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= 044579
(1103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 133 bits (334), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 75/171 (43%), Positives = 102/171 (59%), Gaps = 3/171 (1%)
Query: 2 VSSSSQSKYEVFLSFRGEDTRNGFTSHLAAALHRKQIQFFIDDEELKKGDEISPALXXXX 61
+SS + +KY+VFLSFRG DTR+ F S L L R+ I+ F DD+EL+ G SP L
Sbjct: 1 MSSHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPI 60
Query: 62 XXXXXXXXXXXKGYASSRWCLNELVKILDCKKMNAQIVIPVFYQVDPSDVRKQRGSFGEA 121
+ YA+S WCL+ELV I+D +K + V+P+FY V+P+ VR Q G E
Sbjct: 61 EVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQ 120
Query: 122 FVNHDNNF-PGKVQKWRHALTEASNLSGYDSTESRNDAELVEKIVEDISKK 171
F H + P KV KWR ALT + LSG S + +D++LV+KI +IS K
Sbjct: 121 FKKHASREDPEKVLKWRQALTNFAQLSGDCSGD--DDSKLVDKIANEISNK 169
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 128 bits (321), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 67/162 (41%), Positives = 94/162 (58%), Gaps = 2/162 (1%)
Query: 9 KYEVFLSFRGEDTRNGFTSHLAAALHRKQIQFFIDDEELKKGDEISPALXXXXXXXXXXX 68
+YEVFLSFRG DTR FT L +L R +I F DD+EL KG EI P L
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 69 XXXXKGYASSRWCLNELVKILDCKKMNA-QIVIPVFYQVDPSDVRKQRGSFGEAFVNHDN 127
GYA S+WCL EL +I+ ++ + +I++P+FY VDPSDVR Q G + +AF H N
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 128 NFPGK-VQKWRHALTEASNLSGYDSTESRNDAELVEKIVEDI 168
F G+ +Q W+ AL + +L G+ ++ + +K+ DI
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADI 196
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 66/230 (28%), Positives = 91/230 (39%), Gaps = 49/230 (21%)
Query: 622 KSIDLCHSQHL-IRMPDLSEIPNLERTNFFNCTNLVL-------VPSSIQNFNNLSMLCF 673
++ L H QH I L E+P+ + F L L +P+SI + N L L
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQ-QFAGLETLTLARNPLRALPASIASLNRLRELSI 157
Query: 674 RGCESLRSFPRDIHFVSPVTIDFSFCVNLTEFPKISGKITELNLCDTAIEEVPSSVECLT 733
R C L P + + + + VNL L L T I +P+S+ L
Sbjct: 158 RACPELTELPEPLA-STDASGEHQGLVNLQS----------LRLEWTGIRSLPASIANLQ 206
Query: 734 NLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSSFANLEGLEKLVLVG 793
NLK L + R S L+ L +I L L EL L C +L P F L++L+L
Sbjct: 207 NLKSLKI-RNSPLSALGPAIHHLPKLEELDLRGCTALRN---YPPIFGGRAPLKRLILKD 262
Query: 794 CSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPSSIKQLSQLRKLDLSNC 843
CS N +LP I +L+QL KLDL C
Sbjct: 263 CS-------------------------NLLTLPLDIHRLTQLEKLDLRGC 287
Score = 49.7 bits (117), Expect = 9e-06, Method: Composition-based stats.
