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= 037627
(858 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Query: 576 VGGCYNL----PEEMVKLVNLKYLRLTNAHID-VIPSCIAKLQRLQTLDISGNMAFMELP 630
+GG NL P + KL L YL +T+ ++ IP +++++ L TLD S N LP
Sbjct: 83 IGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLP 142
Query: 631 REICELKEL 639
I L L
Sbjct: 143 PSISSLPNL 151
>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 = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 4 AVVSFVVQRLGDYLIQEAAFLGEVRTEVRSLKKELE---WMLCFIKDAEDKQVDDPMIRQ 60
A +S ++ +LG+ L +E V+ + L KELE L I + +Q+D +
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLD-SQDKL 59
Query: 61 WVSDIRDVAHDIEDVLYNFTLKVD 84
W ++R++++ IEDV+ F ++VD
Sbjct: 60 WADEVRELSYVIEDVVDKFLVQVD 83
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 36.6 bits (83), Expect = 0.061, Method: Composition-based stats.
Identities = 32/130 (24%), Positives = 61/130 (46%), Gaps = 9/130 (6%)
Query: 651 NIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAYLKNLQLLSI 710
N+ ++ LQ++K ++ S + L L +L+++ + + +A L NLQ LSI
Sbjct: 105 NVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI 164
Query: 711 RLSDDTCFDSLQPLSDCSYLIDLRLSGKIEKLPEDLHEVLPNLECLSLKKSHLKEDPMPK 770
+ + L PL++ S L LR + ++ P +L + HLK++ +
Sbjct: 165 ---GNNQVNDLTPLANLSKLTTLRADDN------KISDISPLASLPNLIEVHLKDNQISD 215
Query: 771 LEKLPNLTIL 780
+ L NL+ L
Sbjct: 216 VSPLANLSNL 225
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 69/339 (20%), Positives = 143/339 (42%), Gaps = 51/339 (15%)
Query: 193 LNKEPRRFVISVYGMGGLGKTTLARKLYHNNDVKNKFDRC-----AWVSVSQDYDTKDLL 247
LN EP +++YGM G GK+ LA + ++ + + C WVS+ + D LL
Sbjct: 143 LNGEPGW--VTIYGMAGCGKSVLAAEAVRDHSL---LEGCFSGGVHWVSIGKQ-DKSGLL 196
Query: 248 LRIIRSFKINVXXXXXXXXXXXXXXXYLHNCL------QGKSYLVVVDDAWQKETWESLK 301
+++ ++ + + + L + L+++DD W + W +
Sbjct: 197 MKL-QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW--DPW--VL 251
Query: 302 RAFPDNKNGSRVIITTRIKEVAERSDENAYAHKLRF-LRSDESWELFCEKAFRKSNGSEG 360
+AF N ++++TTR K V + + + L ++ E+ + + E
Sbjct: 252 KAF---DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKED 305
Query: 361 LEKLGREMVEKCRGLPLAIVVLGGLLSMKKPQEW----RRVRDHLWQHLKNDCIH----I 412
L ++++C+G PL + ++G LL P W R++++ ++ ++ + +
Sbjct: 306 LPAEAHSIIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFKRIRKSSSYDYEAL 364
Query: 413 XXXXXXXXXXXXHELKLCFLYLGLFPEDFEINVQTLIRLLVAEGFIQQDTDRSTEEVAGE 472
++K + L + +D ++ + L L D TEEV +
Sbjct: 365 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW----------DLETEEVE-D 413
Query: 473 ILDELINRSLIQIDKRCWGRIATCRVHDLLRDLAIEQAK 511
IL E +N+SL+ ++ G+ +HDL D E+ +
Sbjct: 414 ILQEFVNKSLLFCNRN--GKSFCYYLHDLQVDFLTEKNR 450
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.4 bits (80), Expect = 0.13, Method: Composition-based stats.
