Bound
pdb|4FHW|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mggtp Bound
pdb|4FHY|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mg 3'-Datp Bound
Length = 349
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 57 HSTFFGLLNTFVHIVMYAYYFLSALGP 83
+S +FG L+++ +++M YY + + P
Sbjct: 174 NSPYFGTLSSYGYVLMVLYYLIHVIKP 200
>pdb|4EP7|A Chain A, Functional Implications From The Cid1 Poly(U) Polymerase
Crystal Structure
pdb|4EP7|B Chain B, Functional Implications From The Cid1 Poly(U) Polymerase
Crystal Structure
Length = 340
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 57 HSTFFGLLNTFVHIVMYAYYFLSALGP 83
+S +FG L+++ +++M YY + + P
Sbjct: 165 NSPYFGTLSSYGYVLMVLYYLIHVIKP 191
>pdb|1BY3|A Chain A, Fhua From E. Coli
pdb|1BY5|A Chain A, Fhua From E. Coli, With Its Ligand Ferrichrome
Length = 714
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 63 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 106
>pdb|1QJQ|A Chain A, Ferric Hydroxamate Receptor From Escherichia Coli (fhua)
pdb|1QKC|A Chain A, Escherichia Coli Ferric Hydroxamate Uptake Receptor (Fhua)
In Complex Delta Two-Albomycin
pdb|1QFG|A Chain A, E. Coli Ferric Hydroxamate Receptor (Fhua)
pdb|2GRX|A Chain A, Crystal Structure Of Tonb In Complex With Fhua, E. Coli
Outer Membrane Receptor For Ferrichrome
pdb|2GRX|B Chain B, Crystal Structure Of Tonb In Complex With Fhua, E. Coli
Outer Membrane Receptor For Ferrichrome
Length = 725
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 63 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 106
>pdb|2FCP|A Chain A, Ferric Hydroxamate Uptake Receptor (fhua) From E.coli
Length = 723
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 63 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 106
>pdb|1FI1|A Chain A, Fhua In Complex With Lipopolysaccharide And Rifamycin
Cgp4832
Length = 707
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 45 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 88
>pdb|1QFF|A Chain A, E. Coli Ferric Hydroxamate Uptake Receptor (Fhua) In
Complex With Bound Ferrichrome-Iron
Length = 725
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 63 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 106
>pdb|1FCP|A Chain A, Ferric Hydroxamate Uptake Receptor (Fhua) From E.Coli In
Complex With Bound Ferrichrome-Iron
Length = 705
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 43 PMSVWFGVKFTPGGHSTFFGLLNTFVHIVMYAYYFLSALGPHMNKYL 89
P SV + +TPG G NT+ H+++ + +A G N YL
Sbjct: 45 PKSVKEALSYTPGVSVGTRGASNTYDHLIIRGF---AAEGQSQNNYL 88
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
0.331 0.141 0.506
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,000,900
Number of Sequences: 62578
Number of extensions: 101238
Number of successful extensions: 141
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 10
length of query: 106
length of database: 14,973,337
effective HSP length: 71
effective length of query: 35
effective length of database: 10,530,299
effective search space: 368560465
effective search space used: 368560465
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)