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= 000660
(1367 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 48/180 (26%), Positives = 80/180 (44%), Gaps = 27/180 (15%)
Query: 298 LLVLDDVWNRNYDDWVQLRRPFEVGAPGSKIIVTTRNQEVAE-IMGTVPSY------QLK 350
LL+LDDVW D WV + +I++TTR++ V + +MG P Y L
Sbjct: 239 LLILDDVW----DSWV-----LKAFDSQCQILLTTRDKSVTDSVMG--PKYVVPVESSLG 287
Query: 351 KLSDNDCLAVFAQHSLGSHKLLEEIGKKIVTKCDGLPLAAQTLGGLLRGKHDRREWE-RV 409
K + L++F L E I+ +C G PL +G LLR +R E+ +
Sbjct: 288 KEKGLEILSLFVNMKKAD---LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQ 344
Query: 410 LCSKIWELSEKRC-----GIIPALAVSYYYLPPTLKQCFAYCSLFPKDYEFEEEEIILLW 464
L +K ++ K + A+++S L +K + S+ KD + + + +LW
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 404
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 44.7 bits (104), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 51/188 (27%), Positives = 82/188 (43%), Gaps = 43/188 (22%)
Query: 298 LLVLDDVWNRNYDDWVQLRRPFEVGAPGSKIIVTTRNQEVAE-IMGTVPSYQLKKLSDND 356
LL+LDDVW D WV + F+ +I++TTR++ V + +MG P Y
Sbjct: 245 LLILDDVW----DSWV--LKAFD---SQCQILLTTRDKSVTDSVMG--PKY--------- 284
Query: 357 CLAVFAQHSLGSHKLLE--------------EIGKKIVTKCDGLPLAAQTLGGLLRGKHD 402
V + SLG K LE E I+ +C G PL +G LLR +
Sbjct: 285 --VVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPN 342
Query: 403 RREWE-RVLCSKIWELSEKRC-----GIIPALAVSYYYLPPTLKQCFAYCSLFPKDYEFE 456
R E+ + L +K ++ K + A+++S L +K + S+ KD +
Sbjct: 343 RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVP 402
Query: 457 EEEIILLW 464
+ + +LW
Sbjct: 403 TKVLCILW 410
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 50/164 (30%), Positives = 76/164 (46%), Gaps = 21/164 (12%)
Query: 1034 LEGLHISECPSLTCIFSKNELPATLESLEVGNLPPSLKSLEVLSC--SKLESIAERLDNN 1091
L L I CP LT ELP L S + L +L+ L + + S+ + N
Sbjct: 152 LRELSIRACPELT------ELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANL 205
Query: 1092 TSLEIIRIDFCKNLKILPSGLHNLRQLQEIEIWECKNLVSFPE---GGLPCAKLIKFNIS 1148
+L+ ++I L L +H+L +L+E+++ C L ++P G P +LI +
Sbjct: 206 QNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI---LK 261
Query: 1149 WCKGLEALPKGLHNLTSLQELTIGRGV----ELPSLEEDGLPTN 1188
C L LP +H LT L++L + RG LPSL LP N
Sbjct: 262 DCSNLLTLPLDIHRLTQLEKLDL-RGCVNLSRLPSLIAQ-LPAN 303
Score = 35.4 bits (80), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 78/173 (45%), Gaps = 24/173 (13%)
Query: 745 VEGFPKLRELHILKCSKLKGTFPEHLPALEMLVIEGCEELLVSVSSLPALCKLEIGGCKK 804
+ +LREL I C +L PE L + + G + LV++ SL +LE G +
Sbjct: 146 IASLNRLRELSIRACPELT-ELPEPLASTDA---SGEHQGLVNLQSL----RLEWTGIRS 197
Query: 805 VVWESATGHLGSQNSVVCRDASNQVFLVGPLKPQLQKLEELILSTKEQTYIWKSHDGLLQ 864
+ ++ +L + S+ R++ + +GP L KLEEL L +++ +
Sbjct: 198 L--PASIANLQNLKSLKIRNSP--LSALGPAIHHLPKLEELDL---RGCTALRNYPPIFG 250
Query: 865 DICSLKRLTIGSCPKLQSLVAEEEKDQQQQLCELSCRLEYIELRDCQDLVKLP 917
LKRL + C L +L + + Q LE ++LR C +L +LP
Sbjct: 251 GRAPLKRLILKDCSNLLTLPLDIHRLTQ---------LEKLDLRGCVNLSRLP 294
Score = 34.7 bits (78), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 41/155 (26%), Positives = 67/155 (43%), Gaps = 39/155 (25%)
Query: 1105 LKILPSGLHNLRQLQEIEIWECKNLVSFPEG-----------GLPCAKLIKFNISWCKGL 1153
L+ LP+ + +L +L+E+ I C L PE GL L + W G+
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL--VNLQSLRLEWT-GI 195
Query: 1154 EALPKGLHNLTSLQELTI--------GRGV-ELPSLEEDGLPTNLHSLDIRGNMEIWK-S 1203
+LP + NL +L+ L I G + LP LEE LD+RG +
Sbjct: 196 RSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEE---------LDLRGCTALRNYP 246
Query: 1204 MIERGRGFHRFSSLRHFKISECDDDMVSIPLEDKR 1238
I GR + L+ + +C +++++PL+ R
Sbjct: 247 PIFGGR-----APLKRLILKDC-SNLLTLPLDIHR 275
Score = 34.3 bits (77), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 17/119 (14%)
Query: 597 RLRAFSLRG-YHIFELPDSVGDLSTDGSSSREAETEMGMLDMLKPHTNLEQFCIKGYGGM 655
RLR S+R + ELP+ + STD S + G++ NL+ ++ G
