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= psy17361
(219 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 95.1 bits (235), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 56/146 (38%), Positives = 78/146 (53%), Gaps = 12/146 (8%)
Query: 17 GIKRNLQRTYASWSQTKLNS--TDQGRALFTLAWFHALIQERRTYIPQGWAKFYEFNDSD 74
G+K NL T+ T+++ ++ R F LAWFHA+IQER YIP GW KF+EFND+D
Sbjct: 2880 GVKANLLHTFIGIPATRMDKQPAERSRIYFLLAWFHAIIQERLRYIPLGWTKFFEFNDAD 2939
Query: 75 XXXXXXXXX--XRLSQDGMGGVK-----WDYIHGLLGNAIYGGRIDNAQDMKVLSSYLQF 127
L G + W + +LG+ IYGGRIDN DM++L S+L+
Sbjct: 2940 LRGALDSIDYWVDLYSKGRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQ 2999
Query: 128 YFSSNVAKTASTPLAP--GVVLPSST 151
F+ + A PL P G+ +P T
Sbjct: 3000 LFTPS-AFNPDFPLVPSIGLSVPEGT 3024
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 95.1 bits (235), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 56/146 (38%), Positives = 78/146 (53%), Gaps = 12/146 (8%)
Query: 17 GIKRNLQRTYASWSQTKLNS--TDQGRALFTLAWFHALIQERRTYIPQGWAKFYEFNDSD 74
G+K NL T+ T+++ ++ R F LAWFHA+IQER YIP GW KF+EFND+D
Sbjct: 2758 GVKANLLHTFIGIPATRMDKQPAERSRIYFLLAWFHAIIQERLRYIPLGWTKFFEFNDAD 2817
Query: 75 XXXXXXXXX--XRLSQDGMGGVK-----WDYIHGLLGNAIYGGRIDNAQDMKVLSSYLQF 127
L G + W + +LG+ IYGGRIDN DM++L S+L+
Sbjct: 2818 LRGALDSIDYWVDLYSKGRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQ 2877
Query: 128 YFSSNVAKTASTPLAP--GVVLPSST 151
F+ + A PL P G+ +P T
Sbjct: 2878 LFTPS-AFNPDFPLVPSIGLSVPEGT 2902
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 65.9 bits (159), Expect = 2e-11, Method: Composition-based stats.
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 4/105 (3%)
Query: 44 FTLAWFHALIQERRTYIPQGWAKFYEFNDSDXXXXXXXXXXRLSQDGMGGVKWDYIHGLL 103
F L+WFHALI R +P G++K Y FND D L+ + + W + +
Sbjct: 2324 FLLSWFHALITARTRLVPHGFSKKYYFNDCDFQFASVYLENVLATNSTNNIPWAQVRDHI 2383
Query: 104 GNAIYGGRIDNAQDMKVLSSYLQFYFSSNVAKTASTPLAPGVVLP 148
+YGG+ID +D++V++ F + + + PGV +P
Sbjct: 2384 ATIVYGGKIDEEKDLEVVAKLCAHVFCG----SDNLQIVPGVRIP 2424
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 65.9 bits (159), Expect = 2e-11, Method: Composition-based stats.
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 4/105 (3%)
Query: 44 FTLAWFHALIQERRTYIPQGWAKFYEFNDSDXXXXXXXXXXRLSQDGMGGVKWDYIHGLL 103
F L+WFHALI R +P G++K Y FND D L+ + + W + +
Sbjct: 2533 FLLSWFHALITARTRLVPHGFSKKYYFNDCDFQFASVYLENVLATNSTNNIPWAQVRDHI 2592
Query: 104 GNAIYGGRIDNAQDMKVLSSYLQFYFSSNVAKTASTPLAPGVVLP 148
+YGG+ID +D++V++ F + + + PGV +P
Sbjct: 2593 ATIVYGGKIDEEKDLEVVAKLCAHVFCG----SDNLQIVPGVRIP 2633
>pdb|3KZS|A Chain A, Crystal Structure Of Glycosyl Hydrolase Family 5
(Np_809925.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.10 A Resolution
pdb|3KZS|B Chain B, Crystal Structure Of Glycosyl Hydrolase Family 5
(Np_809925.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.10 A Resolution
pdb|3KZS|C Chain C, Crystal Structure Of Glycosyl Hydrolase Family 5
(Np_809925.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.10 A Resolution
pdb|3KZS|D Chain D, Crystal Structure Of Glycosyl Hydrolase Family 5
(Np_809925.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.10 A Resolution
Length = 463
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 17 GIKRNLQRTYASWSQTKLNSTDQGRAL 43
G ++ Q+TY WS KL +++GR L
Sbjct: 1 GAQKKTQKTYIPWSNGKLVVSEEGRYL 27
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 156 PDDWQSIWSGSGNPLLYIRSVVSRAV--TVHKCY 187
P D+Q + S NP +Y+ VVS V + HK +
Sbjct: 85 PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLF 118
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
0.320 0.134 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,261,006
Number of Sequences: 62578
Number of extensions: 238003
Number of successful extensions: 407
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 400
Number of HSP's gapped (non-prelim): 9
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)