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= 002299
(940 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 = 134 bits (336), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 74/161 (45%), Positives = 97/161 (60%), Gaps = 4/161 (2%)
Query: 21 KYDVFLSFRGEDTRGNFTSHLFSALSKKHIETFIDD-QLIRGDEISQSLLDAIEASTISV 79
KYDVFLSFRG DTR NF S L+ L ++ I TF DD +L G S L IE S +V
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 80 IIFSEGYASSKWCLDELLKIIDCKNNSGQMVIPVFYRVDPSHVRKQIGSFGDSISNLEER 139
++ SE YA+S WCLDEL+ I+D + V+P+FY V+P+HVR Q G + R
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 140 F-PEKMQRWRNALTEAANLSGFDSHVTRPESKLIEEIVGEV 179
PEK+ +WR ALT A LSG S +SKL+++I E+
Sbjct: 128 EDPEKVLKWRQALTNFAQLSGDCS--GDDDSKLVDKIANEI 166
>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 = 116 bits (291), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 62/143 (43%), Positives = 91/143 (63%), Gaps = 3/143 (2%)
Query: 21 KYDVFLSFRGEDTRGNFTSHLFSALSKKHIETF-IDDQLIRGDEISQSLLDAIEASTISV 79
+Y+VFLSFRG DTR FT L+ +L + I TF DD+L++G EI +LL AI+ S I V
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 80 IIFSEGYASSKWCLDELLKIIDCK-NNSGQMVIPVFYRVDPSHVRKQIGSFGDSISNLEE 138
I S GYA SKWCL EL +I+ + + ++++P+FY VDPS VR Q G + +
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 139 RFP-EKMQRWRNALTEAANLSGF 160
+F + +Q W++AL + +L G+
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGW 177
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 63.2 bits (152), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 59/200 (29%), Positives = 84/200 (42%), Gaps = 22/200 (11%)
Query: 655 CSSLMETHSSIQYLNKLAFLYLVSCESLRSLPHTIRS-ESLFELRLSGCTSLKRFPKISS 713
+ L E + Q L L L LR+LP +I S L EL + C L P+ +
Sbjct: 113 AAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASLNRLRELSIRACPELTELPEPLA 171
Query: 714 CF-----------LKDLDLESCGIEELPSSIECLYNLRSIDLLNCTRLEYIASSIFTLKS 762
L+ L LE GI LP+SI L NL+S+ + N + L + +I L
Sbjct: 172 STDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPK 230
Query: 763 LESIRISKCSNLRKFPEIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASL 822
LE + + C+ LR +P I R L +L L +CS L + P + L L
Sbjct: 231 LEELDLRGCTALRNYPPIFG--------GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Query: 823 KIIDCPRLDGLPDELGNLKA 842
+ C L LP + L A
Sbjct: 283 DLRGCVNLSRLPSLIAQLPA 302
Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 67/227 (29%), Positives = 100/227 (44%), Gaps = 31/227 (13%)
Query: 695 FELRLSGCTSLKRFP--KISSCFLKDLDLESCGIEELPSSIECLYNLRSIDLLNCTRLEY 752
ELR L +FP L+ +++ G+ ELP + + L ++ L L
Sbjct: 86 LELR---SVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRA 141
Query: 753 IASSIFTLKSLESIRISKCSNLRKFPEIPSCIIDEAGIKRQALSKLELNNCSRLE----- 807
+ +SI +L L + I C L + PE P D +G + Q L L+ RLE
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPE-PLASTDASG-EHQGLVNLQ---SLRLEWTGIR 196
