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= 001889
(1000 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 = 139 bits (349), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 76/144 (52%), Positives = 89/144 (61%), Gaps = 4/144 (2%)
Query: 14 YDAFLSFRGADTRKSFTSHLYAALNGKGIYVFKDDKELERGDSISPRLLKAIEDSRVSII 73
YD FLSFRG DTR +F S LY L + I FKDDKELE G SP L IE SR +++
Sbjct: 9 YDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVV 68
Query: 74 VFSQNYASSTWCLDELVKIVQCKNKNDHRQMVFPIFYDVEPTVVRKQARSFREAFSKHEE 133
V S+NYA+S+WCLDELV I+ + K V PIFY VEP VR Q E F KH
Sbjct: 69 VVSENYAASSWCLDELVTIMDFEKKGS--ITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 134 VFRENIEKVQKWREALEEVANISG 157
RE+ EKV KWR+AL A +SG
Sbjct: 127 --REDPEKVLKWRQALTNFAQLSG 148
>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 = 135 bits (340), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 64/149 (42%), Positives = 98/149 (65%), Gaps = 3/149 (2%)
Query: 14 YDAFLSFRGADTRKSFTSHLYAALNGKGIYVFKDDKELERGDSISPRLLKAIEDSRVSII 73
Y+ FLSFRG DTR+ FT LY +L I+ F+DD EL +G I P LL+AI+ S++ +
Sbjct: 36 YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVP 95
Query: 74 VFSQNYASSTWCLDELVKIVQCKNKNDHRQMVFPIFYDVEPTVVRKQARSFREAFSKHEE 133
+ S YA S WCL EL +IV+ + + D R+++ PIFY V+P+ VR Q +++AF KH
Sbjct: 96 IISSGYADSKWCLMELAEIVR-RQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 134 VFRENIEKVQKWREALEEVANISGWELKK 162
F + + +Q W++AL++V ++ GW + K
Sbjct: 155 KF--DGQTIQNWKDALKKVGDLKGWHIGK 181
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 71.2 bits (173), Expect = 3e-12, Method: Composition-based stats.
Identities = 60/228 (26%), Positives = 94/228 (41%), Gaps = 29/228 (12%)
Query: 523 LMKFPEILRSMEDLSELFLDGTSITEVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKS 582
L +FP+ + L +D + E+P + + GL+ L L+ L LP+ I L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASLNR 151
Query: 583 LKTLCLSGCSELENVPENMEKIES---------LEELDISGTAIRQPPSSIFLMKNLKEL 633
L+ L + C EL +PE + ++ L+ L + T IR P+SI ++NLK L
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211
Query: 634 SFRGCKGPPSSTSCSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPRDIGNLSSLEE 693
R P + + P++ L L +LDL C P G + L+
Sbjct: 212 KIRNS-------------PLSALGPAIHHLPKLEELDLRGCTALRN-YPPIFGGRAPLKR 257
Query: 694 LYLSK-NSFVSLPATISXXXXXXXXXXXDCKRLQSLP----QLPPNIV 736
L L ++ ++LP I C L LP QLP N +
Sbjct: 258 LILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI 305
Score = 43.1 bits (100), Expect = 7e-04, Method: Composition-based stats.
Identities = 46/188 (24%), Positives = 78/188 (41%), Gaps = 23/188 (12%)
Query: 594 LENVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSFRGC------KGPPSSTSC 647
L +P+ ++ LE L ++ +R P+SI + L+ELS R C P +ST
Sbjct: 116 LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA 175
Query: 648 SWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPRDIGNLSSLEELYLSKNSFVSLPAT 707
S GL +L L L I+ ++P I NL +L+ L + + +L
Sbjct: 176 SGEH---------QGLVNLQSLRLEWTGIR--SLPASIANLQNLKSLKIRNSPLSALGPA 224
Query: 708 ISXXXXXXXXXXXDCKRLQSLPQL---PPNIVSVSVNDCASLGKLS-DTLKLCKWEHIFI 763
I C L++ P + + + + DC++L L D +L + E +
Sbjct: 225 IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEK--L 282
Query: 764 DCIDCLKL 771
D C+ L
Sbjct: 283 DLRGCVNL 290
Score = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 521 SKLMKFPEILRSMEDLSELFLDG-TSITEVPSSIELLTGLQLLNLSDCKDLVRLPSRING 579
S L + + L EL L G T++ P L+ L L DC +L+ LP I+
Sbjct: 216 SPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHR 275
Query: 580 LKSLKTLCLSGCSELENVP 598
L L+ L L GC L +P
Sbjct: 276 LTQLEKLDLRGCVNLSRLP 294
>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 = 43.1 bits (100), Expect = 7e-04, Method: Composition-based stats.
