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= 046742
(769 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 57/237 (24%), Positives = 106/237 (44%), Gaps = 35/237 (14%)
Query: 78 GIIGLYGMGEVGKTTLLTRINNKFSNTPNGF-DFVIWVVLSRDLQIDRLQ--ENIARKIG 134
G + ++GM GK+ L S F V WV + + + L +N+ ++
Sbjct: 154 GWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 213
Query: 135 LYDQSWKNKRLEI---KAADIFKILSRKKF---VLLLDDIWNRVDLEKLGIPPMNTNGSS 188
D+S+ ++RL + +A D +IL +K +L+LDD+W+ L+ +
Sbjct: 214 -QDESF-SQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQC 264
Query: 189 KIVFTTRSAGGC-GLMEAHRIFKVKC-LEHKEAWELFQMKVGRETLESHLQIPELAEIVA 246
+I+ TTR +M + V+ L ++ E+ + V + + +PE A +
Sbjct: 265 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSII 320
Query: 247 KECDGLPLALITIGRAMAFKKTPQEWKDAIQVL--------RRSAS-EFPGMDEIKS 294
KEC G PL + IG + + P W+ ++ L R+S+S ++ +DE S
Sbjct: 321 KECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMS 375
>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 = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 57/237 (24%), Positives = 106/237 (44%), Gaps = 35/237 (14%)
Query: 78 GIIGLYGMGEVGKTTLLTRINNKFSNTPNGF-DFVIWVVLSRDLQIDRLQ--ENIARKIG 134
G + ++GM GK+ L S F V WV + + + L +N+ ++
Sbjct: 148 GWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 207
Query: 135 LYDQSWKNKRLEI---KAADIFKILSRKKF---VLLLDDIWNRVDLEKLGIPPMNTNGSS 188
D+S+ ++RL + +A D +IL +K +L+LDD+W+ L+ +
Sbjct: 208 -QDESF-SQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQC 258
Query: 189 KIVFTTRSAGGC-GLMEAHRIFKVKC-LEHKEAWELFQMKVGRETLESHLQIPELAEIVA 246
+I+ TTR +M + V+ L ++ E+ + V + + +PE A +
Sbjct: 259 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSII 314
Query: 247 KECDGLPLALITIGRAMAFKKTPQEWKDAIQVL--------RRSAS-EFPGMDEIKS 294
KEC G PL + IG + + P W+ ++ L R+S+S ++ +DE S
Sbjct: 315 KECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMS 369
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 59/269 (21%), Positives = 111/269 (41%), Gaps = 36/269 (13%)
Query: 47 EPTVEERPI---PQTLGLESTFDEVWRCLGEEHVGIIGLYGMGEVGKTTLLTRINNKFSN 103
E V +RP+ + + + ++W+ GE G + +YGM GK+ L S
Sbjct: 116 EGGVPQRPVIFVTRKKLVHAIQQKLWKLNGEP--GWVTIYGMAGCGKSVLAAEAVRDHSL 173
Query: 104 TPNGFDF-VIWVVLSRDLQIDRLQ--ENIARKIGLYDQSWKNKRLEIK-AADIFKILSRK 159
F V WV + + + L +N+ ++ + + L I+ A D ++L +
Sbjct: 174 LEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR 233
Query: 160 KF---VLLLDDIWNRVDLEKLGIPPMNTNGSSKIVFTTR--SAGGCGLMEAHRIFKVKCL 214
K +L+LDD+W+ L+ + +I+ TTR S + H + L
Sbjct: 234 KHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESGL 286
Query: 215 EHKEAWELFQMKVGRETLESHLQIPELAEIVAKECDGLPLALITIGRAMAFKKTPQEW-- 272
++ E+ + V + + +P A + KEC G PL + IG + + P W
Sbjct: 287 GREKGLEILSLFVNMKKED----LPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAY 340
Query: 273 -------KDAIQVLRRSASEFPGMDEIKS 294
K ++ + S+ ++ +DE S
Sbjct: 341 YLRQLQNKQFKRIRKSSSYDYEALDEAMS 369
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 37.0 bits (84), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 58/269 (21%), Positives = 111/269 (41%), Gaps = 36/269 (13%)
Query: 47 EPTVEERPI---PQTLGLESTFDEVWRCLGEEHVGIIGLYGMGEVGKTTLLTRINNKFSN 103
E V +RP+ + + + ++W+ GE G + +YGM GK+ L S