Query: 808 SFPSSLCMFESLASLKIIDCPRLDGLPDELGNLKALEELTVEG-TAMREVPESLGQL--- 863
S P+S+ ++L SLKI + P L L + +L LEEL + G TA+R P G
Sbjct: 197 SLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPL 255
Query: 864 ----------LESLPSSLYKSKCLQDSYLDDCPNLHRLPDELGSLEA 900
L +LP +++ L+ L C NL RLP + L A
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 44/95 (46%), Gaps = 1/95 (1%)
Query: 618 VQNLVNLKEIDLSDSKQLTKLPDLSLARNLESLDLWGCSSLMETHSSIQYLNKLAFLYLV 677
+ NL NLK + + +S P + LE LDL GC++L L L L
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK 261
Query: 678 SCESLRSLPHTI-RSESLFELRLSGCTSLKRFPKI 711
C +L +LP I R L +L L GC +L R P +
Sbjct: 262 DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 24/115 (20%), Positives = 58/115 (50%), Gaps = 6/115 (5%)
Query: 22 YDVFLSFRGEDTRGNFTSHLFSALSKKHIETFIDDQLIR-GDEISQSLLDAIEASTISVI 80
+D+F+S ED + +F L L E + DD +R GD + +S+ + +S ++
Sbjct: 21 HDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIV 79
Query: 81 IFSEGYASSKWCLDELLKIIDCKNNSGQMVIPVFYRVDPSHVRKQIGSFGDSISN 135
+ S + +W EL + +++ ++P++++V + ++ SF ++++
Sbjct: 80 VLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVS----KDEVASFSPTMAD 130
>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 = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 50/183 (27%), Positives = 88/183 (48%), Gaps = 18/183 (9%)
Query: 681 SLRSLPHTIRSESLFELRLSGCTSLKRFPKISSCFLKDLDLESCGIEELPS-SIECLYNL 739
+ LP ++ + LF+ RL+ + + F +S L++L L + IE +PS + + +L
Sbjct: 78 AFNGLP-SLNTLELFDNRLTTVPT-QAFEYLSK--LRELWLRNNPIESIPSYAFNRVPSL 133
Query: 740 RSIDLLNCTRLEYIASSIF-TLKSLESIRISKCSNLRKFPEIPSCIIDEAGIKRQALSKL 798
R +DL RLEYI+ + F L +L + + C NL+ P + + + L +L
Sbjct: 134 RRLDLGELKRLEYISEAAFEGLVNLRYLNLGMC-NLKDIPNLTALV---------RLEEL 183
Query: 799 ELNNCSRLESF-PSSLCMFESLASLKIIDCPRLDGLPDELGNLKALEELTVEGTAMREVP 857
EL+ +RL+ P S SL L ++ + +LK+LEEL + + +P
Sbjct: 184 ELSG-NRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLSHNNLMSLP 242
Query: 858 ESL 860
L
Sbjct: 243 HDL 245
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 90/190 (47%), Gaps = 18/190 (9%)
Query: 681 SLRSLPHTIRSESLFELRLSGCTSLKRFPKISSCFLKDLDLESCGIEELPS-SIECLYNL 739
+ LP ++ + LF+ RL+ + + F +S L++L L + IE +PS + + +L
Sbjct: 78 AFNGLP-SLNTLELFDNRLTTVPT-QAFEYLSK--LRELWLRNNPIESIPSYAFNRVPSL 133
Query: 740 RSIDLLNCTRLEYIASSIF-TLKSLESIRISKCSNLRKFPEIPSCIIDEAGIKRQALSKL 798
R +DL RLEYI+ + F L +L + + C NL+ P + + + L +L
Sbjct: 134 RRLDLGELKRLEYISEAAFEGLVNLRYLNLGMC-NLKDIPNLTALV---------RLEEL 183
Query: 799 ELNNCSRLESF-PSSLCMFESLASLKIIDCPRLDGLPDELGNLKALEELTVEGTAMREVP 857
EL+ +RL+ P S SL L ++ + +LK+LEEL + + +P
Sbjct: 184 ELSG-NRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLSHNNLMSLP 242
Query: 858 ESLGQLLESL 867
L L L
Sbjct: 243 HDLFTPLHRL 252
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 46/86 (53%), Gaps = 4/86 (4%)
Query: 716 LKDLDLESCGIEELPS-SIECLYNLRSIDLLNCTRLEYIASSIF-TLKSLESIRISKCSN 773