Identities = 41/158 (25%), Positives = 69/158 (43%), Gaps = 28/158 (17%)
Query: 695 SFKSIAYLKNLQLLSIRLSDDTCFDSLQPLSDCSYLI------------------DLR-- 734
S + I YL N++ L++ + +L+ L++ +YLI +L+
Sbjct: 55 SVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 735 --LSGKIEKLPEDLHEVLPNLECLSLKKSHLKEDPMPKLEKLPNLTILDLGLKSYGGKKM 792
+ +++ LP+ + + L NL L L + L+ P +KL NLT LDL ++
Sbjct: 115 VLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDL-----DNNQL 169
Query: 793 ICTTKG-FHLLEILQLIDLNDLAQWQVEDGAMPILRGL 829
+G F L L+ + LND V DG L L
Sbjct: 170 QSLPEGVFDKLTQLKQLSLNDNQLKSVPDGVFDRLTSL 207
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 53/206 (25%), Positives = 94/206 (45%), Gaps = 40/206 (19%)
Query: 591 NLKYLRLTNA-------HIDVIPSCIAKLQRLQTLDISGNMAFMELP----REICELKEL 639
NLK +T+A ID I + + ++ +Q + N+ ++ L +I LKEL
Sbjct: 25 NLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDISALKEL 84
Query: 640 RHLIGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQE-------E 692
+L T I + LQ+L G + +KL NL++L ++ + +
Sbjct: 85 TNL------TYLILTGNQLQSLP---NGVF-----DKLTNLKELVLVENQLQSLPDGVFD 130
Query: 693 EFSFKSIAYLKNLQLLSIRLSDDTCFDSLQPLSDCSYLIDLRLSGKIEKLPEDLHEVLPN 752
+ + + YL + QL S+ FD L L+ +DL + +++ LPE + + L
Sbjct: 131 KLTNLTYLYLYHNQLQSL---PKGVFDKLTNLTR----LDLD-NNQLQSLPEGVFDKLTQ 182
Query: 753 LECLSLKKSHLKEDPMPKLEKLPNLT 778
L+ LSL + LK P ++L +LT
Sbjct: 183 LKQLSLNDNQLKSVPDGVFDRLTSLT 208
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 5/89 (5%)
Query: 578 GCYNLPEEMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELK 637
G +LP + L NLK L++ N+ + + I L +L+ LD+ G A P
Sbjct: 194 GIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRA 253
Query: 638 ELRHLI-----GNFTGTLNIENLSNLQTL 661
L+ LI T L+I L+ L+ L
Sbjct: 254 PLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 582 LPEEMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRH 641
P++ +L +L++ + A + +P + L+TL ++ N LP I L LR
Sbjct: 96 FPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARN-PLRALPASIASLNRLRE 154
Query: 642 LIGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAY 701
L+I L L + A + LVNL+ LR+ ++ SIA
Sbjct: 155 --------LSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL--EWTGIRSLPASIAN 204
Query: 702 LKNLQLLSIRLS 713
L+NL+ L IR S
Sbjct: 205 LQNLKSLKIRNS 216
>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 = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 29/110 (26%), Positives = 53/110 (48%), Gaps = 22/110 (20%)
Query: 695 SFKSIAYLKNLQLLSIRLSDDTCFDSLQPLSDCSYLI------------------DLR-- 734
S + I YL N++ L++ + +L+ L++ +YLI +L+
Sbjct: 55 SVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 735 --LSGKIEKLPEDLHEVLPNLECLSLKKSHLKEDPMPKLEKLPNLTILDL 782
+ +++ LP+ + + L NL L+L + L+ P +KL NLT LDL
Sbjct: 115 VLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDL 164
>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 = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 68/338 (20%), Positives = 138/338 (40%), Gaps = 69/338 (20%)
Query: 202 ISVYGMGGLGKTTLARKLYHNNDVKNKFDRC-----AWVSVSQDYDTKDLLLRI------ 250
++++GM G GK+ LA + ++ + + C WVSV + D LL+++
