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= psy8674
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 191 bits (485), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 96/187 (51%), Positives = 125/187 (66%), Gaps = 5/187 (2%)
Query: 2 LDKKLEDYIERFNGKVRLIRNTEREGLIRTRSRGAKESRGEVIVFLDAHCEVGLNWLPPL 61
L K LEDY+ F VR++R +REGLIRTR GA + G+VI FLD+HCE +NWLPPL
Sbjct: 159 LKKPLEDYMALFPS-VRILRTKKREGLIRTRMLGASVATGDVITFLDSHCEANVNWLPPL 217
Query: 62 LAPIYSDRKIMTVPVIDGIDYQTWEFRSVYEPDHHYRGIFEWGMLYKENELPEREAKKRK 121
L I +RK + P+ID ID+ +FR + RG F+W M YK +P K
Sbjct: 218 LDRIARNRKTIVCPMIDVIDHD--DFRYETQAGDAMRGAFDWEMYYKRIPIPPELQKADP 275
Query: 122 YNSEPYKSPTHAGGLFAMDRAFFLELGGYDPGLLVWGGENFELSFKIWMCGGSIEWVPCS 181
S+P++SP AGGLFA+DR +F ELGGYDPGL +WGGE +E+SFK+WMCGG +E +PCS
Sbjct: 276 --SDPFESPVMAGGLFAVDRKWFWELGGYDPGLEIWGGEQYEISFKVWMCGGRMEDIPCS 333
Query: 182 RIVSLIR 188
R+ + R
Sbjct: 334 RVGHIYR 340
Score = 184 bits (467), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 96/210 (45%), Positives = 133/210 (63%), Gaps = 5/210 (2%)
Query: 218 YHLPEAYRAAGDASLGEYGMNMETSNHISFDRTIPDLRMEECKYWDYPLDLPKASVILVF 277
Y + +A R D + E G N+ S+ IS +R++PD+R C Y LP S+I+ F
Sbjct: 63 YPMTDAERV--DQAYRENGFNIYVSDKISLNRSLPDIRHPNCNSKRYLETLPNTSIIIPF 120
Query: 278 HNEGFSSLMRTVHSIIKRTPAQYLEEIILVDDFSSKADLDQKLEDYIQRFNGKVRLIRNT 337
HNEG+SSL+RTVHS++ R+P + + EI+LVDDFS + L + LEDY+ F VR++R
Sbjct: 121 HNEGWSSLLRTVHSVLNRSPPELVAEIVLVDDFSDREHLKKPLEDYMALFPS-VRILRTK 179
Query: 338 EREGLIRTRSRGAKESRGEVIVFLDAHCEVGLNWLPPLLAPIYSDRKIMTVPVIDGIDYQ 397
+REGLIRTR GA + G+VI FLD+HCE +NWLPPLL I +RK + P+ID ID+
Sbjct: 180 KREGLIRTRMLGASVATGDVITFLDSHCEANVNWLPPLLDRIARNRKTIVCPMIDVIDHD 239
Query: 398 TWEFRSVYEPDHHYRGIFEWGMLYKENELP 427
+FR + RG F+W M YK +P
Sbjct: 240 --DFRYETQAGDAMRGAFDWEMYYKRIPIP 267
>pdb|1XHB|A Chain A, The Crystal Structure Of Udp-Galnac: Polypeptide Alpha-N-
Acetylgalactosaminyltransferase-T1
Length = 472
Score = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 91/198 (45%), Positives = 129/198 (65%), Gaps = 3/198 (1%)
Query: 241 TSNHISFDRTIPDLRMEECKYWDYPLDLPKASVILVFHNEGFSSLMRTVHSIIKRTPAQY 300
S I+ +R++PD+R+E CK YP +LP SV++VFHNE +S+L+RTVHS+I R+P
Sbjct: 1 ASEMIALNRSLPDVRLEGCKTKVYPDNLPTTSVVIVFHNEAWSTLLRTVHSVINRSPRHM 60
Query: 301 LEEIILVDDFSSKADLDQKLEDYIQRFNGKVRLIRNTEREGLIRTRSRGAKESRGEVIVF 360
+EEI+LVDD S + L + LE Y+++ V +IR +R GLIR R +GA SRG+VI F
Sbjct: 61 IEEIVLVDDASERDFLKRPLESYVKKLKVPVHVIRMEQRSGLIRARLKGAAVSRGQVITF 120
Query: 361 LDAHCEVGLNWLPPLLAPIYSDRKIMTVPVIDGIDYQTWEFRSVYEPDHHYRGIFEWGML 420
LDAHCE WL PLLA I DR+ + P+ID I T+E+ + D Y G F W +
Sbjct: 121 LDAHCECTAGWLEPLLARIKHDRRTVVCPIIDVISDDTFEYMA--GSDMTYGG-FNWKLN 177
Query: 421 YKENELPEREAKKRKYNR 438
++ +P+RE +RK +R
Sbjct: 178 FRWYPVPQREMDRRKGDR 195
Score = 174 bits (441), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 86/188 (45%), Positives = 122/188 (64%), Gaps = 4/188 (2%)
Query: 2 LDKKLEDYIERFNGKVRLIRNTEREGLIRTRSRGAKESRGEVIVFLDAHCEVGLNWLPPL 61
L + LE Y+++ V +IR +R GLIR R +GA SRG+VI FLDAHCE WL PL
Sbjct: 76 LKRPLESYVKKLKVPVHVIRMEQRSGLIRARLKGAAVSRGQVITFLDAHCECTAGWLEPL 135
Query: 62 LAPIYSDRKIMTVPVIDGIDYQTWEFRSVYEPDHHYRGIFEWGMLYKENELPEREAKKRK 121
LA I DR+ + P+ID I T+E+ + D Y G F W + ++ +P+RE +RK
Sbjct: 136 LARIKHDRRTVVCPIIDVISDDTFEYMA--GSDMTYGG-FNWKLNFRWYPVPQREMDRRK 192
Query: 122 YN-SEPYKSPTHAGGLFAMDRAFFLELGGYDPGLLVWGGENFELSFKIWMCGGSIEWVPC 180
