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= 023365
(283 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TMP|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|C Chain C, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|E Chain E, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|G Chain G, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
Length = 184
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 41/88 (46%), Gaps = 11/88 (12%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + + DG CLFRA+A ++V ++ E+ +R +D L+K
Sbjct: 42 DKKGFIIKQMKEDGACLFRAVA--------DQVYGDQDMHEV---VRKHCMDYLMKNADY 90
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPEL 259
++ DF TY+ ++ G E+
Sbjct: 91 FSNYVTEDFTTYINRKRKNNCHGNHIEM 118
>pdb|3DU5|A Chain A, Structure Of The Catalytic Subunit Of Telomerase, Tert
pdb|3DU5|B Chain B, Structure Of The Catalytic Subunit Of Telomerase, Tert
pdb|3DU6|A Chain A, Structure Of The Catalytic Subunit Of Telomerase, Tert
pdb|3DU6|B Chain B, Structure Of The Catalytic Subunit Of Telomerase, Tert
pdb|3KYL|A Chain A, Structure Of The Catalytic Subunit Of Telomerase Bound To
Its Rna Template And Telomeric Dna
Length = 596
Score = 30.8 bits (68), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 100 NAASDERPARWLHRADSAWLLFGVCSCLAPIEYWTDSNDSNPETVTFYEEKI 151
N SD+ PAR+L +A +C+ E+ T ND FY+ I
Sbjct: 424 NQISDDNPARFLQKAMDFPF---ICNSFTKFEFNTVFNDQRTVFANFYDAMI 472
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 11/74 (14%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + DG CLFRA+A ++V ++ E+ +R D L K
Sbjct: 42 DKKGFIIKQXKEDGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADY 90
Query: 232 TEWFIEGDFDTYVK 245
++ DF TY+
Sbjct: 91 FSNYVTEDFTTYIN 104
>pdb|3C0R|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3C0R|C Chain C, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 11/94 (11%)
Query: 173 ERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKET 232
E V VL D CLF AIA+G + ++ R+L + + +V++ +K
Sbjct: 17 ENVLSVHPVLDDNSCLFHAIAYG--------IFKQDSVRDLREXVSKEVLNNPVKF---N 65
Query: 233 EWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVL 266
+ ++ Y + I + WGG E+ + S L
Sbjct: 66 DAILDKPNKDYAQWILKXESWGGAIEIGIISDAL 99
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 11/74 (14%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + DG CLFRA+A ++V ++ E+ +R D L K
Sbjct: 55 DKKGFIIKQXKEDGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADY 103
Query: 232 TEWFIEGDFDTYVK 245
++ DF TY+
Sbjct: 104 FSNYVTEDFTTYIN 117
>pdb|3IYN|O Chain O, 3.6-Angstrom Cryoem Structure Of Human Adenovirus Type 5
pdb|3IYN|P Chain P, 3.6-Angstrom Cryoem Structure Of Human Adenovirus Type 5
pdb|1VSZ|R Chain R, Crystal Structure Of Human Adenovirus At 3.5a
pdb|1VSZ|S Chain S, Crystal Structure Of Human Adenovirus At 3.5a
Length = 227
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 7/38 (18%)
Query: 245 KEIQQPYVWGGEPELLMASHVLKD---QINH----PHM 275
KEI PY+W +P++ +A+ +D +IN+ PHM
Sbjct: 3 KEIPTPYMWSYQPQMGLAAGAAQDYSTRINYMSAGPHM 40
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 13/95 (13%)
Query: 173 ERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKR-RKE 231
E V VL D CLF AIA+G +Q + D LR V E+L K
Sbjct: 17 ENVLSVHPVLDDNSCLFHAIAYGIF-----------KQDSVRD-LREMVSKEVLNNPVKF 64
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVL 266
+ ++ Y + I + WGG E+ + S L
Sbjct: 65 NDAILDKPNKDYAQWILKMESWGGAIEIGIISDAL 99
>pdb|2PRR|A Chain A, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|B Chain B, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|C Chain C, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|D Chain D, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|E Chain E, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|F Chain F, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|G Chain G, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|H Chain H, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|I Chain I, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|J Chain J, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|K Chain K, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
pdb|2PRR|L Chain L, Crystal Structure Of Alkylhydroperoxidase Ahpd Core:
Uncharacterized Peroxidase-Related Protein (Yp_296737.1)
From Ralstonia Eutropha Jmp134 At 2.15 A Resolution
Length = 197
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVP 205
ER V A +CL+ +AHGA LR E+ P
Sbjct: 72 GEREXIVVATSAANQCLYCVVAHGAILRIYEKKP 105
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
0.322 0.136 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,862,609
Number of Sequences: 62578
Number of extensions: 276078
Number of successful extensions: 494
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 492
Number of HSP's gapped (non-prelim): 11
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
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: 51 (24.3 bits)