Identities = 29/99 (29%), Positives = 45/99 (45%), Gaps = 3/99 (3%)
Query: 14 YDAFLSFRGADTRKSFTSHLYAALNGKGIYVFKDDKELERGDSISPRLLKAIEDSRVSII 73
+D F+S D + F L L G V+ DD L GDS+ + K + SR I+
Sbjct: 21 HDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIV 79
Query: 74 VFSQNYASSTWCLDELVKIVQCKNKNDHRQMVFPIFYDV 112
V S ++ W EL + Q ++ R + PI++ V
Sbjct: 80 VLSTHFFKKEWPQKELDGLFQLESSG--RSRILPIWHKV 116
>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 = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 49/184 (26%), Positives = 77/184 (41%), Gaps = 20/184 (10%)
Query: 530 LRSMEDLSELFLDGTSITEVPSSIELLTGLQLLNLSDCKDLVRL----PSRINGLKSLKT 585
+S +L+ L+L ++ + ++ TGL LL D D +L P+ GL L T
Sbjct: 51 FQSCRNLTILWLHSNALAGIDAAA--FTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHT 108
Query: 586 LCLSGCSELENVPENMEKIESLEELDISGTAIRQPPSSIFL-MKNLKELSFRGCKGPPSS 644
L L C E P + +L+ L + ++ P + F + NL L G + PS
Sbjct: 109 LHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNR-IPSV 167
Query: 645 TSCSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPRDIGNLSSLEELYLSKNSFVSL 704
++R GL SL +L L ++ P +L L LYL N+ L
Sbjct: 168 PEHAFR-----------GLHSLDRLLLHQNHVAR-VHPHAFRDLGRLMTLYLFANNLSML 215
Query: 705 PATI 708
PA +
Sbjct: 216 PAEV 219
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 52/177 (29%), Positives = 80/177 (45%), Gaps = 44/177 (24%)
Query: 533 MEDLSELFLDGTSITEVPS-SIELLTGLQLLNLSDCKDLVRLP-SRINGLKSLKTLCLSG 590
+ L EL+L I +PS + + L+ L+L + K L + + GL +L+ L L
Sbjct: 106 LSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNLGM 165
Query: 591 CSELENVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSFRGCKGPPSSTSCSWR 650
C+ L+++P N+ + LEEL++SG +
Sbjct: 166 CN-LKDIP-NLTALVRLEELELSGNRL--------------------------------- 190
Query: 651 FPFNLMLP-SLSGLCSLTKLDLSDCNIQEGAIPRD-IGNLSSLEELYLSKNSFVSLP 705
+L+ P S GL SL KL L + Q I R+ +L SLEEL LS N+ +SLP
Sbjct: 191 ---DLIRPGSFQGLTSLRKLWLM--HAQVATIERNAFDDLKSLEELNLSHNNLMSLP 242
>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 = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 85/190 (44%), Gaps = 45/190 (23%)
Query: 521 SKLMKFP-EILRSMEDLSELFLDGTSITEVPS-SIELLTGLQLLNLSDCKDLVRLP-SRI 577
++L P + + L EL+L I +PS + + L+ L+L + K L + +
Sbjct: 93 NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAF 152
Query: 578 NGLKSLKTLCLSGCSELENVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSFRG 637
GL +L+ L L C+ L+++P N+ + LEEL++SG +
Sbjct: 153 EGLVNLRYLNLGMCN-LKDIP-NLTALVRLEELELSGNRL-------------------- 190
Query: 638 CKGPPSSTSCSWRFPFNLMLP-SLSGLCSLTKLDLSDCNIQEGAIPRD-IGNLSSLEELY 695
+L+ P S GL SL KL L + Q I R+ +L SLEEL
Sbjct: 191 ----------------DLIRPGSFQGLTSLRKLWLM--HAQVATIERNAFDDLKSLEELN 232
Query: 696 LSKNSFVSLP 705
LS N+ +SLP
Sbjct: 233 LSHNNLMSLP 242
>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 = 36.6 bits (83), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 579 GLKSLKTLCLSGCSELENVPENMEKIESLEELDISGTAIRQPPS-SIFL-MKNL------ 630
G SLK L LS + + + N +E LE LD + ++Q S+FL ++NL
Sbjct: 371 GTTSLKYLDLS-FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 631 ---KELSFRGCKGPPSSTS----CSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPR 683