Sbjct: 151 RLRELSIRACPELTELPEPLA--STDASGEHQ-----GLV-------NLQSLRLEWTGIR 196
Query: 656 KFPTWLGDSSFSNLVTLKFKNCDMCTALPSVGQLPSLKHLVVCGMSRVKRLGSEFYGNV 714
P + + NL +LK +N + P++ LP L+ L + G + ++ F G
Sbjct: 197 SLPASIAN--LQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRA 253
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.5 bits (88), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 46/182 (25%), Positives = 84/182 (46%), Gaps = 31/182 (17%)
Query: 298 LLVLDDVWNRNYDDWVQLRRPFEVGAPGSKIIVTTRNQEVAE-IMG---TVP-SYQLKKL 352
LL+LDDVW D WV + F+ +I++TTR++ V + +MG VP L +
Sbjct: 239 LLILDDVW----DPWV--LKAFD---NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289
Query: 353 SDNDCLAVFAQHSLGSHKLLEEIGKKIVTKCDGLPLAAQTLGGLLRGKHDR--------- 403
+ L++F ++ L E I+ +C G PL +G LLR +R
Sbjct: 290 KGLEILSLFV--NMKKEDLPAE-AHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQ 346
Query: 404 -REWERVLCSKIWELSEKRCGIIPALAVSYYYLPPTLKQCFAYCSLFPKDYEFEEEEIIL 462
++++R+ S ++ + A+++S L +K + S+ KD + + + +
Sbjct: 347 NKQFKRIRKSSSYDYE----ALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCV 402
Query: 463 LW 464
LW
Sbjct: 403 LW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 45/182 (24%), Positives = 83/182 (45%), Gaps = 31/182 (17%)
Query: 298 LLVLDDVWNRNYDDWVQLRRPFEVGAPGSKIIVTTRNQEVAE-IMG---TVP-SYQLKKL 352
LL+LDDVW D WV + F+ +I++TT ++ V + +MG VP L +
Sbjct: 246 LLILDDVW----DPWV--LKAFD---NQCQILLTTSDKSVTDSVMGPKHVVPVESGLGRE 296
Query: 353 SDNDCLAVFAQHSLGSHKLLEEIGKKIVTKCDGLPLAAQTLGGLLRGKHDR--------- 403
+ L++F ++ L E I+ +C G PL +G LLR +R
Sbjct: 297 KGLEILSLFV--NMKKEDLPAE-AHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQ 353
Query: 404 -REWERVLCSKIWELSEKRCGIIPALAVSYYYLPPTLKQCFAYCSLFPKDYEFEEEEIIL 462
++++R+ S ++ + A+++S L +K + S+ KD + + + +
Sbjct: 354 NKQFKRIRKSSSYDYE----ALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCV 409
Query: 463 LW 464
LW
Sbjct: 410 LW 411
>pdb|4ACO|A Chain A, Structure Of The Budding Yeast Ndc10 N-Terminal Domain
Length = 956
Score = 35.4 bits (80), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 5/132 (3%)
Query: 272 ASQNVGDPSLNSLQKELSKQLSGKKFLLV---LDDVWNRNYDDWVQLR-RPFEVGAPGSK 327
S N+ +P N L ++ K S K LV L N ++++ ++R ++G
Sbjct: 188 VSLNLWNPETNHLSEKFFKTCSEKLRFLVDFQLRSYLNLSFEERSKIRFGSLKLGKRDRD 247
Query: 328 IIVTTRNQEVAEIMGTVPSYQLKKLSDNDCLAVFAQHSLGSHKLLEEIGKKIVTKCDGLP 387
I+ + AE T +QL L DC + Q +L ++ L G V+K DG P
Sbjct: 248 AIIYHKVTHSAEKKDTPGHHQLLALLPQDCPFICPQTTLAAYLYLRFYGIPSVSKGDGFP 307
Query: 388 -LAAQTLGGLLR 398
L A G LL+
Sbjct: 308 NLNADENGSLLQ 319
>pdb|2X63|A Chain A, Crystal Structure Of The Sialyltransferase Cst-Ii N51a In
Complex With Cmp
Length = 258
Score = 34.3 bits (77), Expect = 0.50, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 38 YYLGKKCKAVFYAPSLFFEQYYTLKHLIQNQEYETELIMCSNYNQAHLENENFVKTFYDY 97
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 98 FPDAHLGYDFFKQLK 112
>pdb|2WQQ|A Chain A, Crystallographic Analysis Of Monomeric Cstii
Length = 291
Score = 34.3 bits (77), Expect = 0.54, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 39 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIMCSNYNQAHLENENFVKTFYDY 98
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 99 FPDAHLGYDFFKQLK 113
>pdb|2X61|A Chain A, Crystal Structure Of The Sialyltransferase Cst-Ii In
Complex With Trisaccharide Acceptor And Cmp
pdb|2X61|B Chain B, Crystal Structure Of The Sialyltransferase Cst-Ii In
Complex With Trisaccharide Acceptor And Cmp
Length = 258
Score = 34.3 bits (77), Expect = 0.54, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 39 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIMCSNYNQAHLENENFVKTFYDY 98
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 99 FPDAHLGYDFFKQLK 113
>pdb|2DRJ|A Chain A, Xray Structure Of Alpha-2,38-Sialyltransferase Cstii F91y
Mutant
Length = 262