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSL---LEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTR 205
Query: 251 -------IRSFKINVXXXXXXXXXXXXXXXYLHNCLQGKSYLVVVDDAWQKETWESLKRA 303
+ +N+ + L+++DD W ++W + +A
Sbjct: 206 LDQDESFSQRLPLNIEEAKDRLRILMLR--------KHPRSLLILDDVW--DSW--VLKA 253
Query: 304 FPDNKNGSRVIITTRIKEVAERSDENAYA----HKLRFLRSDESWELFCEKAFRKSNGSE 359
F + ++++TTR K V + Y L + E LF +K++
Sbjct: 254 F---DSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVN--MKKAD--- 305
Query: 360 GLEKLGREMVEKCRGLPLAIVVLGGLLSMKKPQEW----RRVRDHLWQHLKN----DCIH 411
L + ++++C+G PL + ++G LL P W +++++ ++ ++ D
Sbjct: 306 -LPEQAHSIIKECKGSPLVVSLIGALLR-DFPNRWEYYLKQLQNKQFKRIRKSSSYDYEA 363
Query: 412 IXXXXXXXXXXXXHELKLCFLYLGLFPEDFEINVQTLIRLLVAEGFIQQDTDRSTEEVAG 471
+ ++K + L + +D ++ + L L D TEEV
Sbjct: 364 LDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW----------DMETEEVE- 412
Query: 472 EILDELINRSLIQIDKRCWGRIATCRVHDLLRDLAIEQ 509
+IL E +N+SL+ D+ G+ +HDL D E+
Sbjct: 413 DILQEFVNKSLLFCDRN--GKSFRYYLHDLQVDFLTEK 448
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 52/220 (23%), Positives = 84/220 (38%), Gaps = 9/220 (4%)
Query: 585 EMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHL-- 642
++ + VNL++L +++ + + LQ LDISGN + R I EL+ L
Sbjct: 192 DVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 251
Query: 643 -IGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAY 701
F G + L +LQ L E EI P+ L D F +
Sbjct: 252 SSNQFVGPIPPLPLKSLQYLSLAENKFTGEI-PDFLSGACDTLTGLDLSGNHFYGAVPPF 310
Query: 702 LKNLQLLSIRLSDDTCFDSLQPLSDCSYL-----IDLRLSGKIEKLPEDLHEVLPNLECL 756
+ LL F P+ + +DL + +LPE L + +L L
Sbjct: 311 FGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTL 370
Query: 757 SLKKSHLKEDPMPKLEKLPNLTILDLGLKSYGGKKMICTT 796
L ++ +P L + P T+ +L L++ G I T
Sbjct: 371 DLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPT 410
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 44/163 (26%), Positives = 70/163 (42%), Gaps = 21/163 (12%)
Query: 552 SSSLLLFNQRVLNFEGVVSNVLC-------------SVGGCYNLPEEMVKLVNLKYLRLT 598
S+SLL + NF G + LC + G +P + L L L+
Sbjct: 364 SASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS 423
Query: 599 NAHID-VIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHLIGNF---TGTL--NI 652
++ IPS + L +L+ L + NM E+P+E+ +K L LI +F TG + +
Sbjct: 424 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 483
Query: 653 ENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFS 695
N +NL + EI P+ + L +L I+ K FS
Sbjct: 484 SNCTNLNWISLSNNRLTGEI-PKWIGRLENLAIL-KLSNNSFS 524
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 52/220 (23%), Positives = 84/220 (38%), Gaps = 9/220 (4%)
Query: 585 EMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHL-- 642
++ + VNL++L +++ + + LQ LDISGN + R I EL+ L
Sbjct: 195 DVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 254
Query: 643 -IGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAY 701
F G + L +LQ L E EI P+ L D F +
Sbjct: 255 SSNQFVGPIPPLPLKSLQYLSLAENKFTGEI-PDFLSGACDTLTGLDLSGNHFYGAVPPF 313
Query: 702 LKNLQLLSIRLSDDTCFDSLQPLSDCSYL-----IDLRLSGKIEKLPEDLHEVLPNLECL 756
+ LL F P+ + +DL + +LPE L + +L L
Sbjct: 314 FGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTL 373
