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= 006092
(661 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3P0U|A Chain A, Crystal Structure Of The Ligand Binding Domain Of Human
Testicular Receptor 4
pdb|3P0U|B Chain B, Crystal Structure Of The Ligand Binding Domain Of Human
Testicular Receptor 4
Length = 249
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 66/141 (46%), Gaps = 12/141 (8%)
Query: 487 NCSSTIRRLCENWQLVFDKLPEKVASEAINSFLSAIHAIFLQQIEERKLHKKIDRLEK-- 544
+C++++ R C N +L L + ++++ L+AI I+E KL DR+++
Sbjct: 66 DCNTSLVRACWN-ELFTLGLAQCAQVMSLSTILAAIVNHLQNSIQEDKLSG--DRIKQVM 122
Query: 545 ----RLQKEFNSMAEME-QRFEGNFAVGVEHPELSPKHPLILKAAKVEALKKRVESEKAK 599
+LQ+ NSMA+++ +E + + SP HP + +++E ++ + E
Sbjct: 123 EHIWKLQEFCNSMAKLDIDGYEYAYLKAIVL--FSPDHPGLTSTSQIEKFQEAAQMELQD 180
Query: 600 YLNAARITQAMTLNNLKTSLP 620
Y+ A L + LP
Sbjct: 181 YVQATYSEDTYRLARILVRLP 201
>pdb|2ZH7|A Chain A, Complex Structure Of Afcca With Trnaminidg
pdb|2ZHB|A Chain A, Complex Structure Of Afcca With Trnaminiduc
Length = 436
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 259 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 311
Query: 416 HISQR 420
+ R
Sbjct: 312 FMPLR 316
>pdb|3OVA|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 435
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 258 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 310
Query: 416 HISQR 420
+ R
Sbjct: 311 FMPLR 315
>pdb|1UET|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1UEU|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1UEV|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1R89|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide Complexes
pdb|1R8A|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide Complexes
pdb|1R8B|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide
pdb|1R8C|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide
pdb|1SZ1|A Chain A, Mechanism Of Cca-Adding Enzymes Specificity Revealed By
Crystal Structures Of Ternary Complexes
pdb|1SZ1|B Chain B, Mechanism Of Cca-Adding Enzymes Specificity Revealed By
Crystal Structures Of Ternary Complexes
pdb|1TFW|A Chain A, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|B Chain B, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|C Chain C, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|D Chain D, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|A Chain A, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|B Chain B, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|C Chain C, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|D Chain D, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|2DR5|A Chain A, Complex Structure Of Cca Adding Enzyme With Mini-Helix
Lacking Cca
pdb|2DR7|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidc
pdb|2DR8|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidc And
Ctp
pdb|2DR9|A Chain A, Complex Structure Of Cca-adding Enzyme With Trnaminidcc
pdb|2DRA|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidcc
And Atp
pdb|2DRB|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminicca
pdb|2DVI|A Chain A, Complex Structure Of Cca-Adding Enzyme, Mini-Dcc And Ctp
pdb|2ZH1|A Chain A, Complex Structure Of Afcca With Trnaminida
pdb|2ZH2|A Chain A, Complex Structure Of Afcca With Trnaminidac
pdb|2ZH3|A Chain A, Complex Structure Of Afcca With Trnaminidca
pdb|2ZH4|A Chain A, Complex Structure Of Afcca With Trnaminidcg
pdb|2ZH5|A Chain A, Complex Structure Of Afcca With Trnaminidcu
pdb|2ZH6|A Chain A, Complex Structure Of Afcca With Trnaminidcu And Atp
pdb|2ZH8|A Chain A, Complex Structure Of Afcca With Trnaminidgc
pdb|2ZH9|A Chain A, Complex Structure Of Afcca With Trnaminidu
pdb|2ZHA|A Chain A, Complex Structure Of Afcca With Trnaminidu And Ctp
pdb|3OUY|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine At
Position 76 Of Trna
Length = 437
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 260 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 312
Query: 416 HISQR 420
+ R
Sbjct: 313 FMPLR 317
>pdb|3OVS|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OVS|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 260 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 312
Query: 416 HISQR 420
+ R
Sbjct: 313 FMPLR 317
>pdb|3OUY|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine At
Position 76 Of Trna
pdb|3OV7|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OV7|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 260 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 312
Query: 416 HISQR 420
+ R
Sbjct: 313 FMPLR 317
>pdb|3OVB|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OVB|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 363 LEVDIRRLQHSISETCSSIL-------NVIDEELYPQLATLISGLMRMWRKMYECLQVQN 415
LE++ RL+ + E +++ +++D+ LYPQL R RK++E L+ +N
Sbjct: 260 LEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLE-------RASRKIFEFLEREN 312
Query: 416 HISQR 420
+ R
Sbjct: 313 FMPLR 317
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
0.316 0.130 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,850,403
Number of Sequences: 62578
Number of extensions: 528317
Number of successful extensions: 1469
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1467
Number of HSP's gapped (non-prelim): 12
length of query: 661
length of database: 14,973,337
effective HSP length: 105
effective length of query: 556
effective length of database: 8,402,647
effective search space: 4671871732
effective search space used: 4671871732
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)