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= 037340
(1276 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 = 56.6 bits (135), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 79/331 (23%), Positives = 141/331 (42%), Gaps = 64/331 (19%)
Query: 216 ISINGMGGVGKTTLAQLVYNDDRVQRHFQIKA-------WTCVSEDFDVSRVTKSILRSI 268
++I+GM G GK+ LA + V+ H ++ W V + + K L+++
Sbjct: 150 VTIHGMAGCGKSVLAA-----EAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNL 202
Query: 269 AXXXXXXXXXLNSLQVKLKKQLSGKKI---------LLVLDDVWNENYENWSILSRPFGV 319
L + +++ +I LL+LDDVW+ +W + + F
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWD----SWVL--KAFD- 255
Query: 320 GAPGSKIVVTTRNLGVAESMGVDPAYQL---KELSNDDCLCVLTQISLGARDFNMHQS-L 375
+I++TTR+ V +S+ + P Y + L + L +L+ NM ++ L
Sbjct: 256 --SQCQILLTTRDKSVTDSV-MGPKYVVPVESSLGKEKGLEILSLF------VNMKKADL 306
Query: 376 KEVGEKIAMKCRGLPLAAKTLGGLLRGRDDPRDWEFVL----NTDIWNLREESC----NI 427
E I +C+G PL +G LL RD P WE+ L N +R+ S +
Sbjct: 307 PEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL 364
Query: 428 LPALRVSYHFLAPQLKQCFAYCSLVPKDYEFQEEEIILLWTAEGFLDQEYNGRKMEDLGR 487
A+ +S L +K + S++ KD + + + +LW E ++ED+ +
Sbjct: 365 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEEVEDILQ 416
Query: 488 EFVWELHSRSLFQQSSKDASRFVMHDLINDL 518
EFV + LF + + R+ +HDL D
Sbjct: 417 EFV---NKSLLFCDRNGKSFRYYLHDLQVDF 444
>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 = 55.1 bits (131), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 79/331 (23%), Positives = 141/331 (42%), Gaps = 64/331 (19%)
Query: 216 ISINGMGGVGKTTLAQLVYNDDRVQRHFQIKA-------WTCVSEDFDVSRVTKSILRSI 268
++I+GM G GK+ LA + V+ H ++ W V + + K L+++
Sbjct: 156 VTIHGMAGCGKSVLAA-----EAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNL 208
Query: 269 AXXXXXXXXXLNSLQVKLKKQLSGKKI---------LLVLDDVWNENYENWSILSRPFGV 319
L + +++ +I LL+LDDVW ++W + + F
Sbjct: 209 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW----DSWVL--KAFD- 261
Query: 320 GAPGSKIVVTTRNLGVAESMGVDPAYQL---KELSNDDCLCVLTQISLGARDFNMHQS-L 375
+I++TTR+ V +S+ + P Y + L + L +L+ NM ++ L
Sbjct: 262 --SQCQILLTTRDKSVTDSV-MGPKYVVPVESSLGKEKGLEILSLF------VNMKKADL 312
Query: 376 KEVGEKIAMKCRGLPLAAKTLGGLLRGRDDPRDWEFVL----NTDIWNLREESC----NI 427
E I +C+G PL +G LL RD P WE+ L N +R+ S +
Sbjct: 313 PEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL 370
Query: 428 LPALRVSYHFLAPQLKQCFAYCSLVPKDYEFQEEEIILLWTAEGFLDQEYNGRKMEDLGR 487
A+ +S L +K + S++ KD + + + +LW E ++ED+ +
Sbjct: 371 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEEVEDILQ 422
Query: 488 EFVWELHSRSLFQQSSKDASRFVMHDLINDL 518
EFV + LF + + R+ +HDL D
Sbjct: 423 EFV---NKSLLFCDRNGKSFRYYLHDLQVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 102/236 (43%), Gaps = 43/236 (18%)
Query: 296 LLVLDDVWNENYENWSILSRPFGVGAPGSK--IVVTTRNLGVAES-MGVDPAYQLKE-LS 351
LL+LDDVW+ P+ + A ++ I++TTR+ V +S MG ++ L
Sbjct: 239 LLILDDVWD-----------PWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLG 287
Query: 352 NDDCLCVLTQISLGARDFNMH-QSLKEVGEKIAMKCRGLPLAAKTLGGLLRGRDDPRDWE 410
+ L +L+ NM + L I +C+G PL +G LL RD P W
Sbjct: 288 REKGLEILSLF------VNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWA 339
Query: 411 FVL----NTDIWNLREESC----NILPALRVSYHFLAPQLKQCFAYCSLVPKDYEFQEEE 462
+ L N +R+ S + A+ +S L +K + S++ KD + +
Sbjct: 340 YYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 399
Query: 463 IILLWTAEGFLDQEYNGRKMEDLGREFVWELHSRSLFQQSSKDASRFVMHDLINDL 518
+ +LW E ++ED+ +EFV + LF + + + +HDL D
Sbjct: 400 LCVLWDLE--------TEEVEDILQEFV---NKSLLFCNRNGKSFCYYLHDLQVDF 444
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 59/236 (25%), Positives = 101/236 (42%), Gaps = 43/236 (18%)
