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= 002870
(872 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 945
Score = 70.5 bits (171), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 97/425 (22%), Positives = 183/425 (43%), Gaps = 36/425 (8%)
Query: 369 AATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDS 428
A + N F++AG +D S ++ WL K + K +A ASLG+I ++
Sbjct: 331 AVSVANGFMHAG---------TTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLE 381
Query: 429 GLAQIDKYF---HSTDNHVIAGALLGVGIVNCGIRNDCDPALALL----SEYVGREDACI 481
G + Y ++ + G+L G+G++ G D L + S G ED +
Sbjct: 382 GKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDV 441
Query: 482 RI-GAIMGLGISYAGTQNDQIRHKLSTIL-NDAKSPLDVIAFSAISLGLIYVGSCNEEVA 539
+ GA +G+G++ G+ N ++ L +L ND+ + + +A+ +GL +G+ E
Sbjct: 442 LLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEA---AALGMGLCMLGTGKPEA- 497
Query: 540 QAIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDMTL 599
I + S+ +QE + +E + +Y
Sbjct: 498 ---IHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFT 554
Query: 600 LSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHL 659
++ AYAGTGN V+ LL H A + + AV+ + V + + + R ++ L
Sbjct: 555 IALAYAGTGNNSAVKRLL-HVAVSDSNDDVRRA-AVIALGFVLLRDYTTVP---RIVQLL 609
Query: 660 LQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLI---GSG 716
+ ++R ALG+ C + +D L L+ D V AA+I+L +I +
Sbjct: 610 SKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALSMILIQQTE 669
Query: 717 TNNARIAGMLRNLSSYY---YKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTA 773
N ++A + +N S +++ F +AQG+++ G +T+ ++D L +
Sbjct: 670 KLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGGRNVTIQLENADTGTLDTKS 729
Query: 774 LAGIV 778
+ G+V
Sbjct: 730 VVGLV 734
>pdb|4ADY|A Chain A, Crystal Structure Of 26s Proteasome Subunit Rpn2
pdb|4ADY|B Chain B, Crystal Structure Of 26s Proteasome Subunit Rpn2
Length = 963
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 95/424 (22%), Positives = 172/424 (40%), Gaps = 34/424 (8%)
Query: 369 AATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDS 428
A + N F +AG +D S ++ WL K + K +A ASLG+I ++
Sbjct: 342 AVSVANGFXHAG---------TTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLE 392
Query: 429 GLAQIDKYF---HSTDNHVIAGALLGVGIVNCGIRNDCDPALALL----SEYVGREDACI 481
G Y ++ + G+L G+G++ G D L + S G ED +
Sbjct: 393 GKKVXAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDV 452
Query: 482 RI-GAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQ 540
+ GA +G+G++ G+ N ++ L +L + + A L + G +
Sbjct: 453 LLHGASLGIGLAAXGSANIEVYEALKEVLYNDSATSGEAAALGXGLCXLGTGK-----PE 507
Query: 541 AIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDMTLL 600
AI E++ G +QE + +E + +Y +
Sbjct: 508 AIHDXFTYSQETQHGN-ITRGLAVGLALINYGRQELADDLITKXLASDESLLRYGGAFTI 566
Query: 601 SCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLL 660
+ AYAGTGN V+ LL H A + + AV+ + V + + + R ++ L
Sbjct: 567 ALAYAGTGNNSAVKRLL-HVAVSDSNDDVRRA-AVIALGFVLLRDYTTVP---RIVQLLS 621
Query: 661 QYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLI---GSGT 717
+ ++R ALG+ C + +D L L+ D V AA I+L I +
Sbjct: 622 KSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAXIALSXILIQQTEK 681
Query: 718 NNARIAGMLRNLSSYY---YKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTAL 774
N ++A + +N S +++ F +AQG+ + G +T+ ++D L ++
Sbjct: 682 LNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIXNAGGRNVTIQLENADTGTLDTKSV 741
Query: 775 AGIV 778
G+V
Sbjct: 742 VGLV 745
>pdb|1WN7|A Chain A, Crystal Structure Of Archaeal Family B Dna Polymerase
Mutant
Length = 774
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 51/120 (42%), Gaps = 19/120 (15%)
Query: 95 YGTLKAYYETMPDSD---LKKYMADILSVL------ALTMSAEGERE------SLKYRLL 139
Y ++ T+P +D +KK + L + AL + EG E KY ++
Sbjct: 538 YSDTDGFFATIPGADAETVKKKAMEFLKYINAKLPGALELEYEGFYERGFFVTKKKYAVI 597
Query: 140 GSEGDIGSWGHEYVRNLAGEIAQEYAKRQTD----EASIDDLMELVQEIVAFHMKHNAEP 195
EG I + G E VR EIA+E R + + ++ + +V+E+ K+ P
Sbjct: 598 DEEGKITTRGLEIVRRDWSEIAKETQARVLEALLKDGDVEKAVRIVKEVTEKLSKYEVPP 657
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 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,781,931
Number of Sequences: 62578
Number of extensions: 806744
Number of successful extensions: 1833
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1818
Number of HSP's gapped (non-prelim): 18
length of query: 872
length of database: 14,973,337
effective HSP length: 107
effective length of query: 765
effective length of database: 8,277,491
effective search space: 6332280615
effective search space used: 6332280615
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)