++F G SS F N + + L +LT LDLS C +++ + P
Sbjct: 430 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS-PT 488
Query: 684 DIGNLSSLEELYLSKNSFVSL 704
+LSSL+ L +S N+F SL
Sbjct: 489 AFNSLSSLQVLNMSHNNFFSL 509
>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 = 36.2 bits (82), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 52/100 (52%), Gaps = 2/100 (2%)
Query: 536 LSELFLDGTSITEVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKSLKTLCLSGCSELE 595
L+ L+L+G S+TE+P+ I+ L+ L++L+LS + L LP+ + LK + +
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFD-NMVT 306
Query: 596 NVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSF 635
+P + +L+ L + G + + I K++ L F
Sbjct: 307 TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIF 346
Score = 30.8 bits (68), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 666 LTKLDLSDCNIQEGAIPRDIGNLSSLEELYLSKNSFVSLPATI 708
LT+L L+ ++ E +P +I NLS+L L LS N SLPA +
Sbjct: 249 LTRLYLNGNSLTE--LPAEIKNLSNLRVLDLSHNRLTSLPAEL 289
>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 = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 579 GLKSLKTLCLSGCSELENVPENMEKIESLEELDISGTAIRQPPS-SIFL-MKNL------ 630
G SLK L LS + + + N +E LE LD + ++Q S+FL ++NL
Sbjct: 395 GTISLKYLDLS-FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 453
Query: 631 ---KELSFRGCKGPPSSTS----CSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPR 683
++F G SS F N + + L +LT LDLS C +++ + P
Sbjct: 454 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS-PT 512
Query: 684 DIGNLSSLEELYLSKNSFVSL 704
+LSSL+ L +S N+F SL
Sbjct: 513 AFNSLSSLQVLNMSHNNFFSL 533
>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 = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 194 IDSRLKELRSLIDGGPNDDVRMIGICGMGGLGKTTLARVVYDTISMN 240
I +L + + ++D G + +IGI G G+GKTT AR++ I+ +
Sbjct: 275 IIKKLGDFQLVVDNGEAKEGEIIGILGPNGIGKTTFARILVGEITAD 321
>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 = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 579 GLKSLKTLCLSGCSELENVPENMEKIESLEELDISGTAIRQPPS-SIFL-MKNL------ 630
G SLK L LS + + + N +E LE LD + ++Q S+FL ++NL
Sbjct: 76 GTTSLKYLDLSF-NGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 134
Query: 631 ---KELSFRGCKGPPSSTS----CSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPR 683
++F G SS F N + + L +LT LDLS C +++ + P
Sbjct: 135 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS-PT 193
Query: 684 DIGNLSSLEELYLSKNSFVSL 704
+LSSL+ L +S N+F SL
Sbjct: 194 AFNSLSSLQVLNMSHNNFFSL 214
>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 = 0.33, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 525 KFPEILRSMEDLSELFLDGTSIT-EVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKSL 583
+ P+ L ++ L L LD +T E+PS + T L ++LS+ + +P I L++L
Sbjct: 454 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 513
Query: 584 KTLCLSGCSELENVPENMEKIESLEELDIS 613
L LS S N+P + SL LD++
Sbjct: 514 AILKLSNNSFSGNIPAELGDCRSLIWLDLN 543
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 34.3 bits (77), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 43/145 (29%), Positives = 67/145 (46%), Gaps = 17/145 (11%)