Identities = 32/119 (26%), Positives = 53/119 (44%), Gaps = 1/119 (0%)
Query: 595 LENLIELRLPYSKVEQIWEGKKEASKLKSIDLCHSQHLIRMPDLSEIPNLERTNFFNCTN 654
L NL LRL ++ + + LKS+ + +S P + +P LE + CT
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 655 LVLVPSSIQNFNNLSMLCFRGCESLRSFPRDIHFVSPV-TIDFSFCVNLTEFPKISGKI 712
L P L L + C +L + P DIH ++ + +D CVNL+ P + ++
Sbjct: 242 LRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>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 = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 82/319 (25%), Positives = 136/319 (42%), Gaps = 76/319 (23%)
Query: 208 VGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVR----EKANKMGVIHV--------- 254
V I GM G GK+ +A+ S +G CF V K +K G++
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSL-LEG-CFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 213
Query: 255 RDEVISQVLGENLKIGTLIVPQNIKKRLQRVKVL---------IVLDDVNDEFTQLESLA 305
+DE SQ L P NI++ R+++L ++LDDV D +
Sbjct: 214 QDESFSQRL-----------PLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWV------ 256
Query: 306 GGVDRFSPGSRIVITTRDKQVLDKC-GVSYIYKVKR-LEHDNALELFCRKAIRQNSRSQD 363
+ F +I++TTRDK V D G Y+ V+ L + LE+ ++ N + D
Sbjct: 257 --LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEIL---SLFVNMKKAD 311
Query: 364 LLELSKEIVGYAKGNPLALEVLGSSLYQKSKQQWKVKLQNL-----KLISEPNIYN---- 414
L E + I+ KG+PL + ++G +L + +W+ L+ L K I + + Y+
Sbjct: 312 LPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL 370
Query: 415 --VLKISYDDLNPEEKKIFLDIACFFKGEDADFVTRI---------QDDPTSLDNIVDKS 463
+ IS + L + K + D++ K D T++ ++ L V+KS
Sbjct: 371 DEAMSISVEMLREDIKDYYTDLSILQK--DVKVPTKVLCILWDMETEEVEDILQEFVNKS 428
Query: 464 LITISDEN----RLQMHDL 478
L+ D N R +HDL
Sbjct: 429 LL-FCDRNGKSFRYYLHDL 446
>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 = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 82/319 (25%), Positives = 136/319 (42%), Gaps = 76/319 (23%)
Query: 208 VGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVR----EKANKMGVIHV--------- 254
V I GM G GK+ +A+ S +G CF V K +K G++
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSL-LEG-CFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 207
Query: 255 RDEVISQVLGENLKIGTLIVPQNIKKRLQRVKVL---------IVLDDVNDEFTQLESLA 305
+DE SQ L P NI++ R+++L ++LDDV D +
Sbjct: 208 QDESFSQRL-----------PLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWV------ 250
Query: 306 GGVDRFSPGSRIVITTRDKQVLDKC-GVSYIYKVKR-LEHDNALELFCRKAIRQNSRSQD 363
+ F +I++TTRDK V D G Y+ V+ L + LE+ ++ N + D
Sbjct: 251 --LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEIL---SLFVNMKKAD 305
Query: 364 LLELSKEIVGYAKGNPLALEVLGSSLYQKSKQQWKVKLQNL-----KLISEPNIYN---- 414
L E + I+ KG+PL + ++G +L + +W+ L+ L K I + + Y+
Sbjct: 306 LPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL 364
Query: 415 --VLKISYDDLNPEEKKIFLDIACFFKGEDADFVTRI---------QDDPTSLDNIVDKS 463
+ IS + L + K + D++ K D T++ ++ L V+KS
Sbjct: 365 DEAMSISVEMLREDIKDYYTDLSILQK--DVKVPTKVLCILWDMETEEVEDILQEFVNKS 422
Query: 464 LITISDEN----RLQMHDL 478
L+ D N R +HDL
Sbjct: 423 LL-FCDRNGKSFRYYLHDL 440
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 56/213 (26%), Positives = 98/213 (46%), Gaps = 31/213 (14%)
Query: 208 VGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVR----EKANKMGVIHVRDEVISQVL 263
V I+GM G GK+ +A+ S +G CF V K +K G++ + ++
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 207
Query: 264 GENLKIGTLIVPQNIKKRLQRVKVL---------IVLDDVNDEFTQLESLAGGVDRFSPG 314
E L P NI++ R++VL ++LDDV D + + F
