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= psy4083
(374 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TXM|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Gd(3+) Complex
pdb|3TXN|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Native Data
Length = 394
Score = 434 bits (1116), Expect = e-122, Method: Compositional matrix adjust.
Identities = 228/386 (59%), Positives = 256/386 (66%), Gaps = 39/386 (10%)
Query: 28 ENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFF 87
EN +E ++ KEQ ILQ GE YKQEGKA ELA+LIK TRPFLS ISKAKAAKLVRSLVD F
Sbjct: 9 ENDEERIRIKEQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMF 68
Query: 88 LDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEAXXXXXXXXXX 147
LD++ TG+EV LCK+CIEWAK+E+RTFLRQSLEARLIALYFDT YTEA
Sbjct: 69 LDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQSLEARLIALYFDTALYTEALALGAQLLRE 128
Query: 148 XXXXXXXXXXXXXXXXXXXTYHXXXXXXXXXXXXXXXXXXXXXIYCPPKMQAALDLQSGI 207
TYH IYCPPK+Q ALDLQSGI
Sbjct: 129 LKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALDLQSGI 188
Query: 208 LHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILS---- 263
LHAADE+DFKTAFSYFYEAFEGF +VD A+ SLKYMLL KIML +DVNQ++S
Sbjct: 189 LHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIMLGQSDDVNQLVSGKLA 248
Query: 264 -----------------------------------ELEDDTIVKAHIGTLYDNMLEQNLC 288
EL +D IV+AH+GTLYD MLEQNLC
Sbjct: 249 ITYSGRDIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLC 308
Query: 289 RIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKT 348
RIIEPYSRV+V +A+SI+L VEKKLSQMILDKKF GILDQGE VLIVFE +DKT
Sbjct: 309 RIIEPYSRVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGEGVLIVFEETPVDKT 368
Query: 349 YEKALETITSMGKVIDTLYQKAKKLT 374
YE+ LETI SMGKV+DTLYQKAKKL+
Sbjct: 369 YERVLETIQSMGKVVDTLYQKAKKLS 394
>pdb|4B4T|Q Chain Q, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 216 bits (551), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 133/387 (34%), Positives = 191/387 (49%), Gaps = 45/387 (11%)
Query: 31 DEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDL 90
D+ +E +IL+LG+ Y G +L E I + ++ Q +K+K K++++L++ F +
Sbjct: 48 DKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQV 107
Query: 91 ETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEAXXXXXXXXXXXXX 150
++ +C++ IE+AK E+R FL+ SL +L L++ +Y ++
Sbjct: 108 PDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKK 167
Query: 151 XXXXXXXXXXXXXXXXTYHXXXXXXXXXXXXXXXXXXXXXIYCPPKMQAALDLQSGILHA 210
YH IYCP + A LDL SGILH
Sbjct: 168 LDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHC 227
Query: 211 ADEQDFKTAFSYFYEAFEGFSTV-DHNH---AMMSLKYMLLSKIMLNTPEDVNQILS--- 263
D +D+KTAFSYF+E+FE + + HN A LKYMLLSKIMLN +DV IL+
Sbjct: 228 ED-KDYKTAFSYFFESFESYHNLTTHNSYEKACQVLKYMLLSKIMLNLIDDVKNILNAKY 286
Query: 264 -------------------------------------ELEDDTIVKAHIGTLYDNMLEQN 286
EL D + ++H LYD +LE N
Sbjct: 287 TKETYQSRGIDAMKAVAEAYNNRSLLDFNTALKQYEKELMGDELTRSHFNALYDTLLESN 346
Query: 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEID 346
LC+IIEP+ VE+ I+K I LD VE KLSQMILDK F+G+LDQG L V+E D
Sbjct: 347 LCKIIEPFECVEISHISKIIGLDTQQVEGKLSQMILDKIFYGVLDQGNGWLYVYETPNQD 406
Query: 347 KTYEKALETITSMGKVIDTLYQKAKKL 373
TY+ ALE + + KV+D L++KA L
Sbjct: 407 ATYDSALELVGQLNKVVDQLFEKASVL 433
>pdb|2OKC|A Chain A, Crystal Structure Of Type I Restriction Enzyme Stysji M
Protein (np_813429.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.20 A Resolution
pdb|2OKC|B Chain B, Crystal Structure Of Type I Restriction Enzyme Stysji M
