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= 002133
(961 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 67/146 (45%), Gaps = 9/146 (6%)
Query: 521 FRDISELPDSLQCTRLKLFLLFTEDSSLQIPNQFFDGMTELLVLHLTGIHFPSLPLSL-G 579
DIS L + T +L+ T + +PN FD +T L L L SLP +
Sbjct: 75 LHDISALKELTNLT----YLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFD 130
Query: 580 SLINLRTLSFDCCHLEDVAR--VGDLAKLEILSFRNSHIEQLPEQI-GNLTRLKLLDLSN 636
L NL L L+ + + L L L N+ ++ LPE + LT+LK L L N
Sbjct: 131 KLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSL-N 189
Query: 637 CSKLKVIKPEVISRLSRLNELYMGNS 662
++LK + V RL+ L +++ N+
Sbjct: 190 DNQLKSVPDGVFDRLTSLTHIWLLNN 215
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 40.8 bits (94), Expect = 0.003, Method: Composition-based stats.
Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 6/121 (4%)
Query: 544 EDSSLQ-IPNQFFDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDVAR-- 599
E +SL+ +PN FD +T L L+L G SLP + L +L L+ L+ +
Sbjct: 36 ETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGV 95
Query: 600 VGDLAKLEILSFRNSHIEQLPEQI-GNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELY 658
L +L+ L+ + ++ LP+ + LT+LK L L ++LK + V RL+ L ++
Sbjct: 96 FDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRLTSLQYIW 154
Query: 659 M 659
+
Sbjct: 155 L 155
>pdb|3C4Q|A Chain A, Structure Of The Retaining Glycosyltransferase Msha : The
First Step In Mycothiol Biosynthesis. Organism :
Corynebacterium Glutamicum- Complex With Udp
pdb|3C4Q|B Chain B, Structure Of The Retaining Glycosyltransferase Msha : The
First Step In Mycothiol Biosynthesis. Organism :
Corynebacterium Glutamicum- Complex With Udp
pdb|3C4V|A Chain A, Structure Of The Retaining Glycosyltransferase Msha:the
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum : Complex With Udp And
1l-Ins-1- P.
pdb|3C4V|B Chain B, Structure Of The Retaining Glycosyltransferase Msha:the
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum : Complex With Udp And
1l-Ins-1- P
Length = 426
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 53/126 (42%), Gaps = 14/126 (11%)
Query: 302 RINMSNPR----IFSISTLADGEAKSLFEKIVGDSAKESDCRAIGVEIVGKCGGLPIAVS 357
RI +PR + ++ AD A F + G A E+ V I + GGLPIAV+
Sbjct: 287 RIRFLDPRPPSELVAVYRAADIVAVPSFNESFGLVAMEAQASGTPV-IAARVGGLPIAVA 345
Query: 358 TIANAL--KGQSTHVWKDAINWLRKSNPRKIK-GMDADLSSIELSYKVLEPEAQFLFQLC 414
L G S H W DA+ L + +I+ G DA + S+ A QL
Sbjct: 346 EGETGLLVDGHSPHAWADALATLLDDDETRIRMGEDAVEHARTFSW------AATAAQLS 399
Query: 415 GLLNDG 420
L ND
Sbjct: 400 SLYNDA 405
>pdb|3C48|A Chain A, Structure Of The Retaining Glycosyltransferase Msha: The
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum- Apo (Open) Structure.
