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= 030324
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S98|A Chain A, Human Ifnar1
Length = 306
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 9 SGEAILVHRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDGVVANFYSLHSWMGL 68
+AI++H PG+ K SV L GL+ + IW G++ + N YS H L
Sbjct: 112 EDKAIVIHI-SPGT---KDSVXWALDGLSFTYSLV-IWKNSSGVEERIENIYSRHKIYKL 166
Query: 69 ICVSLFGAQWMMGFLSFW 86
+ + + L+ W
Sbjct: 167 SPETTYCLKVKAALLTSW 184
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 108 YTYGLAVATAETGLLEKLTFLQTRRNVYKSCPESM 142
+TY L + +G+ E++ + +R +YK PE+
Sbjct: 137 FTYSLVIWKNSSGVEERIENIYSRHKIYKLSPETT 171
>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 = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 133 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 171
>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 = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 134 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 172
>pdb|3OVA|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 435
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 132 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 170
>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 = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 134 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 172
>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 = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 134 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 172
>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 = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 16 HRWLPGSRNLKKSVHLCLQGLALACGIFGIWTKFHGIDG 54
H+WL G K++ L+G A GI+G K G G
Sbjct: 134 HKWLEGRIKGKENEVRLLKGFLKANGIYGAEYKVRGFSG 172
>pdb|2KJX|A Chain A, Solution Structure Of The Extracellular Domain Of Jtb
Length = 65
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 119 TGLLEKLTFLQTRRNVYKSC 138
TG +EK+T ++RN +KSC
Sbjct: 38 TGYVEKITCSSSKRNEFKSC 57
>pdb|3SE3|A Chain A, Human Ifna2-Ifnar Ternary Complex
pdb|3SE4|A Chain A, Human Ifnw-Ifnar Ternary Complex
Length = 414
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 108 YTYGLAVATAETGLLEKLTFLQTRRNVYKSCPES 141
+TY L + +G+ E++ + +R +YK PE+
Sbjct: 141 FTYSLVIWKNSSGVEERIENIYSRHKIYKLSPET 174
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
0.330 0.141 0.470
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,907,072
Number of Sequences: 62578
Number of extensions: 171982
Number of successful extensions: 286
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 275
Number of HSP's gapped (non-prelim): 11
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 48 (23.1 bits)