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= psy17828
(1061 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
pdb|2O95|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
Length = 187
Score = 224 bits (572), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 103/124 (83%), Positives = 115/124 (92%), Gaps = 1/124 (0%)
Query: 650 DHFNRMSKIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENMY 709
DHFNR+ K+GNQKRVVGVLLG W+ K +LDVSNSFAVPFDEDDKD+SVWFLDHDYLENMY
Sbjct: 22 DHFNRIGKVGNQKRVVGVLLGSWQKK-VLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMY 80
Query: 710 GMFKKVNAREKVVGWYHTGPKLHQNDIQINELIRRYCTNSVLVIIDAKPKELGLPTEAYR 769
GMFKKVNARE++VGWYHTGPKLH+NDI INEL++RYC NSVLVIID KPK+LGLPTEAY
Sbjct: 81 GMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYI 140
Query: 770 VVDE 773
V+E
Sbjct: 141 SVEE 144
Score = 154 bits (389), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 72/100 (72%), Positives = 83/100 (83%)
Query: 858 AREKVVGWYHTGPKLHQNDIQINELIRRYCTNSVLVIIDAKPKELGLPTEAYRVVDEVHD 917
ARE++VGWYHTGPKLH+NDI INEL++RYC NSVLVIID KPK+LGLPTEAY V+EVHD
Sbjct: 88 ARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHD 147
Query: 918 DGSPTTKTFDHVPSEIXXXXXXXXXXXHLLRDIKDTTVGS 957
DG+PT+KTF+HV SEI HLLRDIKDTTVG+
Sbjct: 148 DGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIKDTTVGT 187
>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
pdb|2O96|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
Length = 178
Score = 224 bits (571), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 103/124 (83%), Positives = 115/124 (92%), Gaps = 1/124 (0%)
Query: 650 DHFNRMSKIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENMY 709
DHFNR+ K+GNQKRVVGVLLG W+ K +LDVSNSFAVPFDEDDKD+SVWFLDHDYLENMY
Sbjct: 22 DHFNRIGKVGNQKRVVGVLLGSWQKK-VLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMY 80
Query: 710 GMFKKVNAREKVVGWYHTGPKLHQNDIQINELIRRYCTNSVLVIIDAKPKELGLPTEAYR 769
GMFKKVNARE++VGWYHTGPKLH+NDI INEL++RYC NSVLVIID KPK+LGLPTEAY
Sbjct: 81 GMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYI 140
Query: 770 VVDE 773
V+E
Sbjct: 141 SVEE 144
Score = 138 bits (348), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 64/91 (70%), Positives = 74/91 (81%)
Query: 858 AREKVVGWYHTGPKLHQNDIQINELIRRYCTNSVLVIIDAKPKELGLPTEAYRVVDEVHD 917
ARE++VGWYHTGPKLH+NDI INEL++RYC NSVLVIID KPK+LGLPTEAY V+EVHD
Sbjct: 88 ARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYISVEEVHD 147
Query: 918 DGSPTTKTFDHVPSEIXXXXXXXXXXXHLLR 948
DG+PT+KTF+HV SEI HLLR
Sbjct: 148 DGTPTSKTFEHVTSEIGAEEAEEVGVEHLLR 178
>pdb|4B4T|U Chain U, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 338
Score = 138 bits (348), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 64/127 (50%), Positives = 96/127 (75%), Gaps = 3/127 (2%)
Query: 650 DHFNRMSKIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENMY 709
DH+ R ++ KR VGV+LG I V+NSFA+PF+ED+K++ VWFLDH+Y+ENM
Sbjct: 20 DHYER-TQTKENKRCVGVILGDANSSTIR-VTNSFALPFEEDEKNSDVWFLDHNYIENMN 77
Query: 710 GMFKKVNAREKVVGWYHTGPKLHQNDIQINELIRRYCTNS-VLVIIDAKPKELGLPTEAY 768
M KK+NA+EK++GWYH+GPKL +D++INEL ++Y N+ +L+I+D K + +GLPT+AY
Sbjct: 78 EMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQQGVGLPTDAY 137
Query: 769 RVVDEDK 775
+++ K
Sbjct: 138 VAIEQVK 144
Score = 129 bits (324), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 61/137 (44%), Positives = 92/137 (67%), Gaps = 1/137 (0%)
Query: 858 AREKVVGWYHTGPKLHQNDIQINELIRRYCTNS-VLVIIDAKPKELGLPTEAYRVVDEVH 916
A+EK++GWYH+GPKL +D++INEL ++Y N+ +L+I+D K + +GLPT+AY +++V
