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= psy9642
(437 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|S Chain S, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 523
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 27/125 (21%), Positives = 59/125 (47%), Gaps = 9/125 (7%)
Query: 264 PYLDLVSVYTNNNSTELQHLLLKYADVFSRDENTGLTKQIVASLYKNNIKRLTKTFLTLS 323
PY L + + + KY + +D+ L ++ +++ K I+ ++ T+ +S
Sbjct: 344 PYYHLTKAVKLGDLKKFTSTITKYKQLLLKDDTYQLCVRLRSNVIKTGIRIISLTYKKIS 403
Query: 324 LADVASRVQLGTPVQAEIYILKMISQNEIYATINKKDGMV-------VFN-DNPQR-FNN 374
L D+ ++ L + E + + I I A IN +DG + +++ ++PQ+ F+
Sbjct: 404 LRDICLKLNLDSEQTVEYMVSRAIRDGVIEAKINHEDGFIETTELLNIYDSEDPQQVFDE 463
Query: 375 PLTFA 379
+ FA
Sbjct: 464 RIKFA 468
>pdb|2R5J|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
Length = 423
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 15/95 (15%)
Query: 245 NLPKNVSQAICRY---IKPLSQPYLDLVSVYTNNNSTELQHLLLKYADVFSRDENTGLTK 301
++P ++ +IC+Y +K +S+PY D++ Y ++HL F+R G T
Sbjct: 200 DVPLDICSSICKYPDYLKMVSEPYGDMLFFYLRREQMFVRHL-------FNRAGTVGET- 251
Query: 302 QIVASLY-KNNIKRLTKT--FLTLSLADVASRVQL 333
+ A LY K L T F T S + V S Q+
Sbjct: 252 -VPADLYIKGTTGTLPSTSYFPTPSGSMVTSDAQI 285
>pdb|2IG6|A Chain A, Crystal Structure Of A Nimc/nima Family Protein (ca_c2569)
From Clostridium Acetobutylicum At 1.80 A Resolution
pdb|2IG6|B Chain B, Crystal Structure Of A Nimc/nima Family Protein (ca_c2569)
From Clostridium Acetobutylicum At 1.80 A Resolution
Length = 150
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 5/76 (6%)
Query: 155 LLAQNFKPALEFL-DVDITTIA-NEGPQFDTKYFLQYFYYGGMIYLALKNYERALYFFEV 212
L Q K ALEFL + + +A NEG Q + F F Y G +Y+ N ++ F+
Sbjct: 15 LYFQGXKRALEFLKECGVFYLATNEGDQPRVRPFGAVFEYEGKLYIVSNNTKKC---FKQ 71
Query: 213 IITTPALAVSHIMLEG 228
I P + +S +G
Sbjct: 72 XIQNPKVEISGXNKKG 87
>pdb|3LHK|A Chain A, Crystal Structure Of Putative Dna Binding Protein From
Methanocaldococcus Jannaschii.
pdb|3LHK|B Chain B, Crystal Structure Of Putative Dna Binding Protein From
Methanocaldococcus Jannaschii.
pdb|3LHK|C Chain C, Crystal Structure Of Putative Dna Binding Protein From
Methanocaldococcus Jannaschii.
pdb|3LHK|D Chain D, Crystal Structure Of Putative Dna Binding Protein From
Methanocaldococcus Jannaschii
Length = 154
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 51/122 (41%), Gaps = 24/122 (19%)
Query: 1 MATALEQFVNNVRQLSAQGSFRELTEIIQKSMDVLTKYGQHLDNVLETLETFQHSLGILA 60
+ + L + N ++L R++ ++I D LT++G ETL+ F S G
Sbjct: 44 IGSGLNEKRKNYKKLLKXVXNRKVEKVIIAYPDRLTRFG------FETLKEFFKSYGTEI 97
Query: 61 ILSAKLTLLSSSNTGSEYQEELFSQIQEFLNMCNPDQIRHAGDLYAELSHQY---TKTVM 117
++ K E E+L + + F AG LY SH+Y TKTV
Sbjct: 98 VIINK----KHKTPQEELVEDLITIVSHF-----------AGKLYGXHSHKYKKLTKTVK 142
Query: 118 DL 119
++
Sbjct: 143 EI 144
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
0.318 0.133 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,729,486
Number of Sequences: 62578
Number of extensions: 460016
Number of successful extensions: 1235
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1234
Number of HSP's gapped (non-prelim): 12
length of query: 437
length of database: 14,973,337
effective HSP length: 102
effective length of query: 335
effective length of database: 8,590,381
effective search space: 2877777635
effective search space used: 2877777635
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)