Sbjct: 208 QEESFSQRL--PLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWV--------LKAFDNQ 257
Query: 315 SRIVITTRDKQVLDKC-GVSYIYKVKR-LEHDNALELFCRKAIRQNSRSQDLLELSKEIV 372
+I++TTRDK V D G ++ V+ L + LE+ ++ N + +DL + I+
Sbjct: 258 CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSII 314
Query: 373 GYAKGNPLALEVLGSSLYQKSKQQWKVKLQNLK 405
KG+PL + ++G +L + +W L+ L+
Sbjct: 315 KECKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQ 346
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 55/213 (25%), Positives = 97/213 (45%), Gaps = 31/213 (14%)
Query: 208 VGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVR----EKANKMGVIHVRDEVISQVL 263
V I+GM G GK+ +A+ S +G CF V K +K G++ + ++
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 214
Query: 264 GENLKIGTLIVPQNIKKRLQRVKVL---------IVLDDVNDEFTQLESLAGGVDRFSPG 314
E L P NI++ R++VL ++LDDV D + + F
Sbjct: 215 QEESFSQRL--PLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWV--------LKAFDNQ 264
Query: 315 SRIVITTRDKQVLDKC-GVSYIYKVKR-LEHDNALELFCRKAIRQNSRSQDLLELSKEIV 372
+I++TT DK V D G ++ V+ L + LE+ ++ N + +DL + I+
Sbjct: 265 CQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSII 321
Query: 373 GYAKGNPLALEVLGSSLYQKSKQQWKVKLQNLK 405
KG+PL + ++G +L + +W L+ L+
Sbjct: 322 KECKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQ 353
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 67/254 (26%), Positives = 118/254 (46%), Gaps = 30/254 (11%)
Query: 594 ELENLIELRLPYSKVEQIWEGKKEASKLKSIDLCHSQHLIRMPDLSEIPNLER-TNFFNC 652
ELE++ +L + KV I +G + + L+ ++L +Q + D+S + NL + TN +
Sbjct: 42 ELESITKLVVAGEKVASI-QGIEYLTNLEYLNLNGNQ----ITDISPLSNLVKLTNLYIG 96
Query: 653 TNLVLVPSSIQNFNNLSMLCFRGCESLRSFPRDIHFVSPVTIDFSFCV----NLTEFPKI 708
TN + S++QN NL L DI ++ +T +S + NL++ +
Sbjct: 97 TNKITDISALQNLTNLRELYLN-----EDNISDISPLANLTKXYSLNLGANHNLSDLSPL 151
Query: 709 SGKITELNLCDTAIEEVPSSVECLTNLKELYLSRCSTLNRLS--TSICKLKSLHELILSD 766
S T LN T E V + NL +LY S N++ + + L SLH
Sbjct: 152 SNX-TGLNYL-TVTESKVKDVTPIANLTDLY-SLSLNYNQIEDISPLASLTSLHYF---- 204
Query: 767 CLSLETITELPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLP 826
+ IT++ + AN L L +G +K+ L LS L WL++ N +
Sbjct: 205 TAYVNQITDI-TPVANXTRLNSLK-IGNNKITDLSP---LANLSQLTWLEIGTNQISDI- 258
Query: 827 SSIKQLSQLRKLDL 840
+++K L++L+ L++
Sbjct: 259 NAVKDLTKLKXLNV 272
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 38.1 bits (87), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 40/112 (35%), Positives = 58/112 (51%), Gaps = 9/112 (8%)
Query: 726 PSSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSS-FANLE 784
P + L NLKELYL + L L + SL +L + D L +T LPS+ F L
Sbjct: 57 PGVFDSLINLKELYLGS-NQLGALPVGV--FDSLTQLTVLD-LGTNQLTVLPSAVFDRLV 112
Query: 785 GLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLP-SSIKQLSQL 835
L++L + C+KL +LP I+ L+ L L L N +S+P + +LS L
Sbjct: 113 HLKELFMC-CNKLTELPRGIER--LTHLTHLALDQNQLKSIPHGAFDRLSSL 161
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.8 bits (81), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 8/118 (6%)
Query: 727 SSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSS-FANLEG 785
S+++ LTNL L L+ + + KL +L EL+L + + LP F L
Sbjct: 79 SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE----NQLQSLPDGVFDKLTN 134
Query: 786 LEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPSSI-KQLSQLRKLDLSN 842
L L L ++L LP + F L++L LDL N +SLP + +L+QL++L L++
Sbjct: 135 LTYLYLYH-NQLQSLPKGV-FDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLND 190
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 35.4 bits (80), Expect = 0.18, Method: Composition-based stats.