pdb|3C48|B Chain B, Structure Of The Retaining Glycosyltransferase Msha: The
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum- Apo (Open) Structure
Length = 438
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 53/125 (42%), Gaps = 14/125 (11%)
Query: 302 RINMSNPR----IFSISTLADGEAKSLFEKIVGDSAKESDCRAIGVEIVGKCGGLPIAVS 357
RI +PR + ++ AD A F + G A E+ V I + GGLPIAV+
Sbjct: 307 RIRFLDPRPPSELVAVYRAADIVAVPSFNESFGLVAMEAQASGTPV-IAARVGGLPIAVA 365
Query: 358 TIANAL--KGQSTHVWKDAINWLRKSNPRKIK-GMDADLSSIELSYKVLEPEAQFLFQLC 414
L G S H W DA+ L + +I+ G DA + S+ A QL
Sbjct: 366 EGETGLLVDGHSPHAWADALATLLDDDETRIRMGEDAVEHARTFSW------AATAAQLS 419
Query: 415 GLLND 419
L ND
Sbjct: 420 SLYND 424
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 66/148 (44%), Gaps = 16/148 (10%)
Query: 218 KEICGRIADQLGLEIVRPDSLVEKANQLRQ-ALKKKKRVLVILDDIWTQINLDDIGIPFW 276
+ +C R+ + P ++ E ++LR L+K R L+ILDD+W L
Sbjct: 200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVL-------- 251
Query: 277 DGEKQSVDNQGRWTLLLASRDQHVLRINMSNPRIFSISTLADGEAKSLFEKIVGDSAKES 336
++ DNQ + +LL +RD+ V M + + + G K L + + K+
Sbjct: 252 ----KAFDNQCQ--ILLTTRDKSVTDSVMGPKHVVPVES-GLGREKGLEILSLFVNMKKE 304
Query: 337 DCRAIGVEIVGKCGGLPIAVSTIANALK 364
D A I+ +C G P+ VS I L+
Sbjct: 305 DLPAEAHSIIKECKGSPLVVSLIGALLR 332
>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 = 37.0 bits (84), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 40/171 (23%), Positives = 76/171 (44%), Gaps = 17/171 (9%)
Query: 218 KEICGRIADQLGLEIVRPDSLVEKANQLR-QALKKKKRVLVILDDIWTQINLDDIGIPFW 276
+ +C R+ P ++ E ++LR L+K R L+ILDD+W L
Sbjct: 200 QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL-------- 251
Query: 277 DGEKQSVDNQGRWTLLLASRDQHVLRINMSNPRIFSISTLADGEAKSLFEKIVGDSAKES 336
++ D+Q + +LL +RD+ V M + + + + G+ K L + + K++
Sbjct: 252 ----KAFDSQCQ--ILLTTRDKSVTDSVMGPKYVVPVES-SLGKEKGLEILSLFVNMKKA 304
Query: 337 DCRAIGVEIVGKCGGLPIAVSTIANALKGQSTHVWKDAINWLRKSNPRKIK 387
D I+ +C G P+ VS I L+ W+ + L+ ++I+
Sbjct: 305 DLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WEYYLKQLQNKQFKRIR 354
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.2 bits (82), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 65/148 (43%), Gaps = 16/148 (10%)
Query: 218 KEICGRIADQLGLEIVRPDSLVEKANQLRQ-ALKKKKRVLVILDDIWTQINLDDIGIPFW 276
+ +C R+ + P ++ E ++LR L+K R L+ILDD+W L
Sbjct: 207 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVL-------- 258
Query: 277 DGEKQSVDNQGRWTLLLASRDQHVLRINMSNPRIFSISTLADGEAKSLFEKIVGDSAKES 336
++ DNQ + +LL + D+ V M + + + G K L + + K+
Sbjct: 259 ----KAFDNQCQ--ILLTTSDKSVTDSVMGPKHVVPVES-GLGREKGLEILSLFVNMKKE 311
Query: 337 DCRAIGVEIVGKCGGLPIAVSTIANALK 364
D A I+ +C G P+ VS I L+
Sbjct: 312 DLPAEAHSIIKECKGSPLVVSLIGALLR 339
>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 = 36.2 bits (82), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 67/148 (45%), Gaps = 16/148 (10%)
Query: 218 KEICGRIADQLGLEIVRPDSLVEKANQLR-QALKKKKRVLVILDDIWTQINLDDIGIPFW 276
+ +C R+ P ++ E ++LR L+K R L+ILDD+W L
Sbjct: 206 QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL-------- 257
Query: 277 DGEKQSVDNQGRWTLLLASRDQHVLRINMSNPRIFSISTLADGEAKSLFEKIVGDSAKES 336
++ D+Q + +LL +RD+ V M + + + + G+ K L + + K++
Sbjct: 258 ----KAFDSQCQ--ILLTTRDKSVTDSVMGPKYVVPVES-SLGKEKGLEILSLFVNMKKA 310
Query: 337 DCRAIGVEIVGKCGGLPIAVSTIANALK 364
D I+ +C G P+ VS I L+
Sbjct: 311 DLPEQAHSIIKECKGSPLVVSLIGALLR 338
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 64/143 (44%), Gaps = 9/143 (6%)
Query: 521 FRDISELPDSLQCTRLKLFLLFTEDSSLQIPNQFFDGMTELLVLHLTGIHFPSLPLSL-G 579
DIS L + T +L+ T + +PN FD +T L L L SLP +
Sbjct: 75 LHDISALKELTNLT----YLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFD 130