Query: 757 SLKKSHLKEDPMPKLEKLPNLTILDLGLKSYGGKKMICTT 796
L ++ +P L + P T+ +L L++ G I T
Sbjct: 374 DLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPT 413
Score = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 44/163 (26%), Positives = 70/163 (42%), Gaps = 21/163 (12%)
Query: 552 SSSLLLFNQRVLNFEGVVSNVLC-------------SVGGCYNLPEEMVKLVNLKYLRLT 598
S+SLL + NF G + LC + G +P + L L L+
Sbjct: 367 SASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS 426
Query: 599 NAHID-VIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHLIGNF---TGTL--NI 652
++ IPS + L +L+ L + NM E+P+E+ +K L LI +F TG + +
Sbjct: 427 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 486
Query: 653 ENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFS 695
N +NL + EI P+ + L +L I+ K FS
Sbjct: 487 SNCTNLNWISLSNNRLTGEI-PKWIGRLENLAIL-KLSNNSFS 527
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 68/339 (20%), Positives = 142/339 (41%), Gaps = 51/339 (15%)
Query: 193 LNKEPRRFVISVYGMGGLGKTTLARKLYHNNDVKNKFDRC-----AWVSVSQDYDTKDLL 247
LN EP +++YGM G GK+ LA + ++ + + C WVS+ + D LL
Sbjct: 150 LNGEPGW--VTIYGMAGCGKSVLAAEAVRDHSL---LEGCFSGGVHWVSIGKQ-DKSGLL 203
Query: 248 LRIIRSFKINVXXXXXXXXXXXXXXXYLHNCL------QGKSYLVVVDDAWQKETWESLK 301
+++ ++ + + + L + L+++DD W + W +
Sbjct: 204 MKL-QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW--DPW--VL 258
Query: 302 RAFPDNKNGSRVIITTRIKEVAERSDENAYAHKLRF-LRSDESWELFCEKAFRKSNGSEG 360
+AF N ++++TT K V + + + L ++ E+ + + E
Sbjct: 259 KAF---DNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKED 312
Query: 361 LEKLGREMVEKCRGLPLAIVVLGGLLSMKKPQEW----RRVRDHLWQHLKNDCIH----I 412
L ++++C+G PL + ++G LL P W R++++ ++ ++ + +
Sbjct: 313 LPAEAHSIIKECKGSPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFKRIRKSSSYDYEAL 371
Query: 413 XXXXXXXXXXXXHELKLCFLYLGLFPEDFEINVQTLIRLLVAEGFIQQDTDRSTEEVAGE 472
++K + L + +D ++ + L L D TEEV +
Sbjct: 372 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW----------DLETEEVE-D 420
Query: 473 ILDELINRSLIQIDKRCWGRIATCRVHDLLRDLAIEQAK 511
IL E +N+SL+ ++ G+ +HDL D E+ +
Sbjct: 421 ILQEFVNKSLLFCNRN--GKSFCYYLHDLQVDFLTEKNR 457
>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 = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 51/237 (21%), Positives = 103/237 (43%), Gaps = 39/237 (16%)
Query: 285 LVVVDDAWQKETWESLKRAFPDNKNGSRVIITTRIKEVAERSDENAYA----HKLRFLRS 340
L+++DD W ++W + +AF ++++TTR K V + Y L +
Sbjct: 245 LLILDDVW--DSW--VLKAFDSQ---CQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 297
Query: 341 DESWELFCEKAFRKSNGSEGLEKLGREMVEKCRGLPLAIVVLGGLLSMKKPQEW----RR 396
E LF +K++ L + ++++C+G PL + ++G LL P W ++
Sbjct: 298 LEILSLFVN--MKKAD----LPEQAHSIIKECKGSPLVVSLIGALLR-DFPNRWEYYLKQ 350
Query: 397 VRDHLWQHLKNDCIH----IXXXXXXXXXXXXHELKLCFLYLGLFPEDFEINVQTLIRLL 452
+++ ++ ++ + + ++K + L + +D ++ + L L
Sbjct: 351 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 410
Query: 453 VAEGFIQQDTDRSTEEVAGEILDELINRSLIQIDKRCWGRIATCRVHDLLRDLAIEQ 509
D TEEV +IL E +N+SL+ D+ G+ +HDL D E+
Sbjct: 411 ----------DMETEEVE-DILQEFVNKSLLFCDRN--GKSFRYYLHDLQVDFLTEK 454
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 32.7 bits (73), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%)