Query: 579 GLKSLKTLCLSGCSELENVPENMEKIESLEELDISGTAIRQPPS-SIFL-MKNL------ 630
G SLK L LS + + + N +E LE LD + ++Q S+FL ++NL
Sbjct: 371 GTTSLKYLDLS-FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 631 ---KELSFRGCKGPPSSTS----CSWRFPFNLMLPSLSGLCSLTKLDLSDCNIQEGAIPR 683
++F G SS F N + + L +LT LDLS C +++ + P
Sbjct: 430 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS-PT 488
Query: 684 DIGNLSSLEELYLSKNSFVSLPATI 708
+LSSL+ L ++ N S+P I
Sbjct: 489 AFNSLSSLQVLNMASNQLKSVPDGI 513
>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 = 34.3 bits (77), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 525 KFPEILRSMEDLSELFLDGTSIT-EVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKSL 583
+ P+ L ++ L L LD +T E+PS + T L ++LS+ + +P I L++L
Sbjct: 457 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 516
Query: 584 KTLCLSGCSELENVPENMEKIESLEELDIS 613
L LS S N+P + SL LD++
Sbjct: 517 AILKLSNNSFSGNIPAELGDCRSLIWLDLN 546
>pdb|1KFA|L Chain L, Crystal Structure Of Fab Fragment Complexed With
Gibberellin A4
pdb|1KFA|M Chain M, Crystal Structure Of Fab Fragment Complexed With
Gibberellin A4
Length = 217
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 866 FTDFGEKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPV 925
F+ F ++F + S + L +SR D+ F S + F GSG +L++KR P
Sbjct: 60 FSGFPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQSTHVPFTFGSGTKLEIKRADAGPT 119
Query: 926 YMHQVEEFDETTNQWT 941
V F ++ Q T
Sbjct: 120 ----VSSFPPSSEQLT 131
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 49/118 (41%), Gaps = 2/118 (1%)
Query: 534 EDLSELFLDGTSITEVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKSLKTLCLSGCSE 593
D++EL+LDG T VP + L L++LS+ + + + L TL LS
Sbjct: 31 RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL 90
Query: 594 LENVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSFRGCKGPPSSTSCSWRF 651
P + ++SL L + G I P F +L LS P C+ ++
Sbjct: 91 RCIPPRTFDGLKSLRLLSLHGNDISVVPEGAF--NDLSALSHLAIGANPLYCDCNMQW 146
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 63/130 (48%), Gaps = 15/130 (11%)
Query: 504 EVCHVLIENTTLVL--SGCSKLMKFPEILRSMEDLSELFLDGTSIT--EVPSSIELLTGL 559
E C L E TL+L + +L K E+ M+ L +L + S++ E L
Sbjct: 342 ENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSL 401
Query: 560 QLLNLSD---CKDLVR-LPSRINGLKSLKTLCLSGCSELENVPENMEKIESLEELDISGT 615
LN+S + R LP RI K L L ++++++P+ + K+E+L+EL+++
Sbjct: 402 LSLNMSSNILTDTIFRCLPPRI------KVLDLHS-NKIKSIPKQVVKLEALQELNVASN 454
Query: 616 AIRQPPSSIF 625
++ P IF
Sbjct: 455 QLKSVPDGIF 464
>pdb|2AJS|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Heptaethylene Glycol
pdb|2AJU|L Chain L, Cyrstal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
pdb|2AJV|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Cocaine
pdb|2AJX|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Transition State Analog
pdb|2AJY|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester And Benzoic Acid
pdb|2AJZ|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AJZ|A Chain A, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AK1|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Benzoic Acid