Query: 580 SLINLRTLSFDCCHLEDVAR--VGDLAKLEILSFRNSHIEQLPEQI-GNLTRLKLLDLSN 636
L NL L+ L+ + + L L L + ++ LPE + LT+LK L L
Sbjct: 131 KLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ 190
Query: 637 CSKLKVIKPEVISRLSRLNELYM 659
++LK + V RL+ L +++
Sbjct: 191 -NQLKSVPDGVFDRLTSLQYIWL 212
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 581 LINLRTLSFDCCHLEDV-ARVGDLAKLEILSFRNSHIEQLPEQIGNLTRLKLLDLSNCSK 639
L+NL++L + + + A + +L L+ L RNS + L I +L +L+ LDL C+
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 640 LKVIKP 645
L+ P
Sbjct: 242 LRNYPP 247
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 41/137 (29%), Positives = 61/137 (44%), Gaps = 18/137 (13%)
Query: 523 DISELPDSLQCTRLKLFLLFTEDSSLQIPNQFFDGMTELLVLHLTGIHFPSLPLSLGSLI 582
+++ELP+ L T D+S + G+ L L L SLP S+ +L
Sbjct: 162 ELTELPEPLAST----------DASGE-----HQGLVNLQSLRLEWTGIRSLPASIANLQ 206
Query: 583 NLRTLSFDCCHLEDVA-RVGDLAKLEILSFRN-SHIEQLPEQIGNLTRLKLLDLSNCSKL 640
NL++L L + + L KLE L R + + P G LK L L +CS L
Sbjct: 207 NLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNL 266
Query: 641 KVIKPEVISRLSRLNEL 657
+ P I RL++L +L
Sbjct: 267 LTL-PLDIHRLTQLEKL 282
>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 = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 561 LLVLHLTGIHFPSLPLSLGSLINLRTLSFDCCHLEDV-ARVGDLAKLEILSFRNSHIEQL 619
L L+L G LP + +L NLR L L + A +G +L+ F ++ + L
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTL 308
Query: 620 PEQIGNLTRLKLL 632
P + GNL L+ L
Sbjct: 309 PWEFGNLCNLQFL 321
>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 = 32.7 bits (73), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 600 VGDLAKLEILSFRNSHIE-QLPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELY 658
+G + L IL+ ++ I +P+++G+L L +LDLS+ +KL P+ +S L+ L E+
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS-NKLDGRIPQAMSALTMLTEID 707
Query: 659 MGNS 662
+ N+
Sbjct: 708 LSNN 711
>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 = 32.7 bits (73), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 40/65 (61%), Gaps = 2/65 (3%)
Query: 599 RVGDLAKLEILSFRNSHIE-QLPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNEL 657
+G + L IL+ ++ I +P+++G+L L +LDLS+ +KL P+ +S L+ L E+
Sbjct: 651 EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS-NKLDGRIPQAMSALTMLTEI 709
Query: 658 YMGNS 662
+ N+
Sbjct: 710 DLSNN 714
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L L + LE+ +G L L+ L+
Sbjct: 74 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVALETNLASLENFP-IGHLKTLKELN 132
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 133 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 174
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 74 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 132
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 133 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 174
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 73 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 131
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 132 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 173
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 59/128 (46%), Gaps = 29/128 (22%)
Query: 534 TRLKLFLLFTEDSSLQ-IPNQFFDGMTELLVLHLTGIHFPSLPLSLGSLINLRTLSFDCC 592
TRL+L E + LQ +P+ FD +T+L L L+ SLP + FD
Sbjct: 31 TRLEL-----ESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGV----------FD-- 73
Query: 593 HLEDVARVGDLAKLEILSFRNSHIEQLPEQI-GNLTRLKLLDLSNCSKLKVIKPEVISRL 651
L KL IL + ++ LP + LT+LK L L ++LK + + RL
Sbjct: 74 ---------KLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDT-NQLKSVPDGIFDRL 123
Query: 652 SRLNELYM 659
+ L ++++