Identities = 38/121 (31%), Positives = 58/121 (47%), Gaps = 6/121 (4%)
Query: 722 IEEVPS-SVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSSF 780
I VP+ S + NL L+L + + + L L +L LSD L + P++F
Sbjct: 43 ISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVD--PTTF 100
Query: 781 ANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLP-SSIKQLSQLRKLD 839
L L L L C L +L + F L++LQ+L L NN ++LP ++ + L L L
Sbjct: 101 RGLGHLHTLHLDRCG-LQELGPGL-FRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLF 158
Query: 840 L 840
L
Sbjct: 159 L 159
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 58/126 (46%), Gaps = 20/126 (15%)
Query: 702 LTEFPKISGKITELNLCDTAIEEVPSSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHE 761
L P++ + L+ CD + +P E +LK L + N T + +L +L E
Sbjct: 92 LISLPELPASLEYLDACDNRLSTLP---ELPASLKHLDVD-----NNQLTXLPELPALLE 143
Query: 762 LILSDCLSLETITELPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNN 821
I +D L + ELP+S +++ V ++L LP SL+ LD+S N
Sbjct: 144 YINADNNQLTXLPELPTSL-------EVLSVRNNQLTFLPE-----LPESLEALDVSTNL 191
Query: 822 FESLPS 827
ESLP+
Sbjct: 192 LESLPA 197
Score = 34.7 bits (78), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 49/163 (30%), Positives = 74/163 (45%), Gaps = 24/163 (14%)
Query: 730 ECLTN-LKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSSFANLEGLEK 788
ECL N EL L+R + L+ L ++ ++ E+ + +SL ELP+S L+ +
Sbjct: 55 ECLINQFSELQLNRLN-LSSLPDNLPPQITVLEITQNALISL---PELPASLEYLDACDN 110
Query: 789 LVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPSSIKQLSQLRKLDLSNCNMXXX 848
+ S L +LP +SL+ LD+ N LP +L L + ++ N
Sbjct: 111 RL----STLPELP--------ASLKHLDVDNNQLTXLP----ELPALLEYINADNNQLTX 154
Query: 849 XXXXXXXXXXXXARNCKRLQFLPEIPSCLEELDAS--MLEKPP 889
RN +L FLPE+P LE LD S +LE P
Sbjct: 155 LPELPTSLEVLSVRN-NQLTFLPELPESLEALDVSTNLLESLP 196
>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 = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 803 SIDFCCLSSLQWLDLSGNNFESLPSSIKQLSQLRKLDLS 841
S F C + LQ LDL+ + + LPS +K L+ L+KL LS
Sbjct: 268 STTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKLVLS 306
>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 = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 59/116 (50%), Gaps = 8/116 (6%)
Query: 727 SSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLETITELPSS-FANLEG 785
S+++ LTNL L L+ + + KL +L EL+L + + LP F L
Sbjct: 79 SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE----NQLQSLPDGVFDKLTN 134
Query: 786 LEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPSSI-KQLSQLRKLDL 840
L L L ++L LP + F L++L LDLS N +SLP + +L+QL+ L L
Sbjct: 135 LTYLNL-AHNQLQSLPKGV-FDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 33.9 bits (76), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 76 ASSRWCLNELVKILDCKKMNAQIVIPVFYQVDPSDVRKQRGSFGEAFVN 124
A+ R L ++I D + N Q V+P + P D + Q G+F + +N
Sbjct: 527 AAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAFEASLMN 575
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 33.9 bits (76), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 22/36 (61%)
Query: 806 FCCLSSLQWLDLSGNNFESLPSSIKQLSQLRKLDLS 841
F C S LQ LDL+ + LPS + LS L+KL LS
Sbjct: 274 FHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS 309
>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 = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 5/82 (6%)
