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= psy17021
(199 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4
Photoproduct Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 876 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 934
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 935 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 994
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 876 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 918
>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
Length = 1159
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 935
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 936 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 995
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 919
>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 935
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 936 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 995
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 919
>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|C Chain C, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
Length = 1159
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 935
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 936 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 995
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 919
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 858 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 916
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 917 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 976
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 858 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 900
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
Length = 1150
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 868 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 926
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 927 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 986
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 868 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 910
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 935
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 936 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 995
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 919
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K LR E H N++ + +++
Sbjct: 862 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR-TECNHYNNIMALYLKT 920
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 921 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 980
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 1 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLR 43
++ V + V Y+M F G LL + +RLY+ +K LR
Sbjct: 862 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELR 904
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K +R E H N++ + +++
Sbjct: 876 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVR-TECNHYNNIMALYLKT 934
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 935 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 994
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
Length = 1143
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K +R E H N++ + +++
Sbjct: 861 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVR-TECNHYNNIMALYLKT 919
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 920 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 979
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 58/120 (48%), Gaps = 2/120 (1%)
Query: 75 MEFVHKTSVDEVPYAMCPFQGALLVGVGRYLRLYDLGKKKLLRKCENKHLPNLI-VKIES 133
++ V + V Y+M F G LL + +RLY+ +K +R E H N++ + +++
Sbjct: 858 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVR-TECNHYNNIMALYLKT 916
Query: 134 MGHRIYVSDVQESVFLVRYKRYENQLLIFADDTQPRWITTSCVLDYNTVASADKFGNVCI 193
G I V D+ SV L+ YK E A D P W++ +LD + A+ N+ +
Sbjct: 917 KGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFV 976
>pdb|3FFZ|A Chain A, Domain Organization In Clostridium Butulinum Neurotoxin
Type E Is Unique: Its Implication In Faster
Translocation
pdb|3FFZ|B Chain B, Domain Organization In Clostridium Butulinum Neurotoxin
Type E Is Unique: Its Implication In Faster
Translocation
Length = 1252
Score = 26.9 bits (58), Expect = 7.1, Method: Composition-based stats.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 39 KKLLRKCENKVRIKGFRKA 57
KK++R C+N V +KG RK+
Sbjct: 406 KKIIRFCKNIVSVKGIRKS 424
>pdb|3EWC|A Chain A, Crystal Structure Of Adenosine Deaminase From Plasmodial
Vivax In Complex With Mt-Coformycin
Length = 371
Score = 26.6 bits (57), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 8/43 (18%)
Query: 120 ENKHLPNL--------IVKIESMGHRIYVSDVQESVFLVRYKR 154
E+ LPNL ++K+E +GH I V++ QE + +V+ K
Sbjct: 229 EDVTLPNLNTLYSAIQVLKVERIGHGIRVAESQELIDMVKEKN 271
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
0.324 0.140 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,793,959
Number of Sequences: 62578
Number of extensions: 222016
Number of successful extensions: 623
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 599
Number of HSP's gapped (non-prelim): 26
length of query: 199
length of database: 14,973,337
effective HSP length: 94
effective length of query: 105
effective length of database: 9,091,005
effective search space: 954555525
effective search space used: 954555525
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 49 (23.5 bits)