Sbjct: 124 TSLQKIWL 131
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 515 TAISIPFRDISELPDSLQCTRLKLFLLFTEDSSLQ-IPNQFFDGMTELLVLHLTGIHFPS 573
T +S+ I LPD + KL +L+ ++ LQ +PN FD +T+L L L S
Sbjct: 55 TKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLKS 114
Query: 574 LP 575
+P
Sbjct: 115 VP 116
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 73 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 131
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 132 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 173
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 72 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 130
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 131 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 172
>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 = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 96 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 154
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 155 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 196
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 11/92 (11%)
Query: 603 LAKLEILSFRNSHIEQ--LPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYMG 660
L+ LE+L + ++ LP+ L L LDLS C +L+ + P + LS L L M
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 526
Query: 661 -NSFTRKVEGQSNASVVELKQLSSLTILDMHI 691
N+F + K L+SL +LD +
Sbjct: 527 HNNFF-------SLDTFPYKCLNSLQVLDYSL 551
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 581 LINLRTLSFDCCHLEDVARVGDLAKLEILSFRNSHIEQL-PEQIGNLTRLKLLDLSNCSK 639
L NL+ L+ C+++D+ + L LE L +H ++ P L+ LK L + N S+
Sbjct: 195 LFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMN-SQ 253
Query: 640 LKVIKPEVISRLSRLNELYMGNS 662
+ +I+ L+ L EL + ++
Sbjct: 254 VSLIERNAFDGLASLVELNLAHN 276
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 72 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 130
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 131 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 172
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 3/67 (4%)
Query: 603 LAKLEILSFRNSHIEQ--LPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYMG 660
L+ LE+L + ++ LP+ L L LDLS C +L+ + P + LS L L M
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMA 502
Query: 661 NSFTRKV 667
++ + V
Sbjct: 503 SNQLKSV 509
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 53/114 (46%), Gaps = 6/114 (5%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDV-ARVGD-LAKLEILSF 611
FD +TEL L L SLPL + L L L L+ + + V D L KL+ L
Sbjct: 79 FDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL 138
Query: 612 RNSHIEQLPE-QIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYM-GNSF 663
+ ++ +P LT L+ L LS ++L+ + RL +L + + GN F
Sbjct: 139 NTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPHGAFDRLGKLQTITLFGNQF 191
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 11/102 (10%)
Query: 550 IPNQFFDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDV--ARVGDLAKL 606
+P FD +T+L L+L G SLP + L L+ L + L+ + L L
Sbjct: 98 LPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNL 157
Query: 607 EILSFRNSHIEQLP----EQIGNLTRLKL----LDLSNCSKL 640
+ LS + ++ +P +++G L + L D S C L
Sbjct: 158 QTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDCSRCETL 199
>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 = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLS----LGSLINLRTLSFDCCHLEDVARVGDLAKLEILS 610
+ ++ L L LTG SL L L SL L + + LE+ +G L L+ L+
Sbjct: 72 YQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELN 130
Query: 611 FRNSHIE--QLPEQIGNLTRLKLLDLSN-------CSKLKVI 643
++ I+ +LPE NLT L+ LDLS+ C+ L+V+