Length = 216
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 871 EKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPV 925
++F + S + L +SR D+ + +VE F GSG +L++KR P
Sbjct: 65 DRFSGSGSGTDFTLEISRVKAEDVGVYYCQQFVEYPFTFGSGTKLEIKRADAAPT 119
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 31.6 bits (70), Expect = 2.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 297 YLAGKREWFGSGSKI-IITSRDEHLLKTHGMDEVYKPSSLNYDEAFQLFNMKAFKSQQP 354
Y AGK E+F S S + +I H ++ ++ P S+N D F+ +++ A + P
Sbjct: 47 YAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYP 105
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSE|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSF|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 251
Score = 31.6 bits (70), Expect = 2.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 297 YLAGKREWFGSGSKI-IITSRDEHLLKTHGMDEVYKPSSLNYDEAFQLFNMKAFKSQQP 354
Y AGK E+F S S + +I H ++ ++ P S+N D F+ +++ A + P
Sbjct: 127 YAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYP 185
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 31.6 bits (70), Expect = 2.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 297 YLAGKREWFGSGSKI-IITSRDEHLLKTHGMDEVYKPSSLNYDEAFQLFNMKAFKSQQP 354
Y AGK E+F S S + +I H ++ ++ P S+N D F+ +++ A + P
Sbjct: 43 YAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYP 101
>pdb|2BNH|A Chain A, Porcine Ribonuclease Inhibitor
pdb|1DFJ|I Chain I, Ribonuclease Inhibitor Complexed With Ribonuclease A
Length = 457
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 41/92 (44%), Gaps = 19/92 (20%)
Query: 614 GTAIRQPPSSIFLMKNLKELSFRGCKGPPSSTSCSWRFPFNLMLPSL-SGLCSLTKLDLS 672
G+A+R PS L EL G +L+L L S C + KL L
Sbjct: 45 GSALRANPSLTELCLRTNELGDAG---------------VHLVLQGLQSPTCKIQKLSLQ 89
Query: 673 DCNIQE---GAIPRDIGNLSSLEELYLSKNSF 701
+C++ E G +P + +L +L EL+LS N
Sbjct: 90 NCSLTEAGCGVLPSTLRSLPTLRELHLSDNPL 121
>pdb|2J67|A Chain A, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
pdb|2J67|B Chain B, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
Length = 178
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 54 GDSISPRLLKAIEDSRVSIIVFSQNYASSTWCLDEL 89
G SIS ++ IE S SI V S N+ + WC E
Sbjct: 77 GKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEF 112
>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 = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 5/109 (4%)
Query: 530 LRSMEDLSELFLDGTSITEVPSSIELLTGLQ--LLNLSDCKDLVRLPSRINGLKSLKTLC 587
R + EL L + +PS IE + L+ +LN + L ++ + SL+ L
Sbjct: 273 FRCFTRVQELDLTAAHLNGLPSGIEGMNSLKKLVLNANSFDQLCQINAA--SFPSLRDLY 330
Query: 588 LSG-CSELENVPENMEKIESLEELDISGTAIRQPPSSIFLMKNLKELSF 635
+ G +L+ +EK+E+L++LD+S + I +KNL+ L +
Sbjct: 331 IKGNMRKLDLGTRCLEKLENLQKLDLSHSDIEASDCCNLQLKNLRHLQY 379
>pdb|1Q72|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
pdb|1QYG|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Benzoylecgonine
pdb|1RFD|L Chain L, Anti-Cocaine Antibody M82g2
pdb|1RIU|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With
Norbenzoylecgonine