LK+L L + IE +PS + + +LR +DL RL YI+ F L +L + ++ C N
Sbjct: 138 LKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-N 196
Query: 774 LRKFPEIPSCI-IDEAGIKRQALSKL 798
LR+ P + I +DE + LS +
Sbjct: 197 LREIPNLTPLIKLDELDLSGNHLSAI 222
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 53/124 (42%), Gaps = 22/124 (17%)
Query: 321 FASGSRIIITTRDKQVLSNCRVDQIYDVKELVDVDA----------LKLFSRCAFGEDDP 370
F + +I++TTRDK V D + K +V V++ L LF ED P
Sbjct: 254 FDNQCQILLTTRDKSV-----TDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-KEDLP 307
Query: 371 TASYTKLTHEAVKYAKGVPLALKVLGSFLSGRRKEEWKSAMRKLEIVPHMEIQEVLKISY 430
+ H +K KG PL + ++G+ L W +R+L+ I++ Y
Sbjct: 308 AEA-----HSIIKECKGSPLVVSLIGALLRD-FPNRWAYYLRQLQNKQFKRIRKSSSYDY 361
Query: 431 DGLD 434
+ LD
Sbjct: 362 EALD 365
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 33.1 bits (74), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 49/123 (39%), Gaps = 24/123 (19%)
Query: 18 RKNKYDVFLSFRGEDTRG----------NFTSHLFSALSKKHIETFIDDQLIRGDEISQS 67
R YD F+S+ D NF L K+ I G I +
Sbjct: 2 RNIXYDAFVSYSERDAYWVENLMVQELENFNPPFKLXLHKR--------DFIHGKWIIDN 53
Query: 68 LLDAIEASTISVIIFSEGYASSKWCLDEL----LKIIDCKNNSGQMVI--PVFYRVDPSH 121
++D+IE S +V + SE + S+W EL ++ D N++ +++ P+ + P
Sbjct: 54 IIDSIEKSHKTVFVLSENFVKSEWXKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQR 113
Query: 122 VRK 124
K
Sbjct: 114 FXK 116
>pdb|1MZS|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii With
Bound Dichlorobenzyloxy-Indole-Carboxylic Acid Inhibitor
Length = 317
Score = 33.1 bits (74), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 779 EIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIIDCPRLD 831
E + I+ AGI++ + + + S +FPS+ C +S+ L I CP D
Sbjct: 57 EAATRAIEMAGIEKDQIGLIVVATTSATHAFPSAACQIQSM--LGIKGCPAFD 107
>pdb|3IL9|A Chain A, Structure Of E. Coli Fabh
pdb|3IL9|B Chain B, Structure Of E. Coli Fabh
Length = 340
Score = 32.7 bits (73), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 779 EIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIIDCPRLD 831
E + I+ AGI++ + + + S +FPS+ C +S+ L I CP D
Sbjct: 80 EAATRAIEMAGIEKDQIGLIVVATTSATHAFPSAACQIQSM--LGIKGCPAFD 130
>pdb|1HN9|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii
pdb|1HN9|B Chain B, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii
pdb|1HND|A Chain A, Crystal Structure Of Beta-ketoacyl-acp Synthase Iii-coa
Complex
pdb|1HNJ|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii +
Malonyl-Coa
pdb|1HNK|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii, Apo
Tetragonal Form
pdb|2EFT|A Chain A, Methanethiol-Cys 112 Inhibition Complex Of E. Coli
Ketoacyl Synthase Iii (Fabh) And Coenzyme A (High
Concentration (1.7mm) Soak)
pdb|2EFT|B Chain B, Methanethiol-Cys 112 Inhibition Complex Of E. Coli
Ketoacyl Synthase Iii (Fabh) And Coenzyme A (High
Concentration (1.7mm) Soak)
pdb|2GYO|A Chain A, Methanethiol-Cys 112 Inhibition Complex Of E. Coli