Score = 34.3 bits (77), Expect = 0.54, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 42 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIMCSNYNQAHLENENYVKTFYDY 101
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 102 FPDAHLGYDFFKQLK 116
>pdb|2X62|A Chain A, Crystal Structure Of The Sialyltransferase Cst-Ii Y81f In
Complex With Cmp
pdb|2X62|B Chain B, Crystal Structure Of The Sialyltransferase Cst-Ii Y81f In
Complex With Cmp
Length = 259
Score = 34.3 bits (77), Expect = 0.56, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 39 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIMCSNFNQAHLENENFVKTFYDY 98
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 99 FPDAHLGYDFFKQLK 113
>pdb|1RO7|A Chain A, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cmp-3fneuac.
pdb|1RO7|B Chain B, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cmp-3fneuac.
pdb|1RO7|C Chain C, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cmp-3fneuac.
pdb|1RO7|D Chain D, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cmp-3fneuac
Length = 259
Score = 33.9 bits (76), Expect = 0.61, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 39 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIXCSNYNQAHLENENFVKTFYDY 98
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 99 FPDAHLGYDFFKQLK 113
>pdb|1RO8|A Chain A, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cytidine-5'-monophosphate
pdb|1RO8|B Chain B, Structural Analysis Of The Sialyltransferase Cstii From
Campylobacter Jejuni In Complex With A Substrate
Analogue, Cytidine-5'-monophosphate
Length = 262
Score = 33.9 bits (76), Expect = 0.64, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 433 YYLPPTLKQCFAYCSLFPKDY-------EFEEEEIILLWCASGFLDHKEDEN-------- 477
YYL K F SLF + Y + +E E L+ C++ H E+EN
Sbjct: 42 YYLGKKCKAVFYNPSLFFEQYYTLKHLIQNQEYETELIXCSNYNQAHLENENFVKTFYDY 101
Query: 478 -PSEDLGRDFFKELR 491
P LG DFFK+L+
Sbjct: 102 FPDAHLGYDFFKQLK 116
>pdb|3ZYV|A Chain A, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|B Chain B, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|C Chain C, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|D Chain D, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
Length = 1335
Score = 32.7 bits (73), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 44/88 (50%), Gaps = 14/88 (15%)
Query: 205 LRDDLSNDGGFSVIPIIGMG--------GLGKTTLAQLVYNDKQV-----QDHFDLKAWT 251
+R D+ DG FS+ P + +G GLG TL +L Y+ + V + + + T
Sbjct: 1179 IRTDIVMDGSFSINPAVDIGQIEGAFVQGLGLYTLEELKYSPEGVLYTRGPHQYKIASVT 1238
Query: 252 CVSDDFDVKRLTKTI-LTSIVASQNVGD 278
+ ++F V LT T +I +S+ +G+
Sbjct: 1239 DIPEEFHVSLLTPTPNPKAIYSSKGLGE 1266
>pdb|3G04|C Chain C, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
pdb|2XWT|C Chain C, Crystal Structure Of The Tsh Receptor In Complex With A
Blocking Type Tshr Autoantibody
Length = 239
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 1/97 (1%)
Query: 1062 EVGNLPPSLKSLEVLSCSKLESIAERLDNNTSLEIIRIDFCKNLKILPS-GLHNLRQLQE 1120
+ +LPPS ++L+++ + N ++ I + L+ L S +NL ++
Sbjct: 25 RIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTH 84
Query: 1121 IEIWECKNLVSFPEGGLPCAKLIKFNISWCKGLEALP 1157
IEI +NL L L+KF + GL+ P
Sbjct: 85 IEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFP 121
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
0.320 0.137 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,519,272
Number of Sequences: 62578
Number of extensions: 1646175
Number of successful extensions: 4038
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 4012
Number of HSP's gapped (non-prelim): 35
length of query: 1367
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1256
effective length of database: 8,027,179
effective search space: 10082136824
effective search space used: 10082136824
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: 58 (26.9 bits)