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= psy9843
(175 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 = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/81 (46%), Positives = 53/81 (65%)
Query: 36 KRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVAFALA 95
+++ QVEFYFSD N+ +D FL N EGFVSL+ + +FKRV ++ D + V A+
Sbjct: 12 QKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIR 71
Query: 96 KSEKLQINEQGTKIRRVDPLP 116
SEKL ++E G +RR DPLP
Sbjct: 72 PSEKLVLSEDGLXVRRRDPLP 92
>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 = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/134 (35%), Positives = 77/134 (57%), Gaps = 10/134 (7%)
Query: 34 LTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVAFA 93
L +I Q+E+YF D N+ +D FL + +K + EG+V L+++ F R+ L+ D+ V+ A
Sbjct: 12 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEA 70
Query: 94 LAKS--EKLQINEQGTKIRR--VDPLP----AYDQTTPSRTIVAINIPPESATIELVAEM 145
L+KS E ++I+E TKIRR PLP Y +R+ V I P AT++ + E
Sbjct: 71 LSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRS-VYIKGFPTDATLDDIKEW 129
Query: 146 FKPCGEIALIRLLR 159
+ G++ I++ R
Sbjct: 130 LEDKGQVLNIQMRR 143
>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 = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/134 (35%), Positives = 74/134 (55%), Gaps = 10/134 (7%)
Query: 34 LTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVAFA 93
L +I Q+E+YF D N+ +D FL + +K + EG+V L++ F R+ L+ D+ V+ A
Sbjct: 13 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIXIKFNRLNRLTTDFNVIVEA 71
Query: 94 LAKS--EKLQINEQGTKIRR--VDPLP----AYDQTTPSRTIVAINIPPESATIELVAEM 145
L+KS E +I+E TKIRR PLP Y +R+ V I P AT++ + E
Sbjct: 72 LSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRS-VYIKGFPTDATLDDIKEW 130
Query: 146 FKPCGEIALIRLLR 159
+ G++ I+ R
Sbjct: 131 LEDKGQVLNIQXRR 144
>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 = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/134 (35%), Positives = 74/134 (55%), Gaps = 10/134 (7%)
Query: 34 LTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVAFA 93
L +I Q+E+YF D N+ +D FL + +K + EG+V L++ F R+ L+ D+ V+ A
Sbjct: 14 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIXIKFNRLNRLTTDFNVIVEA 72
Query: 94 LAKS--EKLQINEQGTKIRR--VDPLP----AYDQTTPSRTIVAINIPPESATIELVAEM 145
L+KS E +I+E TKIRR PLP Y +R+ V I P AT++ + E
Sbjct: 73 LSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRS-VYIKGFPTDATLDDIKEW 131
Query: 146 FKPCGEIALIRLLR 159
+ G++ I+ R
Sbjct: 132 LEDKGQVLNIQXRR 145
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
Length = 103
Score = 61.6 bits (148), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 5/87 (5%)
Query: 34 LTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVAFA 93
L +I Q+E+YF D N+ +D FL + +K + EG+V L+++ F R+ L+ D+ V+ A
Sbjct: 13 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEA 71
Query: 94 LAKS--EKLQINEQGTKIRR--VDPLP 116
L+KS E ++I+E TKIRR PLP
Sbjct: 72 LSKSKAELMEISEDKTKIRRSPSKPLP 98
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
Protein
Length = 101
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 32 EDLTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKLISSFKRVKHLSKDWRVVA 91
EDL + + Q+EF FS EN+ KD +L+ + + + F+ + +++ + +K L+ D ++
Sbjct: 12 EDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDPDLIL 69
Query: 92 FALAKSEKLQINEQGTKIR 110
L S +Q++E+G K+R
Sbjct: 70 EVLRSSPMVQVDEKGEKVR 88
>pdb|1XFC|A Chain A, The 1.9 A Crystal Structure Of Alanine Racemase From
Mycobacterium Tuberculosis Contains A Conserved Entryway
Into The Active Site
pdb|1XFC|B Chain B, The 1.9 A Crystal Structure Of Alanine Racemase From
Mycobacterium Tuberculosis Contains A Conserved Entryway
Into The Active Site
Length = 384
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 118 YDQTTPSRTIVAINIPPESATIELVAEMFKPCGEIALIRLLRPGKYTKYGNT 169
+D P + ++ P + LV M C +AL++ +R G+ YG+T
Sbjct: 224 FDLVRPGIAVYGLSPVPALGDMGLVPAMTVKC-AVALVKSIRAGEGVSYGHT 274
>pdb|4HOU|A Chain A, Crystal Structure Of N-terminal Human Ifit1
pdb|4HOU|B Chain B, Crystal Structure Of N-terminal Human Ifit1
Length = 273
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 33 DLTKRIIDQVEFYFSDENIVKDAFL--LKHVK-RNKEGFVSLKLISSFKRVKH 82
DL R++DQ+EF + ++ L +KH+K +N+E SLK + + +H
Sbjct: 28 DLENRVLDQIEFLDTKYSVGIHNLLAYVKHLKGQNEEALKSLKEAENLXQEEH 80
>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 = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 123 PSRTIVAINIPPESATIELVAEMFKPCGEIALIRLLR---PGKYTKYG 167
P RT + +N P++ T + + +F GE+ +L+R G YG
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYG 49
>pdb|3RQT|A Chain A, 1.5 Angstrom Crystal Structure Of The Complex Of Ligand
Binding Component Of Abc-Type Import System From
Staphylococcus Aureus With Nickel And Two Histidines
Length = 486
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 65/141 (46%), Gaps = 22/141 (15%)
Query: 14 AKPNSRSENEEIPFVKPDEDLTKRIIDQVEFYFSDENIVKDAFLLKHVKRNKEGFVSLKL 73
AKP + N++IP++K + LTK+ I+Q + + KD + KE + +KL
Sbjct: 286 AKPATSPFNDKIPYIK-EPKLTKQNIEQAKXL-----LAKDGYT-------KEHPLKIKL 332
Query: 74 ISSFKRVKHLSKDWRVVAFALAKSEKLQINEQGTKIRRVDPLPAY--DQTTPSRTIVAIN 131
I+ R LSK +V+ + AK ++I+ I+ VD + Y D++ T +
Sbjct: 333 ITYDGR-PELSKIAQVLQ-SDAKKANIEID-----IKSVDDIEGYLKDRSAWDATXYSFG 385
Query: 132 IPPESATIELVAEMFKPCGEI 152
P T + +K G I
Sbjct: 386 TIPRGDTGYFFNQAYKKDGAI 406
>pdb|3HIC|A Chain A, The Crystal Structure Of Phosphofructokinase(Lin2199)from
Listeria Innocua
pdb|3IE7|A Chain A, The Crystal Structure Of Phosphofructokinase (Lin2199)
From Listeria Innocua In Complex With Atp At 1.6a
pdb|3JUL|A Chain A, Crystal Structure Of Listeria Innocua
D-Tagatose-6-Phosphate Kinase Bound With Substrate
Length = 320
Score = 26.6 bits (57), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 9 GCDTSAKPNSRSENEEIPFVKPDEDLTKRIIDQ 41
GCD S + + + + F+KP+ED I+D+
Sbjct: 167 GCDNSGEYLNLAVEXGVDFIKPNEDEVIAILDE 199
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
0.318 0.135 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,170,699
Number of Sequences: 62578
Number of extensions: 194246
Number of successful extensions: 459
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 442
Number of HSP's gapped (non-prelim): 21
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)