pdb|1RIV|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Meta-
Oxybenzoylecgonine
Length = 218
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 5/93 (5%)
Query: 871 EKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPVYMHQV 930
++F + S + L SR D+ + ++E F GSG +L++KR P V
Sbjct: 65 DRFSGSGSGTAFTLRFSRVEAEDVGVYYCMQHLEYPFTFGSGTKLEIKRADAAPT----V 120
Query: 931 EEFDETTNQWTHFTAYNLSEFHLNFVGPDMVVA 963
F ++ Q T A ++ F NF D+ V+
Sbjct: 121 SIFPPSSEQLTSGGA-SVVCFLNNFYPQDITVS 152
>pdb|2FBM|A Chain A, Acetyltransferase Domain Of Cdy1
pdb|2FBM|B Chain B, Acetyltransferase Domain Of Cdy1
pdb|2FBM|C Chain C, Acetyltransferase Domain Of Cdy1
Length = 291
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 4/86 (4%)
Query: 536 LSELFLDGTSITEVPSSIELLTGLQLLNLSDCKDLVRLPSRINGLKSLKTLCLSGCSELE 595
+S++FL GT EV I+ L + L +CK LVR ++ L+ C L
Sbjct: 201 VSQVFLTGTFTQEVMIQIKELASYNPIVLEECKALVRCNIKL----ELEQANERECEVLR 256
Query: 596 NVPENMEKIESLEELDISGTAIRQPP 621
+ + + IES+ ++ + G PP
Sbjct: 257 KIWSSAQGIESMLKIPLLGYKAAFPP 282
>pdb|2HKF|L Chain L, Crystal Structure Of The Complex Fab M75- Peptide
pdb|2HKH|L Chain L, Crystal Structure Of The Fab M75
Length = 219
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%)
Query: 866 FTDFGEKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPV 925
F+ ++F + S + L +SR D+ F S + F GSG +L++KR P
Sbjct: 60 FSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQSTHVPFTFGSGTKLEIKRADAAPT 119
>pdb|2P4S|A Chain A, Structure Of Purine Nucleoside Phosphorylase From
Anopheles Gambiae In Complex With Dadme-immh
pdb|2P4S|B Chain B, Structure Of Purine Nucleoside Phosphorylase From
Anopheles Gambiae In Complex With Dadme-immh
pdb|2P4S|C Chain C, Structure Of Purine Nucleoside Phosphorylase From
Anopheles Gambiae In Complex With Dadme-immh
Length = 373
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 35/58 (60%), Gaps = 4/58 (6%)
Query: 180 KIPVKSEVLKKLVGIDSRLKELRSLIDGGPN----DDVRMIGICGMGGLGKTTLARVV 233
K+ +++V+ + +GI++ L+E GGPN +V+M+ + G+ +G +T+ ++
Sbjct: 254 KLNQQAKVIARQIGIENELREGVYTCLGGPNFETVAEVKMLSMLGVDAIGMSTVHEII 311
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 8/96 (8%)
Query: 145 WREALEEVANISGWELKKYRNESEFIRDI----VKAIS---SKIPVKSEVLKKLVGIDSR 197
W E +AN+ +L ++ F++ + V A+S S PV S + +
Sbjct: 253 WEREQEALANLPA-DLAGLPTDTLFLQPVNMVGVSALSRLLSTQPVASPSSDEYLQQRPD 311
Query: 198 LKELRSLIDGGPNDDVRMIGICGMGGLGKTTLARVV 233
+ L +L+D ++ +I + G GG+GKTT+A +
Sbjct: 312 IPSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAI 347
>pdb|3VI3|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 219
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%)
Query: 871 EKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPV 925
++F + S + L +SR +D+ F ++E F G+G +L++KR P
Sbjct: 65 DRFSGSGSGTAFTLRISRVEAADVGIYFCLQHLEYPFTFGAGTKLELKRADAAPT 119
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 60/140 (42%), Gaps = 21/140 (15%)
Query: 605 ESLEELDISGTAIRQPPSSIFL-----------MKNLKELSFRGCKGPPSSTSCSW-RFP 652
E +E+D G ++ PS I + L + +FRG T +W
Sbjct: 14 EGKKEVDCQGKSLDSVPSGIPADTEKLDLQSTGLATLSDATFRGL------TKLTWLNLD 67
