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= psy2450
(254 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WV9|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Murray
Valley Encephalitis Virus
Length = 673
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 40/106 (37%), Gaps = 18/106 (16%)
Query: 117 MWYTCRNLDPNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEATVTFEEPT 176
+W+T R R Y KE R+ YG P KL K++ V + + EP
Sbjct: 103 LWHTTRGAAIMSGEGRLTPYWGNVKEDRVTYGGP-----WKLDQKWNGVDDVQMIVVEPG 157
Query: 177 KKGIGADNVGNKLLQKMGWTQGQGLGKTNQGRTSIIEAEARISSAG 222
K I NV K G+ KT G + + I ++G
Sbjct: 158 KPAI---NVQTK----------PGIFKTAHGEIGAVSLDYPIGTSG 190
>pdb|2IJR|A Chain A, Crystal Structure Of A Protein Api92 From Yersinia
Pseudotuberculosis, Pfam Duf1281
Length = 300
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 137 RDRAKERRLKYGEPEVPPACKLKAKYSKVKEATV--TFEEPTKKGIGAD 183
RDR RL + P PP+ +L + S V + + ++EP G D
Sbjct: 216 RDRINSLRLDFDSPSYPPSAELXGELSAVFDCEIRHWYQEPVNGIRGYD 264
>pdb|3T5Q|A Chain A, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
pdb|3T5Q|B Chain B, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
pdb|3T5Q|E Chain E, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
pdb|3T5Q|G Chain G, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
pdb|3T5Q|I Chain I, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
pdb|3T5Q|K Chain K, 3a Structure Of Lassa Virus Nucleoprotein In Complex With
Ssrna
Length = 353
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 4/113 (3%)
Query: 125 DPNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEATVTFEEPTKKGIGADN 184
D N AV+ V+ + ++ L+ G L A K+K + E P G+ N
Sbjct: 82 DLNQAVNNLVELKSTQQKSILRVGTLTSDDLLILAADLEKLKSKVIRTERPLSAGVYMGN 141
Query: 185 VGNKLL-QKMGWTQGQGLGKTNQGRTSIIEAEAR---ISSAGLGTNAIGMTPA 233
+ ++ L Q+ G+ NQG + + R + +A L +N G P+
Sbjct: 142 LSSQQLDQRRALLNMIGMSGGNQGARAGRDGVVRVWDVKNAELLSNQFGTMPS 194
>pdb|3T5N|A Chain A, 1.8a Crystal Structure Of Lassa Virus Nucleoprotein In
Complex With Ssrna
Length = 354
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 4/113 (3%)
Query: 125 DPNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEATVTFEEPTKKGIGADN 184
D N AV+ V+ + ++ L+ G L A K+K + E P G+ N
Sbjct: 83 DLNQAVNNLVELKSTQQKSILRVGTLTSDDLLILAADLEKLKSKVIRTERPLSAGVYMGN 142
Query: 185 VGNKLL-QKMGWTQGQGLGKTNQGRTSIIEAEAR---ISSAGLGTNAIGMTPA 233
+ ++ L Q+ G+ NQG + + R + +A L +N G P+
Sbjct: 143 LSSQQLDQRRALLNMIGMSGGNQGARAGRDGVVRVWDVKNAELLSNQFGTMPS 195
>pdb|1PAA|A Chain A, Structure Of A Histidine-X4-Histidine Zinc Finger Domain:
Insights Into Adr1-Uas1 Protein-Dna Recognition
Length = 30
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 87 ACLICKRQFNSKDILKKHTQLSELHKSNL 115
AC +C R F +D+L +H Q ++H NL
Sbjct: 4 ACGLCNRAFTRRDLLIRHAQ--KIHSGNL 30
>pdb|3MWP|A Chain A, Nucleoprotein Structure Of Lassa Fever Virus
pdb|3MWP|B Chain B, Nucleoprotein Structure Of Lassa Fever Virus
pdb|3MWP|C Chain C, Nucleoprotein Structure Of Lassa Fever Virus
pdb|3MWT|A Chain A, Crystal Structure Of Lassa Fever Virus Nucleoprotein In
Complex With Mn2+
pdb|3MWT|B Chain B, Crystal Structure Of Lassa Fever Virus Nucleoprotein In
Complex With Mn2+
pdb|3MWT|C Chain C, Crystal Structure Of Lassa Fever Virus Nucleoprotein In
Complex With Mn2+
pdb|3MX2|A Chain A, Lassa Fever Virus Nucleoprotein Complexed With Dttp
pdb|3MX2|B Chain B, Lassa Fever Virus Nucleoprotein Complexed With Dttp
pdb|3MX2|C Chain C, Lassa Fever Virus Nucleoprotein Complexed With Dttp
pdb|3MX5|A Chain A, Lassa Fever Virus Nucleoprotein Complexed With Utp
pdb|3MX5|B Chain B, Lassa Fever Virus Nucleoprotein Complexed With Utp
pdb|3MX5|C Chain C, Lassa Fever Virus Nucleoprotein Complexed With Utp
Length = 577
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 46/113 (40%), Gaps = 4/113 (3%)
Query: 125 DPNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEATVTFEEPTKKGIGADN 184
D N AV+ V+ + ++ L+ G L A K+K + E P G+ N
Sbjct: 77 DLNQAVNNLVELKSTQQKSILRVGTLTSDDLLILAADLEKLKSKVIRTERPLSAGVYMGN 136
Query: 185 VGNKLL-QKMGWTQGQGLGKTNQGRTSIIEAEAR---ISSAGLGTNAIGMTPA 233
+ ++ L Q+ G+ NQG + + R + +A L N G P+
Sbjct: 137 LSSQQLDQRRALLNMIGMSGGNQGARAGRDGVVRVWDVKNAELLNNQFGTMPS 189
>pdb|3R3L|A Chain A, Structure Of Np Protein From Lassa Av Strain
pdb|3R3L|B Chain B, Structure Of Np Protein From Lassa Av Strain
pdb|3R3L|C Chain C, Structure Of Np Protein From Lassa Av Strain
Length = 582
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 47/117 (40%), Gaps = 12/117 (10%)
Query: 125 DPNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEATVTFEEPTKKGIGADN 184
D N AV+ V+ + ++ L+ G L A K+K E P G+ N
Sbjct: 69 DLNQAVNNLVELKSTQQKSVLRVGTLSSDDLLTLAADLEKLKSKVTRTERPLSSGVYMGN 128
Query: 185 VGNK-------LLQKMGWTQG-QGLGKTNQGRTSIIEAEARISSAGLGTNAIGMTPA 233
+ ++ LL +G T G QG + GR ++ + +A L N G P+
Sbjct: 129 LSSQQLDQRRALLNLIGMTNGSQG---SQAGRDGVVRV-WDVKNAELLNNQFGTMPS 181
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 27.3 bits (59), Expect = 8.8, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 88 CLICKRQFNSKDILKKHTQLSELHKSNL 115
C +C R F +D+L +H Q ++H NL
Sbjct: 33 CGLCNRAFTRRDLLIRHAQ--KIHSGNL 58
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
0.310 0.125 0.359
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,349,193
Number of Sequences: 62578
Number of extensions: 284501
Number of successful extensions: 574
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 570
Number of HSP's gapped (non-prelim): 15
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)