Ketoacyl Synthase Iii (Fabh) And Coenzyme A
pdb|2GYO|B Chain B, Methanethiol-Cys 112 Inhibition Complex Of E. Coli
Ketoacyl Synthase Iii (Fabh) And Coenzyme A
Length = 317
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 779 EIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIIDCPRLD 831
E + I+ AGI++ + + + S +FPS+ C +S+ L I CP D
Sbjct: 57 EAATRAIEMAGIEKDQIGLIVVATTSATHAFPSAACQIQSM--LGIKGCPAFD 107
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 52/124 (41%), Gaps = 22/124 (17%)
Query: 321 FASGSRIIITTRDKQVLSNCRVDQIYDVKELVDVDA----------LKLFSRCAFGEDDP 370
F S +I++TTRDK V D + K +V V++ L LF
Sbjct: 260 FDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESSLGKEKGLEILSLFVNM------K 308
Query: 371 TASYTKLTHEAVKYAKGVPLALKVLGSFLSGRRKEEWKSAMRKLEIVPHMEIQEVLKISY 430
A + H +K KG PL + ++G+ L W+ +++L+ I++ Y
Sbjct: 309 KADLPEQAHSIIKECKGSPLVVSLIGALLRD-FPNRWEYYLKQLQNKQFKRIRKSSSYDY 367
Query: 431 DGLD 434
+ LD
Sbjct: 368 EALD 371
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/121 (23%), Positives = 51/121 (42%), Gaps = 20/121 (16%)
Query: 18 RKNKYDVFLSFRGEDTRGNFTSHLFSALSKKHIETFIDD--------QLIRGDEISQSLL 69
R YD F+S+ D ++ L + +E F I G I +++
Sbjct: 2 RNIXYDAFVSYSERD------AYWVENLXVQELENFNPPFKLXLHKRDFIPGKWIIDNII 55
Query: 70 DAIEASTISVIIFSEGYASSKWCLDEL----LKIIDCKNNSGQMVI--PVFYRVDPSHVR 123
D+IE S +V + SE + S+W EL ++ D N++ +++ P+ + P
Sbjct: 56 DSIEKSHKTVFVLSENFVKSEWXKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQRFX 115
Query: 124 K 124
K
Sbjct: 116 K 116
>pdb|1HNH|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acp Synthase Iii +
Degraded Form Of Acetyl-Coa
Length = 317
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 779 EIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIIDCPRLD 831
E + I+ AGI++ + + + S +FPS+ C +S L I CP D
Sbjct: 57 EAATRAIEXAGIEKDQIGLIVVATTSATHAFPSAACQIQS--XLGIKGCPAFD 107
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 53/127 (41%), Gaps = 22/127 (17%)
Query: 318 LDWFASGSRIIITTRDKQVLSNCRVDQIYDVKELVDVDA----------LKLFSRCAFGE 367
L F S +I++TTRDK V D + K +V V++ L LF
Sbjct: 251 LKAFDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK--- 302
Query: 368 DDPTASYTKLTHEAVKYAKGVPLALKVLGSFLSGRRKEEWKSAMRKLEIVPHMEIQEVLK 427
A + H +K KG PL + ++G+ L W+ +++L+ I++
Sbjct: 303 ---KADLPEQAHSIIKECKGSPLVVSLIGALLRD-FPNRWEYYLKQLQNKQFKRIRKSSS 358
Query: 428 ISYDGLD 434
Y+ LD
Sbjct: 359 YDYEALD 365
>pdb|1EBL|A Chain A, The 1.8 A Crystal Structure And Active Site Architecture
Of Beta-Ketoacyl-[acyl Carrier Protein] Synthase Iii
(Fabh) From Escherichia Coli
pdb|1EBL|B Chain B, The 1.8 A Crystal Structure And Active Site Architecture
Of Beta-Ketoacyl-[acyl Carrier Protein] Synthase Iii
(Fabh) From Escherichia Coli
Length = 317
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 779 EIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIIDCPRLD 831
E + I+ AGI++ + + + S +FPS+ C +S L I CP D
