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= 013031
(451 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain
Length = 92
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 48/89 (53%)
Query: 190 HGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISS 249
H L+ E+ QK+ QVE+YFSD+N+ L ++ EG+V + T+ +FK++ ++ +
Sbjct: 3 HXPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTD 62
Query: 250 HSHLAXXXXXXXXXXXXEDGKKIKRQNPL 278
+ EDG ++R++PL
Sbjct: 63 VKEVVEAIRPSEKLVLSEDGLXVRRRDPL 91
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
K+ +Q+EYYF D NL D ++ +K EG+VP+ + F ++ + + + + A
Sbjct: 15 KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSK 73
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
ED KI+R PL E E ++++R V + P D ++ +
Sbjct: 74 SKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 133
Query: 313 GSVKTIR 319
G V I+
Sbjct: 134 GQVLNIQ 140
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1ZH5|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 195
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
K+ +Q+EYYF D NL D ++ +K EG+VP+ F ++ + + + + A
Sbjct: 17 KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSK 75
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
ED KI+R PL E E ++++R V + P D ++ +
Sbjct: 76 SKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 135
Query: 313 GSVKTIR 319
G V I+
Sbjct: 136 GQVLNIQ 142
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1YTY|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 194
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
K+ +Q+EYYF D NL D ++ +K EG+VP+ F ++ + + + + A
Sbjct: 16 KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSK 74
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
ED KI+R PL E E ++++R V + P D ++ +
Sbjct: 75 SKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 134
Query: 313 GSVKTIR 319
G V I+
Sbjct: 135 GQVLNIQ 141
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
Length = 103
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
K+ +Q+EYYF D NL D ++ +K EG+VP+ + F ++ + + + + A
Sbjct: 16 KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSK 74
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTE 280
ED KI+R PL E
Sbjct: 75 SKAELMEISEDKTKIRRSPSKPLPE 99
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
Protein
Length = 101
Score = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 43/83 (51%), Gaps = 3/83 (3%)
Query: 192 GLNDESIQKVLN-QVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSH 250
++ E +++ L Q+E+ FS NL+ +LI + D + ++PI TVA+ ++IK + +
Sbjct: 8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDP 65
Query: 251 SHLAXXXXXXXXXXXXEDGKKIK 273
+ E G+K++
Sbjct: 66 DLILEVLRSSPMVQVDEKGEKVR 88
>pdb|3TJ1|A Chain A, Crystal Structure Of Rna Polymerase I Transcription
Initiation Factor Rrn3
pdb|3TJ1|B Chain B, Crystal Structure Of Rna Polymerase I Transcription
Initiation Factor Rrn3
Length = 649
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/43 (23%), Positives = 26/43 (60%)
Query: 280 ESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL 322
E +L++ R+V+++ P C++N+M +F+ + +++ C
Sbjct: 521 ECELDKFFQRMVISKFNPLKFCNENVMLMFARIAQQESVAYCF 563
>pdb|1HRD|A Chain A, Glutamate Dehydrogenase
pdb|1HRD|B Chain B, Glutamate Dehydrogenase
pdb|1HRD|C Chain C, Glutamate Dehydrogenase
pdb|1BGV|A Chain A, Glutamate Dehydrogenase
Length = 449
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDP 228
V N V+YY N+ TT+ +RF+++ P
Sbjct: 335 VANNVKYYIEVANMPTTNEALRFLMQQP 362
>pdb|1K89|A Chain A, K89l Mutant Of Glutamate Dehydrogenase
Length = 449
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDP 228
V N V+YY N+ TT+ +RF+++ P
Sbjct: 335 VANNVKYYIEVANMPTTNEALRFLMQQP 362
>pdb|1AUP|A Chain A, Glutamate Dehydrogenase
Length = 449
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDP 228
V N V+YY N+ TT+ +RF+++ P
Sbjct: 335 VANNVKYYIEVANMPTTNEALRFLMQQP 362
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 29.6 bits (65), Expect = 4.0, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 19/82 (23%)
Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL-PQTXXXXXXXXXXXXXXXXMLFSN 346
SR+V ++P D + ++ + S VG V ++ PQT +
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG------------------RS 44
Query: 347 KLHAFVEYESVELAEKAIAELN 368
K +AF+E+ +E + A+ LN
Sbjct: 45 KGYAFIEFRDLESSASAVRNLN 66
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 29.3 bits (64), Expect = 5.1, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 19/82 (23%)
Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL-PQTXXXXXXXXXXXXXXXXMLFSN 346
SR+V ++P D + ++ + S VG V ++ PQT +
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG------------------RS 45
Query: 347 KLHAFVEYESVELAEKAIAELN 368
K +AF+E+ +E + A+ LN
Sbjct: 46 KGYAFIEFRDLESSASAVRNLN 67
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 28.9 bits (63), Expect = 5.5, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 19/82 (23%)
Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL-PQTXXXXXXXXXXXXXXXXMLFSN 346
SR+V ++P D + ++ + S VG V ++ PQT +
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG------------------RS 43
Query: 347 KLHAFVEYESVELAEKAIAELN 368
K +AF+E+ +E + A+ LN
Sbjct: 44 KGYAFIEFRDLESSASAVRNLN 65
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 350 AFVEYESVELAEKAIAELN 368
AFV YE +E A++A+AELN
Sbjct: 76 AFVTYEKMESADQAVAELN 94
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 28.1 bits (61), Expect = 9.4, Method: Composition-based stats.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 350 AFVEYESVELAEKAIAELN 368
AFV YE +E A++A+AELN
Sbjct: 52 AFVTYEKMESADQAVAELN 70
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 0.128 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,843,956
Number of Sequences: 62578
Number of extensions: 238196
Number of successful extensions: 552
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 541
Number of HSP's gapped (non-prelim): 16
length of query: 451
length of database: 14,973,337
effective HSP length: 102
effective length of query: 349
effective length of database: 8,590,381
effective search space: 2998042969
effective search space used: 2998042969
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)