+ + P ++PT AGGLF++DR +F E+G YD G+ +WGGEN E+SF+IW CGG++E V C
Sbjct: 193 GDRTLPVRTPTMAGGLFSIDRDYFQEIGTYDAGMDIWGGENLEISFRIWQCGGTLEIVTC 252
Query: 181 SRIVSLIR 188
S + + R
Sbjct: 253 SHVGHVFR 260
>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 = 158 bits (400), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 74/174 (42%), Positives = 112/174 (64%), Gaps = 4/174 (2%)
Query: 16 KVRLIRNTEREGLIRTRSRGAKESRGEVIVFLDAHCEVGLNWLPPLLAPIYSDRKIMTVP 75
KVR++RN REGL+R+R RGA ++ +V+ FLD+HCE +WL PLL + DR + P
Sbjct: 122 KVRVLRNDRREGLMRSRVRGADAAQAKVLTFLDSHCECNEHWLEPLLERVAEDRTRVVSP 181
Query: 76 VIDGIDYQTWEFRSVYEPDHHYRGIFEWGMLYKENELPEREAKKRKYNS-EPYKSPTHAG 134
+ID I+ +++ +G F+W +++K + + + + R+ N P K+P AG
Sbjct: 182 IIDVINMDNFQYVGA---SADLKGGFDWNLVFKWDYMTPEQRRSRQGNPVAPIKTPMIAG 238
Query: 135 GLFAMDRAFFLELGGYDPGLLVWGGENFELSFKIWMCGGSIEWVPCSRIVSLIR 188
GLF MD+ +F ELG YD + VWGGEN E+SF++W CGGS+E +PCSR+ + R
Sbjct: 239 GLFVMDKFYFEELGKYDMMMDVWGGENLEISFRVWQCGGSLEIIPCSRVGHVFR 292
Score = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 123/200 (61%), Gaps = 8/200 (4%)
Query: 238 NMETSNHISFDRTIPDLRMEECKYWDYPLDLPKASVILVFHNEGFSSLMRTVHSIIKRTP 297
N S+ + DR IPD R ++C+ + +DLP SV++ FHNE S+L+RTV S++K++P
Sbjct: 35 NQVESDKLRMDRAIPDTRHDQCQRKQWRVDLPATSVVITFHNEARSALLRTVVSVLKKSP 94
Query: 298 AQYLEEIILVDDFSSKADLDQKLEDYIQRFNGKVRLIRNTEREGLIRTRSRGAKESRGEV 357
++EIILVDD+S+ + D L I+ KVR++RN REGL+R+R RGA ++ +V
Sbjct: 95 PHLIKEIILVDDYSNDPE-DGALLGKIE----KVRVLRNDRREGLMRSRVRGADAAQAKV 149
Query: 358 IVFLDAHCEVGLNWLPPLLAPIYSDRKIMTVPVIDGIDYQTWEFRSVYEPDHHYRGIFEW 417
+ FLD+HCE +WL PLL + DR + P+ID I+ +++ +G F+W
Sbjct: 150 LTFLDSHCECNEHWLEPLLERVAEDRTRVVSPIIDVINMDNFQYVGA---SADLKGGFDW 206
Query: 418 GMLYKENELPEREAKKRKYN 437
+++K + + + + R+ N
Sbjct: 207 NLVFKWDYMTPEQRRSRQGN 226
>pdb|4ETQ|H Chain H, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
pdb|4ETQ|A Chain A, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
Length = 221
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 269 PKASVILVFHNEGFSSLMRTVHSIIKRTPAQYLEEIILVDDFSSKADLDQKLED 322
P ASV + G+S +H +K+ P Q LE I ++D S++ L+QK +D
Sbjct: 14 PGASVKISCKASGYSFNFYWMH-WVKQRPGQGLEWIGMIDPSESESRLNQKFKD 66
>pdb|4EBQ|H Chain H, Fab Structure Of Anti-Vaccinia Virus D8l Antigen Mouse
Igg2a La5
Length = 221
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 269 PKASVILVFHNEGFSSLMRTVHSIIKRTPAQYLEEIILVDDFSSKADLDQKLED 322
P ASV + G+S +H +K+ P Q LE I ++D S++ L+QK +D
Sbjct: 14 PGASVKISCKASGYSFNFYWMH-WVKQRPGQGLEWIGMIDPSESESRLNQKFKD 66
>pdb|2YNM|C Chain C, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
Length = 426
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 285 LMRTVHSIIKRTPAQYLEEIILVDDFSS---KADLDQKLEDYIQRFNGKVRLIRNTEREG 341
L R V S++KR P + + LV S K DL + E +FNG+VR++ N G
Sbjct: 88 LDRVVKSLLKRRPE--IRTLFLVGSCPSEVIKIDLSRAAERLSSQFNGQVRIL-NYSGSG 144
Query: 342 LIRTRSRG 349
+ T ++G
Sbjct: 145 IETTFTQG 152
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 0.141 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,102,859
Number of Sequences: 62578
Number of extensions: 604158
Number of successful extensions: 1114
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: 1096
Number of HSP's gapped (non-prelim): 14
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
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: 53 (25.0 bits)