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= 021133
(317 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 129/316 (40%), Positives = 209/316 (66%), Gaps = 2/316 (0%)
Query: 3 VVPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQGLPKLNPVKDMKIED 62
V+P+ L I ++ +RL +P D+R ++++ +++E+ RFP G+P L+PVK+MKIED
Sbjct: 696 VIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIED 755
Query: 63 PEVVDLVNQIEELEHKLFAHPLNKSQDENQIRC-FQRKAEVNHEIQQLKSKMRDSQIQKF 121
+ + L+ +I+ L KL ++PL S ++ + RK +++ +++QLK K+ +SQ
Sbjct: 756 EDFLKLMKKIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISESQAVIQ 815
Query: 122 RDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAA 181
D+L+ R RVL++LG + +++LKGR AC I +GDELL+TEL+FNG FN+L Q AA
Sbjct: 816 LDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAA 875
Query: 182 LASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEIQNECKLEVNVDEYVESTVRPFL 241
L SCF ++ E L+ ELA+PL+ ++E A KIA+I + K+EV +YVES R L
Sbjct: 876 LLSCFAFQERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVES-FRHEL 934
Query: 242 MDVIYCWSKGATFAEVIQMTDIFEGSIIRSARRLDEFLNQLRAAAQAVGEVNLEKKFAAA 301
M+V+Y W +GATF ++ +MTD++EGS+IR +RL+E + +L A +G +L++K A
Sbjct: 935 MEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAV 994
Query: 302 SESLRRGIMFSNSLYL 317
+ + R I+ + SLYL
Sbjct: 995 LKLIHRDIVSAGSLYL 1010
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 129/316 (40%), Positives = 209/316 (66%), Gaps = 2/316 (0%)
Query: 3 VVPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQGLPKLNPVKDMKIED 62
V+P+ L I ++ +RL +P D+R ++++ +++E+ RFP G+P L+PVK+MKIED
Sbjct: 794 VIPITLDSIKSIGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIED 853
Query: 63 PEVVDLVNQIEELEHKLFAHPLNKSQDENQIRC-FQRKAEVNHEIQQLKSKMRDSQIQKF 121
+ + L+ +I+ L KL ++PL S ++ + RK +++ +++QLK K+ +SQ
Sbjct: 854 EDFLKLMKKIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRKISESQAVIQ 913
Query: 122 RDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAA 181
D+L+ R RVL++LG + +++LKGR AC I +GDELL+TEL+FNG FN+L Q AA
Sbjct: 914 LDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAA 973
Query: 182 LASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEIQNECKLEVNVDEYVESTVRPFL 241
L SCF ++ E L+ ELA+PL+ ++E A KIA+I + K+EV +YVES R L
Sbjct: 974 LLSCFAFQERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVES-FRHEL 1032
Query: 242 MDVIYCWSKGATFAEVIQMTDIFEGSIIRSARRLDEFLNQLRAAAQAVGEVNLEKKFAAA 301
M+V+Y W +GATF ++ +MTD++EGS+IR +RL+E + +L A +G +L++K A
Sbjct: 1033 MEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAV 1092
Query: 302 SESLRRGIMFSNSLYL 317
+ + R I+ + SLYL
Sbjct: 1093 LKLIHRDIVSAGSLYL 1108
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 103 bits (258), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 69/221 (31%), Positives = 122/221 (55%), Gaps = 8/221 (3%)
Query: 102 VNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELL 161
+ +I++L M D + D K R VLK I+ + V LKGR AC I++G EL+
Sbjct: 780 IKKKIEELYHLMSDQNLSLLPDYEK-RLAVLKDTEFIDQNHNVLLKGRVACEINSGYELV 838
Query: 162 VTELMFNGTFNDLDHHQVAALASCFIPVDKSSEQ----INLRMELAKPLQQLQESARKIA 217
+TEL+ + + ++ AL S F+ K+ E+ + R LAK Q+++E +K+
Sbjct: 839 LTELILDNFLGSFEPEEIVALLSVFVYEGKTREEEPPIVTPR--LAKGKQRIEEIYKKML 896
Query: 218 EIQNECKLEVNVDEYVESTVRPF-LMDVIYCWSKGATFAEVIQMTDIFEGSIIRSARRLD 276
+ N ++ + DE + F +M+V+Y W++G +F E+++M+ EG+++R LD
Sbjct: 897 CVFNTHQIPLTQDEAEFLDRKRFAMMNVVYEWARGLSFKEIMEMSPEAEGTVVRVITWLD 956
Query: 277 EFLNQLRAAAQAVGEVNLEKKFAAASESLRRGIMFSNSLYL 317
E +++ A+ +G L K + A E ++R I+F+ SLYL
Sbjct: 957 EICREVKTASIIIGNSTLHMKMSRAQELIKRDIVFAASLYL 997
>pdb|3EOJ|A Chain A, Fmo Protein From Prosthecochloris Aestuarii 2k At 1.3a
Resolution
Length = 366
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 4 VPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELES 43
VP +PL+ T IR+ D +PLDA++ ++ ++ES
Sbjct: 37 VPAAIPLLPTDCNIRI----DAKPLDAQKGVVRFTTKIES 72
>pdb|3UIB|A Chain A, Map Kinase Lmampk10 From Leishmania Major In Complex With
Sb203580
Length = 362
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 248 WSKGATFAEVIQMTDIFEGSIIRSARRLDEFLNQLRAAAQAVGEVNLEKKFAAASESLR 306
WS G AE+ +F GS F NQL + VG +E +S S R
Sbjct: 218 WSAGCVMAEMFNRKALFRGS---------TFYNQLNKIVEVVGTPKIEDVVMFSSPSAR 267
>pdb|3PG1|A Chain A, Map Kinase Lmampk10 From Leishmania Major (1.95 Angs
Resolution)
Length = 362
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 248 WSKGATFAEVIQMTDIFEGSIIRSARRLDEFLNQLRAAAQAVGEVNLEKKFAAASESLR 306
WS G AE+ +F GS F NQL + VG +E +S S R
Sbjct: 218 WSAGCVMAEMFNRKALFRGS---------TFYNQLNKIVEVVGTPKIEDVVMFSSPSAR 267
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
0.319 0.134 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,168,910
Number of Sequences: 62578
Number of extensions: 312707
Number of successful extensions: 1035
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1026
Number of HSP's gapped (non-prelim): 11
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)