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= psy16411
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XHB|A Chain A, The Crystal Structure Of Udp-Galnac: Polypeptide Alpha-N-
Acetylgalactosaminyltransferase-T1
Length = 472
Score = 125 bits (313), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 62/131 (47%), Positives = 74/131 (56%), Gaps = 28/131 (21%)
Query: 110 EVWQCGGILEIIPCSHVGHVFRDKSPYT----------------------------YLNP 141
+WQCGG LEI+ CSHVGHVFR +PYT Y+
Sbjct: 239 RIWQCGGTLEIVTCSHVGHVFRKATPYTFPGGTGQIINKNNRRLAEVWMDEFKNFFYIIS 298
Query: 142 LGAASVDVGDVSERKELRERLQCKSFRWYLENVYPESQMPLDYYYLGEVKNAETLNCLDT 201
G VD GD+S R LR +LQCK F WYLEN+YP+SQ+P Y+ LGE++N ET CLD
Sbjct: 299 PGVTKVDYGDISSRLGLRRKLQCKPFSWYLENIYPDSQIPRHYFSLGEIRNVETNQCLDN 358
Query: 202 MGRKTGEKVVI 212
M RK EKV I
Sbjct: 359 MARKENEKVGI 369
Score = 96.7 bits (239), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 38/61 (62%), Positives = 50/61 (81%)
Query: 1 VWQCGGILEIIPCSHVGHVFRDKSPYTFPGGVSKIVLHNAARVAEVWMDEWRDFYYAMNP 60
+WQCGG LEI+ CSHVGHVFR +PYTFPGG +I+ N R+AEVWMDE+++F+Y ++P
Sbjct: 240 IWQCGGTLEIVTCSHVGHVFRKATPYTFPGGTGQIINKNNRRLAEVWMDEFKNFFYIISP 299
Query: 61 G 61
G
Sbjct: 300 G 300
>pdb|2FFU|A Chain A, Crystal Structure Of Human Ppgalnact-2 Complexed With Udp
And Ea2
pdb|2FFV|A Chain A, Human Ppgalnact-2 Complexed With Manganese And Udp
pdb|2FFV|B Chain B, Human Ppgalnact-2 Complexed With Manganese And Udp
Length = 501
Score = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 63/155 (40%), Positives = 80/155 (51%), Gaps = 18/155 (11%)
Query: 49 DEWRDFYYAMNPGKSASVWMCGGVLEIATCSHVGHVFRKSTPYTFPGGTSNIVNHNNARL 108
D D + N S VW CGG LEI CS VGHVFRK PYTFPGG+ + N R
Sbjct: 255 DMMMDVWGGENLEISFRVWQCGGSLEIIPCSRVGHVFRKQHPYTFPGGSGTVFARNTRRA 314
Query: 109 AEVWQCGGILEIIPCSHVGHVFRDKSPYTYLNPLGAASVDVGDVSERKELRERLQCKSFR 168
AEVW + + Y A +V G++ R ELR++L CK F+
Sbjct: 315 AEVW-----------------MDEYKNFYYAAVPSARNVPYGNIQSRLELRKKLSCKPFK 357
Query: 169 WYLENVYPESQMPLDYYYLGEVKNAETLNCLDTMG 203
WYLENVYPE ++P D+ + + NCLDT+G
Sbjct: 358 WYLENVYPELRVP-DHQDIAFGALQQGTNCLDTLG 391
Score = 94.0 bits (232), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 40/60 (66%), Positives = 45/60 (75%)
Query: 1 VWQCGGILEIIPCSHVGHVFRDKSPYTFPGGVSKIVLHNAARVAEVWMDEWRDFYYAMNP 60
VWQCGG LEIIPCS VGHVFR + PYTFPGG + N R AEVWMDE+++FYYA P
Sbjct: 272 VWQCGGSLEIIPCSRVGHVFRKQHPYTFPGGSGTVFARNTRRAAEVWMDEYKNFYYAAVP 331
>pdb|2D7I|A Chain A, Crsytal Structure Of Pp-Galnac-T10 With Udp, Galnac And
Mn2+
pdb|2D7R|A Chain A, Crystal Structure Of Pp-galnac-t10 Complexed With
Galnac-ser On Lectin Domain
Length = 570
Score = 83.6 bits (205), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 52/159 (32%), Positives = 78/159 (49%), Gaps = 28/159 (17%)
Query: 63 SASVWMCGGVLEIATCSHVGHVFRKSTPYTFPGGTSNIVNHNNARLAEVWQCGGILEIIP 122
S VWMCGG +E CS VGH++RK PY P G S + N R+AEVW
Sbjct: 317 SFKVWMCGGRMEDIPCSRVGHIYRKYVPYKVPAGVS--LARNLKRVAEVWM--------- 365
Query: 123 CSHVGHVFRDKSPYTYLNPLGAASVDVGDVSERKELRERLQCKSFRWYLENV-------Y 175
+ ++++ + Y +L+ GDV+ +K+LR L CKSF+W++ + Y
Sbjct: 366 DEYAEYIYQRRPEYRHLS--------AGDVAVQKKLRSSLNCKSFKWFMTKIAWDLPKFY 417
Query: 176 PESQMPLDYYYLGEVKNAETLNCLDTMGRKTGEKVVIPG 214
P + P + GE++N T C DT G + + G
Sbjct: 418 PPVEPPAAAW--GEIRNVGTGLCADTKHGALGSPLRLEG 454
Score = 70.5 bits (171), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 32/60 (53%), Positives = 39/60 (65%), Gaps = 2/60 (3%)