Query: 296 LLVLDDVWNENYENWSILSRPFGVGAPGSK--IVVTTRNLGVAES-MGVDPAYQLKE-LS 351
LL+LDDVW+ P+ + A ++ I++TT + V +S MG ++ L
Sbjct: 246 LLILDDVWD-----------PWVLKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLG 294
Query: 352 NDDCLCVLTQISLGARDFNMH-QSLKEVGEKIAMKCRGLPLAAKTLGGLLRGRDDPRDWE 410
+ L +L+ NM + L I +C+G PL +G LL RD P W
Sbjct: 295 REKGLEILSLF------VNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWA 346
Query: 411 FVL----NTDIWNLREESC----NILPALRVSYHFLAPQLKQCFAYCSLVPKDYEFQEEE 462
+ L N +R+ S + A+ +S L +K + S++ KD + +
Sbjct: 347 YYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 406
Query: 463 IILLWTAEGFLDQEYNGRKMEDLGREFVWELHSRSLFQQSSKDASRFVMHDLINDL 518
+ +LW E ++ED+ +EFV + LF + + + +HDL D
Sbjct: 407 LCVLWDLE--------TEEVEDILQEFV---NKSLLFCNRNGKSFCYYLHDLQVDF 451
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 47/95 (49%), Gaps = 15/95 (15%)
Query: 882 GQAVEGFPKLQMLSLVGCSELQGTLP---ERFPLLKKLVIVGCEQLL---VTIQCLPVLS 935
G A+ PKL+ L L GC+ L+ P R P LK+L++ C LL + I L L
Sbjct: 222 GPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP-LKRLILKDCSNLLTLPLDIHRLTQLE 280
Query: 936 ELHIDGCRRVVFSSLINFSSLKSIFLRDIANQVVL 970
+L + GC +N S L S+ + AN ++L
Sbjct: 281 KLDLRGC--------VNLSRLPSLIAQLPANCIIL 307
Score = 35.0 bits (79), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 47/149 (31%), Positives = 65/149 (43%), Gaps = 16/149 (10%)
Query: 1103 ELMIWSCENLKALPNSMHNLTSLLHLEIGRCPSLVSFPEDGFPTNLQSLEFEDLKISKPL 1162
E + + L+ALP S+ +L L L I CP L PE T+ S E +
Sbjct: 130 ETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTD-ASGEHQ-------- 180
Query: 1163 FQWGLNRFNSLRKLKISGGFPDLVSSPRFPASLTELKISDMPSLERLSSIGENLTSLKFL 1222
GL SLR L+ + G L +S +L LKI + P L L +L L+ L
Sbjct: 181 ---GLVNLQSLR-LEWT-GIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEEL 234
Query: 1223 DLDNCPKLKYFSKQ-GLPKSLLRLIIDEC 1250
DL C L+ + G L RLI+ +C
Sbjct: 235 DLRGCTALRNYPPIFGGRAPLKRLILKDC 263
Score = 33.9 bits (76), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 46/103 (44%), Gaps = 3/103 (2%)
Query: 592 QMLLNLPRLRVFSLRGYCISKLPNEIGNLKHLRFLNLSGTSIQFLPDSINSLYNLYTILL 651
Q L+NL LR L I LP I NL++L+ L + + + L +I+ L L + L
Sbjct: 180 QGLVNLQSLR---LEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDL 236
Query: 652 EDCYWLKKLCQDMGNLTKLHHLINFNVLSLKEMPKGFGKLTCL 694
C L+ G L LI + +L +P +LT L
Sbjct: 237 RGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQL 279
Score = 30.4 bits (67), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 1075 LEHLEIRVDGWPNLESFPEEGLPSTKLTELMIWSCENLKALPNSMHNLTSLLHLEIGRCP 1134
LE L++R G L ++P L L++ C NL LP +H LT L L++ C
Sbjct: 231 LEELDLR--GCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV 288
Query: 1135 SLVSFP 1140
+L P
Sbjct: 289 NLSRLP 294
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 39.3 bits (90), Expect = 0.013, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 11 ASVELLIEKLASQGLELFKRHKKLKADFIKWKGMLEMIQAVLADAED--RQTREKSVKMW 68
A++ LI KL E FK HK +K + LE A L + R+ + K+W
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLW 60
Query: 69 LDNLQNLAYDAEDVLDEF 86
D ++ L+Y EDV+D+F
Sbjct: 61 ADEVRELSYVIEDVVDKF 78
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.0 bits (71), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 579 LKYGGTFLAWSVLQMLLNLPRLRVFSLRGYCISKLPNEIGNLKHLRFLNLSGTSIQFLPD 638
L L SV + L P+++V L I +P ++ +L+ L+ LN++ ++ +PD
Sbjct: 433 LNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPD 490
Query: 639 SI-NSLYNLYTILLEDCYW 656
+ + L +L I L D W
Sbjct: 491 GVFDRLTSLQYIWLHDNPW 509