Sbjct: 85 AKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDVKQQGVGLPTDAYVAIEQVK 144
Query: 917 DDGSPTTKTFDHVPSEIXXXXXXXXXXXHLLRDIKDTTVGSLSQRVTNQLMGLKGLNQQI 976
DDG+ T KTF H+P I HLLRD++D G LS R+TNQL LKGL ++
Sbjct: 145 DDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRDQAAGGLSIRLTNQLKSLKGLQSKL 204
Query: 977 KEIEKYVGQVSRYWPPF 993
K++ +Y+ +V P
Sbjct: 205 KDVVEYLDKVINKELPI 221
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 29/41 (70%), Gaps = 2/41 (4%)
Query: 512 VVYLAAMIRSIIALHNLINNKITNRDAEKKEI--TKSKVED 550
V+Y++ ++RSIIA +LI NKI N+ +++ + +SKV D
Sbjct: 275 VIYISNLVRSIIAFDDLIENKIQNKKIQEQRVKDKQSKVSD 315
Score = 33.1 bits (74), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 20/27 (74%)
Query: 468 FQVVYLAAMIRSIIALHNLINNKITNR 494
V+Y++ ++RSIIA +LI NKI N+
Sbjct: 273 LMVIYISNLVRSIIAFDDLIENKIQNK 299
>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 306
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 66/146 (45%), Gaps = 11/146 (7%)
Query: 657 KIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENMYGMFKKVN 716
+ G V+G++LG + ++V + FA+P + SV +D + M M K+
Sbjct: 42 RAGVPMEVMGLMLGEFVDDYTVNVVDVFAMP--QSGTGVSVEAVDDVFQAKMMDMLKQTG 99
Query: 717 AREKVVGWYHTGPK----LHQNDIQINELIRRYCTNSVLVIIDAKPKELG-LPTEAYRVV 771
+ VVGWYH+ P L D+ + + + +V V++D G + +A+R++
Sbjct: 100 RDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLI 159
Query: 772 DEDKIRPEREPNPRPS----ANKAAI 793
D + EP S NKA I
Sbjct: 160 DTGALINNLEPRQTTSNTGLLNKANI 185
>pdb|4E0Q|A Chain A, Crystal Structure Of Mpn Domain From Cop9 Signalosome
pdb|4E0Q|B Chain B, Crystal Structure Of Mpn Domain From Cop9 Signalosome
Length = 141
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 49/94 (52%), Gaps = 5/94 (5%)
Query: 650 DHFNRM-SKIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENM 708
+H+ R ++ G ++V G L+G KG+ I ++ NSF + D D +V ++ DY
Sbjct: 20 EHWTRFRAQHGEPRQVYGALIGKQKGRNI-EIXNSFELKTDVI-GDETV--INKDYYNKK 75
Query: 709 YGMFKKVNAREKVVGWYHTGPKLHQNDIQINELI 742
+K+V + +GWY TG +DI+I I
Sbjct: 76 EQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQI 109
>pdb|4F7O|A Chain A, Crystal Structure Of Csn5
pdb|4F7O|B Chain B, Crystal Structure Of Csn5
Length = 257
Score = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 5/104 (4%)
Query: 656 SKIGNQKRVVGVLLGCWKGKGILDVSNSFAVPFDEDDKDNSVWFLDHDYLENMYGMFKKV 715
++ G V G+ LG G+ + + +SFA+P + + + ++Y K+V
Sbjct: 69 ARSGGNLEVXGLXLGKVDGETXI-IXDSFALPVEGTETRVNAQAAAYEYXAAYIENAKQV 127
Query: 716 NAREKVVGWYHTGPK----LHQNDIQINELIRRYCTNSVLVIID 755
E +GWYH+ P L D+ L +++ V V+ID
Sbjct: 128 GRLENAIGWYHSHPGYGCWLSGIDVSTQXLNQQFQEPFVAVVID 171
>pdb|3OF7|A Chain A, The Crystal Structure Of Prp20p From Saccharomyces
Cerevisiae And Its Binding Properties To Gsp1p And
Histones
Length = 473
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 388 LQDEGLLFLWVTGRAMELGRECLKLFMLQ 416
L +EG++F W G+ +LGR+ ++ F L+
Sbjct: 219 LDEEGMVFAWGNGQQNQLGRKVMERFRLK 247
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
0.319 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,564,467
Number of Sequences: 62578
Number of extensions: 1117404
Number of successful extensions: 2318
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2297
Number of HSP's gapped (non-prelim): 18
length of query: 1061
length of database: 14,973,337
effective HSP length: 109
effective length of query: 952
effective length of database: 8,152,335
effective search space: 7761022920
effective search space used: 7761022920
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)