Sbjct: 123 EGGVPQRPVIFVTRKKLVHAIQQKLWKLNGEP--GWVTIYGMAGCGKSVLAAEAVRDHSL 180
Query: 104 TPNGFDF-VIWVVLSRDLQIDRLQ--ENIARKIGLYDQSWKNKRLEIK-AADIFKILSRK 159
F V WV + + + L +N+ ++ + + L I+ A D ++L +
Sbjct: 181 LEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR 240
Query: 160 KF---VLLLDDIWNRVDLEKLGIPPMNTNGSSKIVFTT--RSAGGCGLMEAHRIFKVKCL 214
K +L+LDD+W+ L+ + +I+ TT +S + H + L
Sbjct: 241 KHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTSDKSVTDSVMGPKHVVPVESGL 293
Query: 215 EHKEAWELFQMKVGRETLESHLQIPELAEIVAKECDGLPLALITIGRAMAFKKTPQEW-- 272
++ E+ + V + + +P A + KEC G PL + IG + + P W
Sbjct: 294 GREKGLEILSLFVNMKKED----LPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAY 347
Query: 273 -------KDAIQVLRRSASEFPGMDEIKS 294
K ++ + S+ ++ +DE S
Sbjct: 348 YLRQLQNKQFKRIRKSSSYDYEALDEAMS 376
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 40/94 (42%), Gaps = 3/94 (3%)
Query: 406 SLSKIPS--CPSLITLFLNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXXPSGISRLVS 463
L K+P P L L NN + I DG F+ + P + LV
Sbjct: 42 GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 101
Query: 464 LQHLNLSLTNIKELPEEL-KALVNLKCLNLDYTK 496
L+ L LS +KELPE++ K L L+ + TK
Sbjct: 102 LERLYLSKNQLKELPEKMPKTLQELRVHENEITK 135
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 40/94 (42%), Gaps = 3/94 (3%)
Query: 406 SLSKIPS--CPSLITLFLNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXXPSGISRLVS 463
L K+P P L L NN + I DG F+ + P + LV
Sbjct: 42 GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 101
Query: 464 LQHLNLSLTNIKELPEEL-KALVNLKCLNLDYTK 496
L+ L LS +KELPE++ K L L+ + TK
Sbjct: 102 LERLYLSKNQLKELPEKMPKTLQELRVHENEITK 135
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 464 LQHLNLSLTNIKELPEELKALVNLKCLNLDYTKSLCRIPRHLISNFSMLYI 514
L L L+ ++ ELP E+K L NL+ L+L + + L +P L S F + Y
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYF 298
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 30/118 (25%), Positives = 46/118 (38%), Gaps = 3/118 (2%)
Query: 397 MSLMENQVQSLSK--IPSCPSLITLFLNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXX 454
+ L +NQ+ L S +L L+L +N L + G F +
Sbjct: 45 LYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLP 104
Query: 455 PSGISRLVSLQHLNLSLTNIKELPEELKALVNLKCLNLDYTKSLCRIPRHLISNFSML 512
+ RLV L+ L + + ELP ++ L +L L LD + L IP S L
Sbjct: 105 SAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSL 161
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 34/124 (27%), Positives = 57/124 (45%), Gaps = 6/124 (4%)
Query: 398 SLMENQVQSLSKIPS-CPSLIT-LFLNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXXP 455
+ +E Q + +P+ P+ T L L N+LK + +G F + P
Sbjct: 10 TTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDEL-TSLTQLYLGGNKLQSLP 68
Query: 456 SGI-SRLVSLQHLNLSLTNIKELPEEL-KALVNLKCLNLDYTKSLCRIPRHLISNFSMLY 513
+G+ ++L SL +LNLS ++ LP + L LK L L+ T L +P + + L
Sbjct: 69 NGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALN-TNQLQSLPDGVFDKLTQLK 127
Query: 514 ILRI 517
LR+
Sbjct: 128 DLRL 131
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 51/123 (41%), Gaps = 7/123 (5%)
Query: 403 QVQSLSKIPS-----CPSLITLFLNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXXPSG 457
Q LS +PS L L+LN+N L+ + G F+ +
Sbjct: 45 QSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGV 104