Query: 1 VWQCGGILEIIPCSHVGHVFRDKSPYTFPGGVSKIVLHNAARVAEVWMDEWRDFYYAMNP 60
VW CGG +E IPCS VGH++R PY P GVS + N RVAEVWMDE+ ++ Y P
Sbjct: 320 VWMCGGRMEDIPCSRVGHIYRKYVPYKVPAGVS--LARNLKRVAEVWMDEYAEYIYQRRP 377
>pdb|4HY3|A Chain A, Crystal Structure Of A Phosphoglycerate Oxidoreductase
From Rhizobium Etli
pdb|4HY3|B Chain B, Crystal Structure Of A Phosphoglycerate Oxidoreductase
From Rhizobium Etli
pdb|4HY3|C Chain C, Crystal Structure Of A Phosphoglycerate Oxidoreductase
From Rhizobium Etli
pdb|4HY3|D Chain D, Crystal Structure Of A Phosphoglycerate Oxidoreductase
From Rhizobium Etli
Length = 365
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 173 NVYPESQMPLDY---YYLGEVKNAETLNCLDTMGRKTGEKVV 211
+VYPE +PLD+ G +++A LD+ +K G+ V+
Sbjct: 290 DVYPEEPLPLDHPVRSLKGFIRSAHRAGALDSAFKKXGDXVL 331
>pdb|3T61|A Chain A, Crystal Structure Of A Gluconokinase From Sinorhizobium
Meliloti 1021
pdb|3T61|B Chain B, Crystal Structure Of A Gluconokinase From Sinorhizobium
Meliloti 1021
Length = 202
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 10 IIPCSHVGHVFRDKSPYTFPGGVSKIVLHNAARV 43
++ CS + +RDK + PGG++ + LH + V
Sbjct: 90 VVSCSALKRSYRDKLRESAPGGLAFVFLHGSESV 123
>pdb|2LL3|A Chain A, The Solution Structure Of Tgmic4 Apple-5 Domain
pdb|2LL4|M Chain M, Haddock Structure Of Tgmic4-A5LACTO-N-Biose Complex, Based
On Noe- Derived Distance Restraints
Length = 82
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 130 FRDKSPYTYLNPLGAASVDVGDVSERKELRE-RLQCKSFR---WYLENV-----YPESQM 180
F D+ + +G+ + +G+V L E R +C++ + Y NV YP+
Sbjct: 4 FHDEVECVHTGNIGSKAQTIGEVKRASSLSECRARCQAEKECSHYTYNVKSGLCYPKRGK 63
Query: 181 PLDYYYLGEVKNAETLN 197
P Y YLG++ + T +
Sbjct: 64 PQFYKYLGDMTGSRTCD 80
>pdb|1I5E|A Chain A, Crystal Structure Of Bacillus Caldolyticus Uracil
Phosphoribosyltransferase With Bound Ump
pdb|1I5E|B Chain B, Crystal Structure Of Bacillus Caldolyticus Uracil
Phosphoribosyltransferase With Bound Ump
Length = 209
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 109 AEVWQCGGILEIIPCSHVGHVFRDKSPYTYLNPLGAASVDVGDVSER 155
A + GIL++IP + VGH+ + P T L P+ DV ER
Sbjct: 80 AGIGMVDGILKLIPAAKVGHIGLYRDPQT-LKPVEYYVKLPSDVEER 125
>pdb|1NXC|A Chain A, Structure Of Mouse Golgi Alpha-1,2-Mannosidase Ia Reveals
The Molecular Basis For Substrate Specificity Among
Class I Enzymes (Family 47 Glycosidases)
Length = 478
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 11/80 (13%)
Query: 138 YLNPLGAASVDVGDVS---ERKELRERL-----QCKSFRWYLENVYPESQMPLDYYYLGE 189
+L P+G + + D + +R +++E + K + W L + P S+ G
Sbjct: 1 FLPPVGVENREPADATIREKRAKIKEMMTHAWNNYKRYAWGLNELKPISKEGHSSSLFGN 60
Query: 190 VKNAETLNCLDT---MGRKT 206
+K A ++ LDT MG KT
Sbjct: 61 IKGATIVDALDTLFIMGMKT 80
>pdb|3ZS6|A Chain A, The Structural Characterization Of Burkholderia
Pseudomallei Oppa
Length = 506
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 6/43 (13%)
Query: 136 YTYLNPLGAASVDVGDVSER--KELRERLQCKSFRWYLENVYP 176
YTY P G G +S++ KELR LQ ++ +YL+N P
Sbjct: 233 YTYSIPAGG----FGQISKQFGKELRPGLQLATYYYYLKNSDP 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
0.321 0.138 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,317,881
Number of Sequences: 62578
Number of extensions: 302859
Number of successful extensions: 677
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 661
Number of HSP's gapped (non-prelim): 14
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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: 49 (23.5 bits)