Query: 712 ITELNLCDTAIEEVPSSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELILSDCLSLE 771
+T L L ++ E+P+ ++ L+NL+ L LS NRL++ +L S +L
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSH----NRLTSLPAELGSCFQLKYFYFFD-N 303
Query: 772 TITELPSSFANLEGLEKLVLVG 793
+T LP F NL L+ L + G
Sbjct: 304 MVTTLPWEFGNLCNLQFLGVEG 325
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 815 LDLSGNNFESLPSSIKQLSQLRKLDLSN 842
L L+GN+ LP+ IK LS LR LDLS+
Sbjct: 252 LYLNGNSLTELPAEIKNLSNLRVLDLSH 279
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 10/66 (15%)
Query: 175 MSESTDLDGLVGLNTRIEEMKSLLCL----------ESHDVRIVGIWGMGGIGKTTIASV 224
+ E +DLD L T+++ K + L E+ + I+GI G GIGKTT A +
Sbjct: 254 LKEVSDLDLSKDLKTKMKWTKIIKKLGDFQLVVDNGEAKEGEIIGILGPNGIGKTTFARI 313
Query: 225 VFHQIS 230
+ +I+
Sbjct: 314 LVGEIT 319
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 208 VGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVREKANK 248
+G++G G+GKT + + H I++ G A V E+ +
Sbjct: 154 IGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTRE 194
>pdb|2V84|A Chain A, Crystal Structure Of The Tp0655 (Tppotd) Lipoprotein Of
Treponema Pallidum
Length = 343
Score = 30.8 bits (68), Expect = 4.6, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 11/82 (13%)
Query: 278 IKKRLQRVKVLIVLDDV---NDEFTQLESLAGGVDRFSPGSRIVITTRDKQVLDKCGVSY 334
IKK Q+ V +V DD D F +L A G D P V + K +L+K +S
Sbjct: 41 IKKFEQQYNVQVVYDDYASNEDMFAKLSIGASGYDLVVPSGDFVSIMKRKHLLEKIDLSK 100
Query: 335 IYKVK--------RLEHDNALE 348
I V+ R+ +D +E
Sbjct: 101 IPNVQFIKESVRARIAYDPKME 122
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 806 FCCLSSLQWLDLSGNNFES--LPSSIKQLSQLRKLDLSNCNM 845
F LSSL+ L ++GN+F+ LP +L L LDLS C +
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 482
Score = 30.4 bits (67), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 776 LPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPS-SIKQLSQ 834
LP F L L L L C +L +L + F LSSLQ L++S NNF SL + K L+
Sbjct: 462 LPDIFTELRNLTFLDLSQC-QLEQLSPTA-FNSLSSLQVLNMSHNNFFSLDTFPYKCLNS 519
Query: 835 LRKLDLS 841
L+ LD S
Sbjct: 520 LQVLDYS 526
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 806 FCCLSSLQWLDLSGNNFES--LPSSIKQLSQLRKLDLSNCNM 845
F LSSL+ L ++GN+F+ LP +L L LDLS C +
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 482
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 806 FCCLSSLQWLDLSGNNFES--LPSSIKQLSQLRKLDLSNCNM 845
F LSSL+ L ++GN+F+ LP +L L LDLS C +
Sbjct: 465 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 506
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 776 LPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPS-SIKQLSQ 834
LP F L L L L C +L +L + F LSSLQ L++S NNF SL + K L+
Sbjct: 486 LPDIFTELRNLTFLDLSQC-QLEQLSPTA-FNSLSSLQVLNMSHNNFFSLDTFPYKCLNS 543
Query: 835 LRKLDLS 841
L+ LD S
Sbjct: 544 LQVLDYS 550
>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 = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 56/127 (44%), Gaps = 24/127 (18%)
Query: 725 VPSSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELI-------------LSDCLSLE 771
+PSS+ L+ L++L L + + +K+L LI LS+C +L
Sbjct: 431 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLN 490
Query: 772 TIT--------ELPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFE 823
I+ E+P LE L L L S +P + C SL WLDL+ N F