Sbjct: 131 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL 172
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 11/92 (11%)
Query: 603 LAKLEILSFRNSHIEQ--LPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYMG 660
L+ LE+L + ++ LP+ L L LDLS C +L+ + P + LS L L M
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 502
Query: 661 -NSFTRKVEGQSNASVVELKQLSSLTILDMHI 691
N+F + K L+SL +LD +
Sbjct: 503 HNNFF-------SLDTFPYKCLNSLQVLDYSL 527
>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 = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 53/114 (46%), Gaps = 6/114 (5%)
Query: 555 FDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDV-ARVGD-LAKLEILSF 611
FD +TEL L L SLPL + L L L L+ + + V D L KL+ L
Sbjct: 79 FDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL 138
Query: 612 RNSHIEQLPE-QIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYM-GNSF 663
+ ++ +P LT L+ L LS ++L+ + RL +L + + GN F
Sbjct: 139 NTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPHGAFDRLGKLQTITLFGNQF 191
Score = 29.3 bits (64), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 49/102 (48%), Gaps = 8/102 (7%)
Query: 550 IPNQFFDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDV--ARVGDLAKL 606
+P FD +T+L L+L G SLP + L L+ L + L+ + L L
Sbjct: 98 LPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNL 157
Query: 607 EILSFRNSHIEQLP----EQIGNLTRLKLL-DLSNCSKLKVI 643
+ LS + ++ +P +++G L + L + +CS+ +++
Sbjct: 158 QTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDCSRCEIL 199
>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 = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 581 LINLRTLSFDCCHLEDVARVGDLAKLEILSFRNSHIEQL-PEQIGNLTRLKLLDLSNCSK 639
L+NLR L+ C+L+D+ + L +LE L + ++ + P LT L+ L L + ++
Sbjct: 155 LVNLRYLNLGMCNLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMH-AQ 213
Query: 640 LKVIKPEVISRLSRLNELYMGNS 662
+ I+ L L EL + ++
Sbjct: 214 VATIERNAFDDLKSLEELNLSHN 236
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 4/89 (4%)
Query: 550 IPNQFFDGMTELLVLHLTGIHFPSLPLSL-GSLINLRTLSFDCCHLEDV--ARVGDLAKL 606
+P + FD +T+L L L SLP + L +L+ L L+ V L +L
Sbjct: 124 LPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTEL 183
Query: 607 EILSFRNSHIEQLPE-QIGNLTRLKLLDL 634
+ L N+ ++++PE +L +LK+L L
Sbjct: 184 KTLKLDNNQLKRVPEGAFDSLEKLKMLQL 212
>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 = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 581 LINLRTLSFDCCHLEDVARVGDLAKLEILSFRNSHIEQL-PEQIGNLTRLKLLDLSNCSK 639
L+NLR L+ C+L+D+ + L +LE L + ++ + P LT L+ L L + ++
Sbjct: 155 LVNLRYLNLGMCNLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMH-AQ 213
Query: 640 LKVIKPEVISRLSRLNELYMGNS 662
+ I+ L L EL + ++
Sbjct: 214 VATIERNAFDDLKSLEELNLSHN 236
>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 = 9.5, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 9/91 (9%)
Query: 603 LAKLEILSFRNSHIEQ--LPEQIGNLTRLKLLDLSNCSKLKVIKPEVISRLSRLNELYMG 660
L+ LE+L + ++ LP+ L L LDLS C +L+ + P + LS L L M
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 207
Query: 661 NSFTRKVEGQSNASVVELKQLSSLTILDMHI 691
++ ++ K L+SL +LD +
Sbjct: 208 HNNFFSLD------TFPYKCLNSLQVLDYSL 232
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,063,650
Number of Sequences: 62578
Number of extensions: 1100159
Number of successful extensions: 2803
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 2773
Number of HSP's gapped (non-prelim): 65
length of query: 961
length of database: 14,973,337
effective HSP length: 108
effective length of query: 853
effective length of database: 8,214,913
effective search space: 7007320789
effective search space used: 7007320789
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)