Protein (np_813429.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.20 A Resolution
Length = 445
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 337 LIVFEGAEIDKTYEKALETITSMGKVIDTLYQKAKK 372
LI F+G ++ K YE+ L+ ++ + +I T+Y KA+
Sbjct: 68 LIAFDGLDLVKQYEETLKLLSELDNLIGTIYTKAQN 103
>pdb|2XQ0|A Chain A, Structure Of Yeast Lta4 Hydrolase In Complex With Bestatin
Length = 632
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 21 YKTGYEEENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLV 80
YK G H + A N+ QL +K+ +E+A+ +K T F S+ +
Sbjct: 456 YKPGMPPRPH--FITALADNVYQLADKW------VEMAQHLKTTEDFRSEFNAIDIKDFN 507
Query: 81 RSLVDFFLDLETRTGMEVALCKECIEWAK 109
+ + FL+ T+ G K+ +WAK
Sbjct: 508 SNQLVLFLETLTQNGHSNKKPKD-FDWAK 535
>pdb|2XPY|A Chain A, Structure Of Native Leukotriene A4 Hydrolase From
Saccharomyces Cerevisiae
pdb|2XPZ|A Chain A, Structure Of Native Yeast Lta4 Hydrolase
Length = 632
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 21 YKTGYEEENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLV 80
YK G H + A N+ QL +K+ +E+A+ +K T F S+ +
Sbjct: 456 YKPGMPPRPH--FITALADNVYQLADKW------VEMAQHLKTTEDFRSEFNAIDIKDFN 507
Query: 81 RSLVDFFLDLETRTGMEVALCKECIEWAK 109
+ + FL+ T+ G K+ +WAK
Sbjct: 508 SNQLVLFLETLTQNGHSNKKPKD-FDWAK 535
>pdb|1Q7X|A Chain A, Solution Structure Of The Alternatively Spliced Pdz2
Domain (Pdz2b) Of Ptp-Bas (Hptp1e)
Length = 108
Score = 28.5 bits (62), Expect = 7.0, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 8/51 (15%)
Query: 328 GILDQGEKVLIV----FEGAEIDKTYEKALETITSMGKVIDTLYQKAKKLT 374
G + +G++VL V EGA T+++A+ET+ + G+V+ L +K + T
Sbjct: 59 GRIHKGDRVLAVNGVSLEGA----THKQAVETLRNTGQVVHLLLEKGQSPT 105
>pdb|1D5G|A Chain A, Solution Structure Of The Pdz2 Domain From Human
Phosphatase Hptp1e Complexed With A Peptide
Length = 96
Score = 28.5 bits (62), Expect = 7.0, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 8/51 (15%)
Query: 328 GILDQGEKVLIV----FEGAEIDKTYEKALETITSMGKVIDTLYQKAKKLT 374
G + +G++VL V EGA T+++A+ET+ + G+V+ L +K + T
Sbjct: 50 GRIHKGDRVLAVNGVSLEGA----THKQAVETLRNTGQVVHLLLEKGQSPT 96
>pdb|3PDZ|A Chain A, Solution Structure Of The Pdz2 Domain From Human
Phosphatase Hptp1e
pdb|3LNX|A Chain A, Second Pdz Domain From Human Ptp1e
pdb|3LNX|B Chain B, Second Pdz Domain From Human Ptp1e
pdb|3LNX|C Chain C, Second Pdz Domain From Human Ptp1e
pdb|3LNX|D Chain D, Second Pdz Domain From Human Ptp1e
pdb|3LNX|E Chain E, Second Pdz Domain From Human Ptp1e
pdb|3LNX|F Chain F, Second Pdz Domain From Human Ptp1e
pdb|3LNY|A Chain A, Second Pdz Domain From Human Ptp1e In Complex With Ra-Gef2
Peptide
Length = 96
Score = 28.5 bits (62), Expect = 7.0, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 8/51 (15%)
Query: 328 GILDQGEKVLIV----FEGAEIDKTYEKALETITSMGKVIDTLYQKAKKLT 374
G + +G++VL V EGA T+++A+ET+ + G+V+ L +K + T
Sbjct: 50 GRIHKGDRVLAVNGVSLEGA----THKQAVETLRNTGQVVHLLLEKGQSPT 96
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
0.317 0.133 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,496,766
Number of Sequences: 62578
Number of extensions: 295579
Number of successful extensions: 1066
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1047
Number of HSP's gapped (non-prelim): 19
length of query: 374
length of database: 14,973,337
effective HSP length: 100
effective length of query: 274
effective length of database: 8,715,537
effective search space: 2388057138
effective search space used: 2388057138
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: 52 (24.6 bits)