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= 037791
(295 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B7G|O Chain O, Glyceraldehyde 3-phosphate Dehydrogenase
pdb|1B7G|Q Chain Q, Glyceraldehyde 3-phosphate Dehydrogenase
Length = 340
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 17/81 (20%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 94 HKRNLKWAPKNRDDVYGAMLGENTTLMIRNIPNNLK----RRDLLHILDSHCRVEYLKSK 149
H +++ +N D A++ T + + I LK ++D+L +L++ R+ + SK
Sbjct: 193 HAKDVNSVIRNLDIATMAVIAPTTLMHMHFINITLKDKVEKKDILSVLENTPRIVLISSK 252
Query: 150 WHCKSEFDFLYLPMDFRRRAN 170
+ ++ + + + D +R N
Sbjct: 253 YDAEATAELVEVARDLKRDRN 273
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 117 TTLMIRNIPNNLKRRDLLHILDSHCRVEYLKSKWHCKSEFDFLYLPMDFRRRANLGYAFV 176
T L++ +P N+ + +L + S VE K L D +LGY FV
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAK-------------LIRDKVAGHSLGYGFV 49
Query: 177 NFTTAAGALRFWKACNKYKWE 197
N+ TA A R N + +
Sbjct: 50 NYVTAKDAERAINTLNGLRLQ 70
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 31.2 bits (69), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 117 TTLMIRNIPNNLKRRDLLHILDSHCRVEYLKSKWHCKSEFDFLYLPMDFRRRANLGYAFV 176
T L++ +P N+ + +L + S VE K L D +LGY FV
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAK-------------LIRDKVAGHSLGYGFV 49
Query: 177 NFTTAAGALRFWKACNKYKWE 197
N+ TA A R N + +
Sbjct: 50 NYVTAKDAERAINTLNGLRLQ 70
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 13/83 (15%)
Query: 115 ENTTLMIRNIPNNLKRRDLLHILDSHCRVEYLKSKWHCKSEFDFLYLPMDFRRRANLGYA 174
+ T L++ +P N + +L + S VE K L D +LGY
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAK-------------LIRDKVAGHSLGYG 64
Query: 175 FVNFTTAAGALRFWKACNKYKWE 197
FVN+ TA A R N + +
Sbjct: 65 FVNYVTAKDAERAINTLNGLRLQ 87
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 117 TTLMIRNIPNNLKRRDLLHILDSHCRVEYLKSKWHCKSEFDFLYLPMDFRRRANLGYAFV 176
T L++ +P N+ + +L + S VE K L D +LGY FV
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAK-------------LIRDKVAGHSLGYGFV 51
Query: 177 NFTTAAGALR 186
N+ TA A R
Sbjct: 52 NYVTAKDAER 61
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 35/87 (40%), Gaps = 13/87 (14%)
Query: 106 DDVYGAMLGENTTLMIRNIPNNLKRRDLLHILDSHCRVEYLKSKWHCKSEFDFLYLPMDF 165
DD+ NT L++ +P + R+L + + + + K+ + F
Sbjct: 4 DDLMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSF------- 56
Query: 166 RRRANLGYAFVNFTTAAGALRFWKACN 192
GYAFV+FT+ + R K N
Sbjct: 57 ------GYAFVDFTSEXDSQRAIKVLN 77
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
0.324 0.138 0.460
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,468,318
Number of Sequences: 62578
Number of extensions: 345226
Number of successful extensions: 882
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 881
Number of HSP's gapped (non-prelim): 7
length of query: 295
length of database: 14,973,337
effective HSP length: 98
effective length of query: 197
effective length of database: 8,840,693
effective search space: 1741616521
effective search space used: 1741616521
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)