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= 027140
(227 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 = 156 bits (394), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 90/222 (40%), Positives = 147/222 (66%), Gaps = 1/222 (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 LASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEVYKMS 223
L SCF ++ E L+ ELA+PL+ ++E A KIA++ K S
Sbjct: 876 LLSCFAFQERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDS 917
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 155 bits (393), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 90/222 (40%), Positives = 147/222 (66%), Gaps = 1/222 (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 LASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEVYKMS 223
L SCF ++ E L+ ELA+PL+ ++E A KIA++ K S
Sbjct: 974 LLSCFAFQERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDS 1015
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 39/123 (31%), Positives = 65/123 (52%), Gaps = 7/123 (5%)
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 EVY 220
V+
Sbjct: 897 CVF 899
>pdb|3EOJ|A Chain A, Fmo Protein From Prosthecochloris Aestuarii 2k At 1.3a
Resolution
Length = 366
Score = 29.6 bits (65), Expect = 1.4, 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|1MKM|A Chain A, Crystal Structure Of The Thermotoga Maritima Iclr
pdb|1MKM|B Chain B, Crystal Structure Of The Thermotoga Maritima Iclr
Length = 249
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 64/139 (46%), Gaps = 17/139 (12%)
Query: 7 QLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVV 66
+P++S RL + DL + +SIL V E E + + +L P I +P V
Sbjct: 120 SIPMVS-----RLGMKVDLYSTASGKSILAFVPEKELKEYLKIVELKPKTPNTITNPRV- 173
Query: 67 DLVNQIEELEHKLFAHPLNKSQDENQIRC-----FQRKAE--VNHEIQQLKSKMRDSQIQ 119
L ++E++ + +A ++ ++E I C F I + K + +I+
Sbjct: 174 -LKRELEKIRKRGYA--VDNEENEIGIMCVGVPIFDHNGYPVAGVSISGVARKFTEEKIE 230
Query: 120 KFRDELKNRS-RVLKKLGH 137
++ D LK ++ + +KLG+
Sbjct: 231 EYSDVLKEKAEEISRKLGY 249
>pdb|3TBF|A Chain A, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|B Chain B, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|C Chain C, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|D Chain D, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|E Chain E, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|F Chain F, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|G Chain G, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis.
pdb|3TBF|H Chain H, C-Terminal Domain Of Glucosamine-Fructose-6-Phosphate
Aminotransferase From Francisella Tularensis
Length = 372
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 106 IQQLKSKMRDSQIQKFRDELKN 127
I +LK+ + D QI K+ +ELKN
Sbjct: 181 IAKLKNSLTDQQIAKYTEELKN 202
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 0.134 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,150,383
Number of Sequences: 62578
Number of extensions: 235065
Number of successful extensions: 844
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 832
Number of HSP's gapped (non-prelim): 18
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
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: 50 (23.9 bits)