Sbjct: 57 EAATRAIEXAGIEKDQIGLIVVATTSATHAFPSAACQIQS--XLGIKGCPAFD 107
>pdb|1O77|A Chain A, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|B Chain B, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|C Chain C, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|D Chain D, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|E Chain E, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
Length = 146
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 22/104 (21%)
Query: 22 YDVFLSFRGEDTRG----------NFTSHLFSALSKKHIETFIDDQLIRGDEISQSLLDA 71
YD F+S+ D NF L K+ I G I +++D+
Sbjct: 3 YDAFVSYSERDAYWVENLMVQELENFNPPFKLCLHKR--------DFIPGKWIIDNIIDS 54
Query: 72 IEASTISVIIFSEGYASSKWCLDEL----LKIIDCKNNSGQMVI 111
IE S +V + SE + S+W EL ++ D N++ +++
Sbjct: 55 IEKSHKTVFVLSENFVKSEWSKYELDFSHFRLFDENNDAAILIL 98
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 55/200 (27%), Positives = 91/200 (45%), Gaps = 38/200 (19%)
Query: 617 DVQNLVNLKEIDLSDSKQLTKLPDLSLARNLESLDLWGCSSLMETHSSIQYLNKLAFLYL 676
++QNL L I +D+ L KLPDL L+ LES+ ++++E +Q L L +Y
Sbjct: 190 ELQNLPFLTAI-YADNNSLKKLPDLPLS--LESI--VAGNNILEELPELQNLPFLTTIY- 243
Query: 677 VSCESLRSLPHTIRSESLFELRLSGCTSLKRFPKISSCFLKDLDLESCGIEELPSS---- 732
L++LP S +R + T L P+ S FL + G+ ELP +
Sbjct: 244 ADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQ-SLTFLDVSENIFSGLSELPPNLYYL 302
Query: 733 ------IECLYNLR-SIDLLNCT------------RLEYIASSIFTL-------KSLESI 766
I L +L S++ LN + RLE + +S L ++L+ +
Sbjct: 303 NASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVPELPQNLKQL 362
Query: 767 RISKCSNLRKFPEIPSCIID 786
+ + + LR+FP+IP + D
Sbjct: 363 HV-EYNPLREFPDIPESVED 381
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 22/124 (17%)
Query: 321 FASGSRIIITTRDKQVLSNCRVDQIYDVKELVDVDA----------LKLFSRCAFGEDDP 370
F + +I++TT DK V D + K +V V++ L LF ED P
Sbjct: 261 FDNQCQILLTTSDKSV-----TDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-KEDLP 314
Query: 371 TASYTKLTHEAVKYAKGVPLALKVLGSFLSGRRKEEWKSAMRKLEIVPHMEIQEVLKISY 430
+ H +K KG PL + ++G+ L W +R+L+ I++ Y
Sbjct: 315 AEA-----HSIIKECKGSPLVVSLIGALLRD-FPNRWAYYLRQLQNKQFKRIRKSSSYDY 368
Query: 431 DGLD 434
+ LD
Sbjct: 369 EALD 372
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 829 RLDGLPDELGNLKALEELTVEGTAMREVPESLGQLLESLPSSLYKSKCLQDSYLD-DCPN 887
R+ +P ++ +L+AL+EL V ++ VP+ + L SL + L D+ D CP
Sbjct: 461 RIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSL-----QYIWLHDNPWDCTCPG 515
Query: 888 LHRLPDELGSLEALKRLYAEGKCSDRS 914
+ L + + + R A D +
Sbjct: 516 IRYLSEWINKHSGVVRNSAGSVAPDSA 542
>pdb|3MTJ|A Chain A, The Crystal Structure Of A Homoserine Dehydrogenase From
Thiobacillus Denitrificans To 2.15a
Length = 444
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 37/170 (21%), Positives = 72/170 (42%), Gaps = 32/170 (18%)
Query: 259 GGLAHLRQQLLSTLLDDRNVKNF-PYIILNFQSKRFSC---KKVLIVFD-----DVTHLK 309
GGL R+ + + + ++V +++ + ++ F+ K V + F+ + +K
