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= psy4684
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ENB|A Chain A, Crystal Structure Of Prp8 Core Domain Iv
pdb|3ENB|B Chain B, Crystal Structure Of Prp8 Core Domain Iv
Length = 222
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F L I + T L F+K I +W +LG+ A
Sbjct: 14 DTNVYRVTIHKTFEGNLTTKPINGAIFIFNPRTGQL-FLKIIHTSVWAGQKRLGQLAKWK 72
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
++ ++ +E P +I LD V++ DFP+I+++
Sbjct: 73 TAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIK 117
>pdb|3E9L|A Chain A, Crystal Structure Of Human Prp8, Residues 1755-2016
Length = 257
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 3/107 (2%)
Query: 80 CKEAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAY 137
+ V V H +F L I + T L F+K I +W +LG+ A
Sbjct: 21 VDDTNVYRVTIHKTFEGNLTTKPINGAIFIFNPRTGQL-FLKIIHTSVWAGQKRLGQLAK 79
Query: 138 RAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
++ ++ +E P +I LD V++ DFP+I+++
Sbjct: 80 WKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIK 126
>pdb|3E9P|A Chain A, Crystal Structure Of Yeast Prp8, Residues 1827-2092
pdb|3E9P|B Chain B, Crystal Structure Of Yeast Prp8, Residues 1827-2092
Length = 255
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F + I +T L F+K I +W +L + A
Sbjct: 22 DTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWK 80
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 81 TAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 125
>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
Length = 1531
Score = 30.0 bits (66), Expect = 1.0, Method: Composition-based stats.
Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 3/102 (2%)
Query: 85 VISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRAGGM 142
V V H +F + I +T L F+K I +W +L + A
Sbjct: 975 VYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWKTAE 1033
Query: 143 QITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 1034 EVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 1075
>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
Length = 1564
Score = 30.0 bits (66), Expect = 1.0, Method: Composition-based stats.
Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 3/102 (2%)
Query: 85 VISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRAGGM 142
V V H +F + I +T L F+K I +W +L + A
Sbjct: 1008 VYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWKTAE 1066
Query: 143 QITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 1067 EVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 1108
>pdb|3SBT|A Chain A, Crystal Structure Of A Aar2-prp8 Complex
Length = 260
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F + I +T L F+K I +W +L + A
Sbjct: 22 DTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWK 80
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 81 TAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 125
>pdb|3E66|A Chain A, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
pdb|3E66|B Chain B, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
Length = 282
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F + I +T L F+K I +W +L + A
Sbjct: 41 DTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWK 99
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 100 TAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 144
>pdb|3SBG|A Chain A, Crystal Structure Of A Prp8 C-Terminal Fragment
Length = 565
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F + I +T L F+K I +W +L + A
Sbjct: 22 DTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWK 80
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V++ DFP+I +R
Sbjct: 81 TAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIR 125
>pdb|3E9O|A Chain A, Crystal Structure Of Yeast Prp8, Residues 1836-2092
Length = 258
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 43/105 (40%), Gaps = 3/105 (2%)
Query: 82 EAPVISVAPHSSFSDALPVICIGAPSVVARGETASLPFVKRIIVKLWIC--KLGRAAYRA 139
+ V V H +F + I +T L F+K I +W +L + A
Sbjct: 25 DTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHL-FLKIIHTSVWAGQKRLSQLAKWK 83
Query: 140 GGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVR 184
+++++ ++E P +I LD V+ DFP+I +R
Sbjct: 84 TAEEVSALVRSLPKEEQPKQIIVTRKAXLDPLEVHXLDFPNIAIR 128
>pdb|2E4J|A Chain A, Solution Structure Of Mouse Lipocalin-Type Prostaglandin D
Synthase
pdb|2KTD|A Chain A, Solution Structure Of Mouse Lipocalin-Type Prostaglandin D
Synthase Substrate Analog (U-46619) Complex
Length = 167
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 127 LWICKLGRAAYRAGGMQITSIGVQASRQEAPILVIAP 163
L++CK A GG+ +TS ++ ++ E I+V+ P
Sbjct: 40 LYMCKTVVAPSTEGGLNLTSTFLRKNQAETKIMVLQP 76
>pdb|1L9G|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase From T.
Maritima
Length = 192
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 190 NP--WLG--KLINYTQPVYVWRDDPNSRQKTIQEIIDRAKS 226
NP WLG K+I P Y+ R+ N ++ + E I++AKS
Sbjct: 146 NPIDWLGGKKVIPTFHPSYLLRNRSNELRRIVLEDIEKAKS 186
>pdb|1VK2|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase (Tm0511) From
Thermotoga Maritima At 1.90 A Resolution
Length = 204
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 190 NP--WLG--KLINYTQPVYVWRDDPNSRQKTIQEIIDRAKS 226
NP WLG K+I P Y+ R+ N ++ + E I++AKS
Sbjct: 158 NPIDWLGGKKVIPTFHPSYLLRNRSNELRRIVLEDIEKAKS 198
>pdb|2CEO|A Chain A, Thyroxine-Binding Globulin Complex With Thyroxine
pdb|2CEO|B Chain B, Thyroxine-Binding Globulin Complex With Thyroxine
Length = 379
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 131 KLGRAAYRAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVTDFPSIIVRRESGLN 190
KL AA++A + I G +A+ L P +TFL I F +I+ R +
Sbjct: 309 KLSNAAHKAV-LHIGEKGTEAAAVPEVELSDQPENTFLHPIIQIDRSFMLLILERSTRSI 367
Query: 191 PWLGKLINYTQ 201
+LGK++N T+
Sbjct: 368 LFLGKVVNPTE 378
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
0.326 0.139 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,717,144
Number of Sequences: 62578
Number of extensions: 266967
Number of successful extensions: 596
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: 592
Number of HSP's gapped (non-prelim): 16
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)