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= 023572
(280 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 4 KTVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQ---IAYVTFKDMQGAETAVL 60
+TV ++ R +++FFS G + V + SD + IAYV F ++Q A+
Sbjct: 26 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG 85
Query: 61 LSGATIVDLSVSI 73
L+G ++ + + +
Sbjct: 86 LTGQRLLGVPIIV 98
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 5 TVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQI--AYVTFKDMQGAETAVLLS 62
T+ V N+S TE I E FS SGDI+ + M D T +V + AE A+
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMRYI 79
Query: 63 GATIVD 68
T +D
Sbjct: 80 NGTRLD 85
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 3 IKTVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQ---IAYVTFKD 51
+K + V +S E I+E+F G++E +E+ DN+ + ++TFK+
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 52
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 2 SIKTVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQIAYVTFKDMQGAETAV 59
S+++V V N+ ATE +K+ FS G + + D E + F + Q ETA+
Sbjct: 7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 5 TVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSD---NEWTQIAYVTFKDMQGAETAVLL 61
T+ V N+S TE I E FS SGDI+ + M D +V + AE A+
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 62 SGATIVD 68
T +D
Sbjct: 101 INGTRLD 107
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 28.5 bits (62), Expect = 4.2, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 8 VSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQ---IAYVTFKD 51
V +S E I+E+F G++E +E+ DN+ + ++TFK+
Sbjct: 4 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 50
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 4 KTVKVSNVSLGATERGIKEFFSFSGDIEYVEMKSDNEWTQIAYVTFKDMQGAETAV-LLS 62
+T+ N+S TE +KE F + +I V D + IAY+ FK AE +
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQ 74
Query: 63 GATIVDLSVSI 73
GA I SVS+
Sbjct: 75 GAEIDGRSVSL 85
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
0.311 0.124 0.334
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,728,783
Number of Sequences: 62578
Number of extensions: 221726
Number of successful extensions: 527
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 522
Number of HSP's gapped (non-prelim): 12
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)