Sbjct: 87 GGLEPARELVXQAIANGKHVVTANKHLVAKYGNEIFAAAQAKGVXVTFEAAVAGGIPIIK 146
Query: 310 QIE--FLIGRLDWFA-----SGSRIIITTRDK-----------QVLSNCRVDQIYDVKEL 351
+ R++W A + + I+ RDK Q L D +D++ +
Sbjct: 147 ALREGLTANRIEWLAGIINGTSNFILSEXRDKGAAFDDVLKEAQRLGYAEADPTFDIEGI 206
Query: 352 VDVDALKLFSRCAFG-----EDDPTASYTKLTHEAVKYAKGVPLALKVLG 396
L + S AFG E T ++LT E V+YA+ + +K+LG
Sbjct: 207 DAAHKLTILSAIAFGIPXQFERAYTEGISQLTREDVRYAEELGYRIKLLG 256
>pdb|4FS7|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Bacova_04585) From Bacteroides Ovatus Atcc 8483
At 1.19 A Resolution
Length = 394
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 7/62 (11%)
Query: 652 LWGCSSLMETH--SSIQYLNKLAFLYLVSCESLRSLPHTIRSESLFELRLSGCTSLK--R 707
+GCSSL E S++++ + AF SC SL S+ E + + GCTSL
Sbjct: 293 FYGCSSLTEVKLLDSVKFIGEEAF---ESCTSLVSIDLPYLVEEIGKRSFRGCTSLSNIN 349
Query: 708 FP 709
FP
Sbjct: 350 FP 351
>pdb|4G9I|A Chain A, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|B Chain B, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|C Chain C, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|D Chain D, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|E Chain E, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|F Chain F, Crystal Structure Of T.Kodakarensis Hypf
Length = 772
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%)
Query: 39 SHLFSALSKKHIETFIDDQLIRGDEISQSLLDAIEASTISVIIFS 83
S F + E ++ +LIR +E+ QS+L+AIE ++ + I +S
Sbjct: 640 SFAFKGKNDLKFEVPVEGELIRVEELFQSILEAIEGASPADIAYS 684
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 29.6 bits (65), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 70/159 (44%), Gaps = 23/159 (14%)
Query: 712 SSCFLKDLDLESCG-IEELPSSIECLYNLRSIDLLNCTRLEYIASSIFTLKSLESIRISK 770
S+ L D E+CG + EL + I + L+ L IA +KSL+ + IS+
Sbjct: 332 SNNLLTDTVFENCGHLTELETLILQMNQLK--------ELSKIAEMTTQMKSLQQLDISQ 383
Query: 771 CSNLRKFPEIPSCIIDEAGIKRQALSKLELNNCSRLESFPSSLCMFESLASLKIID--CP 828
N + E + G S L LN S + + C+ +K++D
Sbjct: 384 --NSVSYDE-------KKGDCSWTKSLLSLNMSSNILTDTIFRCL---PPRIKVLDLHSN 431
Query: 829 RLDGLPDELGNLKALEELTVEGTAMREVPESLGQLLESL 867
++ +P ++ L+AL+EL V ++ VP+ + L SL
Sbjct: 432 KIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSL 470
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
0.321 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,212,490
Number of Sequences: 62578
Number of extensions: 1053849
Number of successful extensions: 2466
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 41
Number of HSP's that attempted gapping in prelim test: 2399
Number of HSP's gapped (non-prelim): 81
length of query: 940
length of database: 14,973,337
effective HSP length: 108
effective length of query: 832
effective length of database: 8,214,913
effective search space: 6834807616
effective search space used: 6834807616
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)