Query: 724 LSDCSYLIDLRLSGKIEKLPEDLHEVLPNLECLSLKKSHLKEDPMPKLEKLPNLTILDLG 783
L+D L L L IE++P L + L NLE + + L++ P K+P L L+L
Sbjct: 143 LTDMRNLSHLELRANIEEMPSHLFDDLENLESIEFGSNKLRQMPRGIFGKMPKLKQLNLA 202
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 202 ISVYGMGGLGKTTLARKLYHNNDVKNKFDRCAWVSVSQDY 241
+ +YG G GKT LAR + H+ D KF R + + Q Y
Sbjct: 185 VILYGPPGTGKTLLARAVAHHTDC--KFIRVSGAELVQKY 222
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 13/122 (10%)
Query: 588 KLVNLKYLRLTNAHIDVI-PSCIAKLQRLQTLDISGNMAFMELPREICELKELRHLIGNF 646
+L+NL +L LT I+ I +L TL ++GN + K L+HL
Sbjct: 52 RLMNLTFLDLTRCQINWIHEDTFQSHHQLSTLVLTGNPLIFMAETSLNGPKSLKHLFLIQ 111
Query: 647 TGTLNIE-----NLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAY 701
TG N+E NL NL++L Y+ + I K R+L+++ +F +I Y
Sbjct: 112 TGISNLEFIPVHNLENLESL-YLGSNHISSIKFPKDFPARNLKVL------DFQNNAIHY 164
Query: 702 LK 703
+
Sbjct: 165 IS 166
>pdb|3AYF|A Chain A, Crystal Structure Of Nitric Oxide Reductase
pdb|3AYG|A Chain A, Crystal Structure Of Nitric Oxide Reductase Complex With
Hqno
Length = 800
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 723 PLSDCSYLIDLRLSGKIEKLPEDLHEVLPNLECLSLKKSHLKEDPMPK 770
P++D L D ++ G +EK+ + +V N + LKK +KE MPK
Sbjct: 149 PVTDVLVLTDAQVYG-LEKVRDYYRDVFTNGDGWGLKKGLIKESDMPK 195
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 589 LVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHL 642
LVNL+YL L ++ IP+ A L RL+ L++SGN + P L LR L
Sbjct: 155 LVNLRYLNLGMCNLKDIPNLTA-LVRLEELELSGNRLDLIRPGSFQGLTSLRKL 207
>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 = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 589 LVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHL 642
LVNL+YL L ++ IP+ A L RL+ L++SGN + P L LR L
Sbjct: 155 LVNLRYLNLGMCNLKDIPNLTA-LVRLEELELSGNRLDLIRPGSFQGLTSLRKL 207
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 62/258 (24%), Positives = 106/258 (41%), Gaps = 36/258 (13%)
Query: 587 VKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHLIGNF 646
V+ +NL+ R + D+ S R+Q LD++ LP I + L+ L+
Sbjct: 255 VESINLQKHRFS----DLSSSTFRCFTRVQELDLTA-AHLNGLPSGIEGMNSLKKLV--- 306
Query: 647 TGTLNIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAYLKNLQ 706
LN + L +IN +LRDL I ++ + + + L+NLQ
Sbjct: 307 ---LNANSFDQL-----------CQINAASFPSLRDLYIKGNMRKLDLGTRCLEKLENLQ 352
Query: 707 LLSIRLSD----DTCFDSLQPLSDCSYLIDLRLSGKIEKLPEDLHEVLPNLECLSLKKSH 762
L + SD D C L+ L YL +L + + L + + P LE L + +H
Sbjct: 353 KLDLSHSDIEASDCCNLQLKNLRHLQYL-NLSYNEPL-GLEDQAFKECPQLELLDVAFTH 410
Query: 763 LK-EDPMPKLEKLPNLTILDLGLKSYGGKKMICTTKGFHLLEILQLIDLNDLAQWQVEDG 821
L + P + L L +L+L + T HLL LQ + +L +DG
Sbjct: 411 LHVKAPHSPFQNLHLLRVLNL-------SHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDG 463
Query: 822 AMPILRGLRVTNAYKLKI 839
++ L++ + ++ I
Sbjct: 464 SISKTNLLQMVGSLEILI 481
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 13/122 (10%)
Query: 588 KLVNLKYLRLTNAHID-VIPSCIAKLQRLQTLDISGNMAFMELPREICELKELRHLIGNF 646
+L+NL +L LT I+ V +L T+ ++GN + K L+HL
Sbjct: 54 RLINLIFLDLTRCQINWVHEDTFQSHHQLNTIVLTGNPLIFMAETSLTGPKFLKHLFLTQ 113
