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= 044387
(446 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W6K|A Chain A, Structure Of Human Osc In Complex With Lanosterol
Length = 732
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 10 DWISALPDSVLCHILS-YLPTKNAVATSLLARRWKLVWTSLQKLYFDDRQS 59
DW A P ++ CH YLP A L A LV + Q+LY +D S
Sbjct: 220 DWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPLVQSLRQELYVEDFAS 270
>pdb|1W6J|A Chain A, Structure Of Human Osc In Complex With Ro 48-8071
Length = 732
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 10 DWISALPDSVLCHILS-YLPTKNAVATSLLARRWKLVWTSLQKLYFDDRQS 59
DW A P ++ CH YLP A L A LV + Q+LY +D S
Sbjct: 220 DWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPLVQSLRQELYVEDFAS 270
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 145
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 147
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 146
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 144
>pdb|3A8N|A Chain A, Crystal Structure Of The Tiam1 Phccex Domain
Length = 279
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 30 KNAVATSLLARRWKLVWTSLQ--KLYFDDRQSRRLPGMMGDPMPGFEEFVETVLTGTYPT 87
KN S R+WK W SL+ L+F + R G+ + +P +VE + P
Sbjct: 27 KNKKVESATRRKWKHYWVSLKGCTLFFYETDGR--SGIDHNSVPKHAVWVENSIVQAVPE 84
Query: 88 NITTFFVHC 96
+ FV C
Sbjct: 85 HPKKDFVFC 93
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 146
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 380 VKKIEIKGVEGDDDELILVDYLLKYSSVLEVMVICFKGSVSKQ 422
VKKI + G++ D +E L DY +Y + + ++ +GS K+
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR 139
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 46/98 (46%), Gaps = 9/98 (9%)
Query: 115 RNAREIELYLDQNHRVELPEELYTSVSVEV-----LKLMSDFVIKVPAGGTSFPNV---- 165
+ A ++E + E+ ++Y+ +SV + L+ +S F VPA + +V
Sbjct: 232 QRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRL 291
Query: 166 KILSVQLESPENSLTEKLFCSCPALEELSIQAYLNDEG 203
L++ + ++ KL C CP L+ L + Y+ D G
Sbjct: 292 TTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAG 329
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 7 VKADWISALP----DSVLCHILSYLPTKNAVATSLLARRWKLV 45
++ D+I+ALP D + +ILSYL K+ A L+ + W V
Sbjct: 6 LQRDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRV 48
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
0.321 0.136 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,585,235
Number of Sequences: 62578
Number of extensions: 489016
Number of successful extensions: 1020
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1012
Number of HSP's gapped (non-prelim): 13
length of query: 446
length of database: 14,973,337
effective HSP length: 102
effective length of query: 344
effective length of database: 8,590,381
effective search space: 2955091064
effective search space used: 2955091064
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)