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 598 PRLRVFSLRGYCISKLPNEIGNLKHLRFLNLSGTSIQFLPDSI-NSLYNLYTILLEDCYW 656
PR++V L I +P ++ L+ L+ LN++ ++ +PD I + L +L I L W
Sbjct: 421 PRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPW 480
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein From
Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich Effector
Protein From Yersinia Pestis
Length = 454
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 89/356 (25%), Positives = 143/356 (40%), Gaps = 86/356 (24%)
Query: 881 AGQAVEGFPKLQMLSLVGCSELQGT----LPERFPLLKKLVIVGCEQL--LVTIQCLPVL 934
+ +E P+LQ S + ++ LP+ P L+ + G QL L +Q LP L
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLE-FIAAGNNQLEELPELQNLPFL 197
Query: 935 SELHIDGCRRVVFSSLINFSSLKSIFLRDIANQVVLAG--LFEQGLPKLENLQICYVHEQ 992
+ ++ D +SLK + ++ + ++AG + E+ LP+L+NL
Sbjct: 198 TAIYADN------------NSLKKLPDLPLSLESIVAGNNILEE-LPELQNLPFL----- 239
Query: 993 TYLWQSETRLLHDISSLNQLQISGCSQLLSLVTEEEHDQQQPELPCRLQFLELSDWEQDI 1052
T ++ ++ LL + L L +L + + PELP L FL++S+
Sbjct: 240 TTIY-ADNNLLKTLPDL-------PPSLEALNVRDNYLTDLPELPQSLTFLDVSE----- 286
Query: 1053 RGSSSGCTCLTSFSSESELPATLEHL-----EIR--VDGWPNLESFPEEGLPSTKLTELM 1105
FS SELP L +L EIR D P+LE + + KL E
Sbjct: 287 ----------NIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEEL---NVSNNKLIE-- 331
Query: 1106 IWSCENLKALPNSMHNLTSLLHLEIGRCPSLVSFPEDGFPTNLQSLEFEDLKISKPLFQW 1165
L ALP + L I L PE P NL+ L E PL ++
Sbjct: 332 ------LPALPPRLERL-------IASFNHLAEVPE--LPQNLKQLHVE----YNPLREF 372
Query: 1166 GLNRFNSLRKLKISGGFPDLVSSPRFPASLTELKISDMPSLERLSSIGENLTSLKF 1221
+ S+ L+++ L P P +L +L + P L I E++ L+
Sbjct: 373 P-DIPESVEDLRMNSH---LAEVPELPQNLKQLHVETNP-LREFPDIPESVEDLRM 423
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 35/111 (31%), Positives = 58/111 (52%), Gaps = 8/111 (7%)
Query: 591 LQMLLNLPRLRVFSLRGYCISKLPNEIGNLKHLRFLNLSGTSIQFLPDSI-NSLYNLYTI 649
+Q + LP +R +L G + + + + L +L +L L+G +Q LP+ + + L NL +
Sbjct: 56 VQGIQYLPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 650 LLEDCYWLKKLCQDMGNLTKLHHLINFNVL--SLKEMPKG-FGKLTCLLTL 697
+L + L+ L G KL +L N+ L+ +PKG F KLT L L
Sbjct: 115 VLVENQ-LQSLPD--GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTEL 162
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 31.2 bits (69), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 1185 LVSSPRFPASLTELKISDMPSLERLSSIGENLTSLKFLDLDN 1226
L+S P PASL L D RLS++ E SLK LD+DN
Sbjct: 92 LISLPELPASLEYLDACD----NRLSTLPELPASLKHLDVDN 129
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 30.8 bits (68), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 56/125 (44%), Gaps = 10/125 (8%)
Query: 1084 GWPNLESFP---EEGLPSTKLTELMIWSCENL--KALPNSMHNLTSLLHLEIGRCPSLVS 1138
G P+L+S P P L + C +L KA+P + T+LL L+ L
Sbjct: 12 GIPDLDSLPPTYSAMCPFGCHCHLRVVQCSDLGLKAVPKEISPDTTLLDLQNNDISELRK 71
Query: 1139 FPEDGFPTNLQSLEFEDLKISKPLFQWGLNRFNSLRKLKISGGFPDLVS-SPRFPASLTE 1197
G +L +L + KISK + + + L+KL IS LV P P+SL E
Sbjct: 72 DDFKGL-QHLYALVLVNNKISK-IHEKAFSPLRKLQKLYISKNH--LVEIPPNLPSSLVE 127
Query: 1198 LKISD 1202
L+I D
Sbjct: 128 LRIHD 132
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 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 36,427,144
Number of Sequences: 62578
Number of extensions: 1485664
Number of successful extensions: 3128
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 3096
Number of HSP's gapped (non-prelim): 49
length of query: 1276
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1166
effective length of database: 8,089,757
effective search space: 9432656662
effective search space used: 9432656662
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: 57 (26.6 bits)