Query: 647 TGTLNIE-----NLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAY 701
TG N+E NL NL++L ++ + IN + ++L+++ +F +I Y
Sbjct: 114 TGISNLEFIPVHNLENLESL-HLGSNHISSINLPENFPTQNLKVL------DFQNNAIHY 166
Query: 702 LK 703
+
Sbjct: 167 IS 168
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 95/203 (46%), Gaps = 24/203 (11%)
Query: 590 VNLKYLRLTNAHIDVIPS-CIAKLQRLQTLDISGNMAFMELPREICELKELRHL--IGNF 646
NL+ L L ++ I+ I L L+ LD+S N L L++L +GN
Sbjct: 76 ANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNP 135
Query: 647 TGTLNI----ENLSNLQTLKYVERGSWAE---INPEKLVNLRDLRI----ISKYQEEEFS 695
TL + NL+NLQTL+ +++E I+ L +L +L I + YQ + S
Sbjct: 136 YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ--S 193
Query: 696 FKSIAYLKNLQLLSIRLSDDTCFDSLQP--LSDCSYLIDLRLS--GKIEKLPEDLHEVLP 751
KSI +++ L++ LS+ + LS YL +LR + + + P + EV
Sbjct: 194 LKSI---RDIHHLTLHLSESAFLLEIFADILSSVRYL-ELRDTNLARFQFSPLPVDEVSS 249
Query: 752 NLECLSLKKSHLKEDPMPKLEKL 774
++ L+ + S L ++ +L KL
Sbjct: 250 PMKKLAFRGSVLTDESFNELLKL 272
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 95/203 (46%), Gaps = 24/203 (11%)
Query: 590 VNLKYLRLTNAHIDVIPS-CIAKLQRLQTLDISGNMAFMELPREICELKELRHL--IGNF 646
NL+ L L ++ I+ I L L+ LD+S N L L++L +GN
Sbjct: 50 ANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNP 109
Query: 647 TGTLNIE----NLSNLQTLKYVERGSWAE---INPEKLVNLRDLRI----ISKYQEEEFS 695
TL + NL+NLQTL+ +++E I+ L +L +L I + YQ + S
Sbjct: 110 YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ--S 167
Query: 696 FKSIAYLKNLQLLSIRLSDDTCFDSLQP--LSDCSYLIDLRLS--GKIEKLPEDLHEVLP 751
KSI +++ L++ LS+ + LS YL +LR + + + P + EV
Sbjct: 168 LKSI---RDIHHLTLHLSESAFLLEIFADILSSVRYL-ELRDTNLARFQFSPLPVDEVSS 223
Query: 752 NLECLSLKKSHLKEDPMPKLEKL 774
++ L+ + S L ++ +L KL
Sbjct: 224 PMKKLAFRGSVLTDESFNELLKL 246
>pdb|2YNM|A Chain A, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
pdb|2YNM|B Chain B, 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 = 301
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 193 LNKEPRRFVISVYGMGGLGKTTLARKL 219
+N E VI+VYG GG+GK+T + L
Sbjct: 28 VNIEEGALVIAVYGKGGIGKSTTSSNL 54
>pdb|2CH7|B Chain B, Crystal Structure Of The Cytoplasmic Domain Of A Bacterial
Chemoreceptor From Thermotoga Maritima
Length = 309
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 15/93 (16%)
Query: 48 AEDKQVDDPMIRQWVSDIRDVAHDIEDVLYNFTLKVDDSAEIDDR--KRKPSFLGKMKIC 105
AE+ Q +R+ V++IR +A D V T +V++ ++ D ++ S +G +
Sbjct: 172 AEESQQASENVRRVVNEIRSIAEDAGKVSSEITARVEEGTKLADEADEKLNSIVGAV--- 228
Query: 106 LCVFNKGKEKID--LYNIGKEIEELRKRVSDIS 136
E+I+ L NI IEE V +I+
Sbjct: 229 --------ERINEMLQNIAAAIEEQNAAVDEIT 253
>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 = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 580 YNLPEEMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQTLDISGNMAFMELPREICELKEL 639
+N+ + K L L L + +P+ I L L+ LD+S N LP E+ +L
Sbjct: 237 FNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQL 295
Query: 640 R--HLIGNFTGTLNIE--NLSNLQTL 661
+ + N TL E NL NLQ L
Sbjct: 296 KYFYFFDNMVTTLPWEFGNLCNLQFL 321
>pdb|2CH7|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of A Bacterial
Chemoreceptor From Thermotoga Maritima
Length = 309