Query: 653 FNLMLPSLSGLCS-LTKLD-LSDCNIQEGAIPRDI-GNLSSLEELYLSKNSFVSLPATIS 709
+N + +G+ LT+L L N Q ++P + +L+ L++LYL N SLP+ +
Sbjct: 68 YNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVF 127
Query: 710 XXXXXXXXXXXDCKRLQSLP 729
+ +LQS+P
Sbjct: 128 DRLTKLKELRLNTNQLQSIP 147
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 60/140 (42%), Gaps = 21/140 (15%)
Query: 605 ESLEELDISGTAIRQPPSSIFL-----------MKNLKELSFRGCKGPPSSTSCSW-RFP 652
E +E+D G ++ PS I + L + +FRG T +W
Sbjct: 14 EGKKEVDCQGKSLDSVPSGIPADTEKLDLQSTGLATLSDATFRGL------TKLTWLNLD 67
Query: 653 FNLMLPSLSGLCS-LTKLD-LSDCNIQEGAIPRDI-GNLSSLEELYLSKNSFVSLPATIS 709
+N + +G+ LT+L L N Q ++P + +L+ L++LYL N SLP+ +
Sbjct: 68 YNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVF 127
Query: 710 XXXXXXXXXXXDCKRLQSLP 729
+ +LQS+P
Sbjct: 128 DRLTKLKELRLNTNQLQSIP 147
>pdb|1MIE|L Chain L, Crystal Structure Of The Fab Fragment Of Esterolytic
Antibody Ms5-393
pdb|1MJ7|L Chain L, Crystal Structure Of The Complex Of The Fab Fragment Of
Esterolytic Antibody Ms5-393 And A Transition-State
Analog
Length = 219
Score = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 871 EKFGQAVSDHLWLLYLSRQHCSDINWLFDSNYVELSFRSGSGPRLKVKRCGFHPV 925
++F + S+ + L SR D+ + ++E F GSG +L++KR P
Sbjct: 65 DRFSGSGSETAFTLRTSRVEAEDVGVYYCMQHLEYPFTFGSGTKLELKRADAAPT 119
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 30.0 bits (66), Expect = 7.4, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 181 IPVKSEVLKKLVGIDSRLKELRSLIDGGP--NDDVRMIGICGMGGLGKTTLARVVYDTIS 238
+ ++ + L + +G + ++LR ++ + + + + G GLGKTTLA V+ +
Sbjct: 4 LALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
Query: 239 MNLKGVVFLPMLEK 252
+NL+ V P +EK
Sbjct: 64 VNLR-VTSGPAIEK 76
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 30.0 bits (66), Expect = 7.4, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 181 IPVKSEVLKKLVGIDSRLKELRSLIDGGP--NDDVRMIGICGMGGLGKTTLARVVYDTIS 238
+ ++ + L + +G + ++LR ++ + + + + G GLGKTTLA V+ +
Sbjct: 4 LALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
Query: 239 MNLKGVVFLPMLEK 252
+NL+ V P +EK
Sbjct: 64 VNLR-VTSGPAIEK 76
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 30.0 bits (66), Expect = 7.4, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 181 IPVKSEVLKKLVGIDSRLKELRSLIDGGP--NDDVRMIGICGMGGLGKTTLARVVYDTIS 238
+ ++ + L + +G + ++LR ++ + + + + G GLGKTTLA V+ +
Sbjct: 4 LALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
Query: 239 MNLKGVVFLPMLEK 252
+NL+ V P +EK
Sbjct: 64 VNLR-VTSGPAIEK 76
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 0.135 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,713,179
Number of Sequences: 62578
Number of extensions: 1180641
Number of successful extensions: 3345
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 3253
Number of HSP's gapped (non-prelim): 108
length of query: 1000
length of database: 14,973,337
effective HSP length: 108
effective length of query: 892
effective length of database: 8,214,913
effective search space: 7327702396
effective search space used: 7327702396
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: 56 (26.2 bits)