Query: 458 ISRLVSLQHLNLSLTNIKELPEEL-KALVNLKCLNLDYTKSLCRIPRHLISNFSMLYILR 516
+LV+L L L +K LP + +L L L+L Y + L +P+ + + L LR
Sbjct: 105 FDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELR 163
Query: 517 IVD 519
+ +
Sbjct: 164 LYN 166
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 54/126 (42%), Gaps = 3/126 (2%)
Query: 380 ARLTEAPETGKWQVIRRMSLMENQVQSLSKI-PSCPSLITLFLNNNNLKVITDGFFQFMP 438
A LT+ G V+ + L NQ+QSL + + P+L L ++ N L + G + +
Sbjct: 65 AELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLG 124
Query: 439 XXXXXXXXXXXXXXXXPSGISRLVSLQHLNLSLTNIKELPEE-LKALVNLKCLNLDYTKS 497
P ++ L+ L+L+ N+ ELP L L NL L L S
Sbjct: 125 ELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ-ENS 183
Query: 498 LCRIPR 503
L IP+
Sbjct: 184 LYTIPK 189
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 54/126 (42%), Gaps = 3/126 (2%)
Query: 380 ARLTEAPETGKWQVIRRMSLMENQVQSLSKI-PSCPSLITLFLNNNNLKVITDGFFQFMP 438
A LT+ G V+ + L NQ+QSL + + P+L L ++ N L + G + +
Sbjct: 65 AELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLG 124
Query: 439 XXXXXXXXXXXXXXXXPSGISRLVSLQHLNLSLTNIKELPEE-LKALVNLKCLNLDYTKS 497
P ++ L+ L+L+ N+ ELP L L NL L L S
Sbjct: 125 ELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ-ENS 183
Query: 498 LCRIPR 503
L IP+
Sbjct: 184 LYTIPK 189
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 54/126 (42%), Gaps = 3/126 (2%)
Query: 380 ARLTEAPETGKWQVIRRMSLMENQVQSLSKI-PSCPSLITLFLNNNNLKVITDGFFQFMP 438
A LT+ G V+ + L NQ+QSL + + P+L L ++ N L + G + +
Sbjct: 65 AELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLG 124
Query: 439 XXXXXXXXXXXXXXXXPSGISRLVSLQHLNLSLTNIKELPEE-LKALVNLKCLNLDYTKS 497
P ++ L+ L+L+ N+ ELP L L NL L L S
Sbjct: 125 ELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ-ENS 183
Query: 498 LCRIPR 503
L IP+
Sbjct: 184 LYTIPK 189
>pdb|3T3N|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Uuccgu) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
pdb|3T3O|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Cugg) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
Length = 562
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 74 EEHVGIIGLYGMGEVGKTTLLTRINNKFSNTPNGFDFVIWVVLSRDLQIDRL 125
++HV II L GMGE+GK + R ++ G F + DL I R+
Sbjct: 15 QDHVEIIPLGGMGEIGKNITVFRFRDEIFVLDGGLAFPEEGMPGVDLLIPRV 66
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 34/79 (43%), Gaps = 3/79 (3%)
Query: 406 SLSKIPSCPSLITLF---LNNNNLKVITDGFFQFMPXXXXXXXXXXXXXXXXPSGISRLV 462
+L IP+ +L+ L L+ N L +I G FQ + + L
Sbjct: 167 NLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLK 226
Query: 463 SLQHLNLSLTNIKELPEEL 481
SL+ LNLS N+ LP +L
Sbjct: 227 SLEELNLSHNNLMSLPHDL 245
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
0.322 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,129,668
Number of Sequences: 62578
Number of extensions: 838798
Number of successful extensions: 2147
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2132
Number of HSP's gapped (non-prelim): 44
length of query: 769
length of database: 14,973,337
effective HSP length: 106
effective length of query: 663
effective length of database: 8,340,069
effective search space: 5529465747
effective search space used: 5529465747
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)