Score = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 15/93 (16%)
Query: 48 AEDKQVDDPMIRQWVSDIRDVAHDIEDVLYNFTLKVDDSAEIDDR--KRKPSFLGKMKIC 105
AE+ Q +R+ V++IR +A D V T +V++ ++ D ++ S +G +
Sbjct: 172 AEESQQASENVRRVVNEIRSIAEDAGKVSSEITARVEEGTKLADEADEKLNSIVGAV--- 228
Query: 106 LCVFNKGKEKID--LYNIGKEIEELRKRVSDIS 136
E+I+ L NI IEE V +I+
Sbjct: 229 --------ERINEMLQNIAAAIEEQTAAVDEIT 253
>pdb|3QTM|A Chain A, Crystal Structure Of Nro1ETT1 PROTEIN FROM S. POMBE (HIGH
RESOLUTION)
pdb|3QTM|B Chain B, Crystal Structure Of Nro1ETT1 PROTEIN FROM S. POMBE (HIGH
RESOLUTION)
Length = 346
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 46/164 (28%)
Query: 564 NFEGVVSNVLCSVGGCYNLPEEMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQ-TLDISG 622
+F S+ L +V + + ++ +K N + ++ID A ++R Q LD G
Sbjct: 68 DFHAAYSSALLAVSELFEIAQKRLKETNTE-----ESYID------AAIERAQLGLDAPG 116
Query: 623 NMA--FMELPREICELKELRHLIGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNL 680
N + F+ L R L+++R L+ W N E L N+
Sbjct: 117 NESRLFLALAR--AYLEKVRVLV-------------------------WRHDNEESLANI 149
Query: 681 RDLRIISKYQEEEFSFKSIAYLKNLQLLSIRLSDDTCFDSLQPL 724
++++ Y E K+I YL+ L S D DSL+PL
Sbjct: 150 PVTQLVNPYIE-----KAIQYLRPLAQDSTEYFDALTPDSLRPL 188
>pdb|3MSV|A Chain A, The Hypoxic Regulator Of Sterol Synthesis Nro1 Is A
Nuclear Import Adaptor
pdb|3MSV|B Chain B, The Hypoxic Regulator Of Sterol Synthesis Nro1 Is A
Nuclear Import Adaptor
Length = 393
Score = 29.6 bits (65), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 46/164 (28%)
Query: 564 NFEGVVSNVLCSVGGCYNLPEEMVKLVNLKYLRLTNAHIDVIPSCIAKLQRLQ-TLDISG 622
+F S+ L +V + + ++ +K N + ++ID A ++R Q LD G
Sbjct: 115 DFHAAYSSALLAVSELFEIAQKRLKETNTE-----ESYID------AAIERAQLGLDAPG 163
Query: 623 NMA--FMELPREICELKELRHLIGNFTGTLNIENLSNLQTLKYVERGSWAEINPEKLVNL 680
N + F+ L R L+++R L+ W N E L N+
Sbjct: 164 NESRLFLALAR--AYLEKVRVLV-------------------------WRHDNEESLANI 196
Query: 681 RDLRIISKYQEEEFSFKSIAYLKNLQLLSIRLSDDTCFDSLQPL 724
++++ Y E K+I YL+ L S D DSL+PL
Sbjct: 197 PVTQLVNPYIE-----KAIQYLRPLAQDSTEYFDALTPDSLRPL 235
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 57/119 (47%), Gaps = 12/119 (10%)
Query: 651 NIENLSNLQTLKYVERGSWAEINPEKLVNLRDLRIISKYQEEEFSFKSIAYLKNLQLLSI 710
N+ ++ LQ++K ++ S + L L +L+++ + + +A L NLQ LSI
Sbjct: 99 NVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI 158
Query: 711 ---RLSDDTCFDSLQPLSDCSYLIDLRL-SGKIEKLPEDLHEVLPNLECLSLKKSHLKE 765
++SD L PL++ S L L+ KI + LPNL + LK + + +
Sbjct: 159 GNAQVSD------LTPLANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQISD 209
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 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,086,765
Number of Sequences: 62578
Number of extensions: 1043771
Number of successful extensions: 2915
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 2850
Number of HSP's gapped (non-prelim): 92
length of query: 858
length of database: 14,973,337
effective HSP length: 107
effective length of query: 751
effective length of database: 8,277,491
effective search space: 6216395741
effective search space used: 6216395741
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: 56 (26.2 bits)