Sbjct: 491 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDC--RSLIWLDLNTNLFN 548
Query: 824 -SLPSSI 829
++P+++
Sbjct: 549 GTIPAAM 555
>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 = 30.0 bits (66), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 803 SIDFCCLSSLQWLDLSGNNFESLPSSIKQLSQLRKLDLS 841
S F C + +Q LDL+ + LPS I+ ++ L+KL L+
Sbjct: 270 SSTFRCFTRVQELDLTAAHLNGLPSGIEGMNSLKKLVLN 308
>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 = 30.0 bits (66), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 56/127 (44%), Gaps = 24/127 (18%)
Query: 725 VPSSVECLTNLKELYLSRCSTLNRLSTSICKLKSLHELI-------------LSDCLSLE 771
+PSS+ L+ L++L L + + +K+L LI LS+C +L
Sbjct: 434 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLN 493
Query: 772 TIT--------ELPSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFE 823
I+ E+P LE L L L S +P + C SL WLDL+ N F
Sbjct: 494 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDC--RSLIWLDLNTNLFN 551
Query: 824 -SLPSSI 829
++P+++
Sbjct: 552 GTIPAAM 558
>pdb|1KNQ|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KNQ|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO1|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO1|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO5|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO5|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO8|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO8|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KOF|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KOF|B Chain B, Crystal Structure Of Gluconate Kinase
Length = 175
Score = 29.6 bits (65), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 198 LCLESHDVRIVGIWGMGGIGKTTIASVVFHQISRHFQGKCFMANVREKANKMG 250
+ +HD I + G+ G GK+ +AS V HQ+ F F+ + R KM
Sbjct: 1 MSTTNHDHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDFL-HPRRNIEKMA 52
>pdb|1XEU|A Chain A, Crystal Structure Of Internalin C From Listeria
Monocytogenes
Length = 263
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 63/130 (48%), Gaps = 21/130 (16%)
Query: 727 SSVECLTNLKELYLSR-----------CSTLNRLSTSICKLKSLHELILSDCLSLETI-- 773
+ ++ TNLKEL+LS + L LS + +LK+L+ I S CLS +
Sbjct: 57 AGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNLNG-IPSACLSRLFLDN 115
Query: 774 TEL--PSSFANLEGLEKLVLVGCSKLNKLPHSIDFCCLSSLQWLDLSGNNFESLPSSIKQ 831
EL S +L+ LE L + + NKL + LS L+ LDL GN + + +
Sbjct: 116 NELRDTDSLIHLKNLEILSI----RNNKLKSIVMLGFLSKLEVLDLHGNEITNT-GGLTR 170
Query: 832 LSQLRKLDLS 841
L ++ +DL+
Sbjct: 171 LKKVNWIDLT 180
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 809 LSSLQWLDLSGNNFES--LPSSIKQLSQLRKLDLSNCNM 845
LSSL+ L ++GN+F+ LP +L L LDLS C +
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 187
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
0.319 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,975,242
Number of Sequences: 62578
Number of extensions: 1275430
Number of successful extensions: 3718
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 3626
Number of HSP's gapped (non-prelim): 97
length of query: 1103
length of database: 14,973,337
effective HSP length: 109
effective length of query: 994
effective length of database: 8,152,335
effective search space: 8103420990
effective search space used: 8103420990
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)