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= 001999
(984 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 549 LDLHDTSIRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQCLPS 608
LDL + I + +I + L L+L SL +LP EI+ L L +LD+ H R+ LP+
Sbjct: 229 LDLSNLQIFNISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLTSLPA 287
Query: 609 EIGQLIKLK 617
E+G +LK
Sbjct: 288 ELGSCFQLK 296
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 62/134 (46%), Gaps = 17/134 (12%)
Query: 525 LIVEGRRLEKLPMSFFEYMCHLQLLDLHDTSIRCLPPSI-SRLINLNALFLRSCSLLFQL 583
L + +L LP+ F+ + L +LDL + LP ++ RL++L LF+ C+ L +L
Sbjct: 69 LYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM-CCNKLTEL 127
Query: 584 PKEIRYLQKLEILDVRHTRIQCLPSE-------------IGQLIKLKCLRVSWVEN-VGN 629
P+ I L L L + +++ +P G +C + ++ N V +
Sbjct: 128 PRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWDCECRDIMYLRNWVAD 187
Query: 630 HTH-AGAWPGEMIS 642
HT A W G+ ++
Sbjct: 188 HTSIAMRWDGKAVN 201
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 60/125 (48%), Gaps = 14/125 (11%)
Query: 510 SSTLPDMPNCCEILTLI----VEGRRLEKLPMSFFEYMCHLQLLDLHDTSIRCLPPSISR 565
S LP P+ L+ + ++ L +LP + ++ L+ L L +R LP SI+
Sbjct: 90 SVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQF-AGLETLTLARNPLRALPASIAS 148
Query: 566 LINLNALFLRSCSLLFQLPK---------EIRYLQKLEILDVRHTRIQCLPSEIGQLIKL 616
L L L +R+C L +LP+ E + L L+ L + T I+ LP+ I L L
Sbjct: 149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNL 208
Query: 617 KCLRV 621
K L++
Sbjct: 209 KSLKI 213
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 540 FEYMCHLQLLDLHD-TSIRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDV 598
++ L+ LDL T++R PP L L L+ CS L LP +I L +LE LD+
Sbjct: 225 IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDL 284
Query: 599 RH-TRIQCLPSEIGQL 613
R + LPS I QL
Sbjct: 285 RGCVNLSRLPSLIAQL 300
Score = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 72/167 (43%), Gaps = 23/167 (13%)
Query: 818 FQGLNNLHIKNLPKLMHIWVGPIASGSLNSLRTLRVKICHSI----KTLFSKEMVAQLNE 873
F GL L + P + P + SLN LR L ++ C + + L S + +
Sbjct: 126 FAGLETLTLARNP----LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQG 181
Query: 874 LQDLQVEDCQMIEEIVEAGTVLAIGEFPKLKTLELIDLPKLSTICNSLLLPWPSLETIKI 933
L +LQ +E +I LK+L++ + P LS + ++ P LE + +
Sbjct: 182 LVNLQ---SLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHH-LPKLEELDL 236
Query: 934 KACNALKSFPSTFKNTTMLKVIKGDQAWFDQLEWENCTDLKVRFQDI 980
+ C AL+++P F G +A +L ++C++L DI
Sbjct: 237 RGCTALRNYPPIF----------GGRAPLKRLILKDCSNLLTLPLDI 273
>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 = 36.6 bits (83), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 61/230 (26%), Positives = 99/230 (43%), Gaps = 39/230 (16%)
Query: 144 PQDPFVSRHASKFPSHKEYVETLEKHLSS--GGLKKICICGPLGVGKTTIM-ENSHDSVG 200
PQ P V F + K+ V +++ LS G + I G G GK+ + E D
Sbjct: 126 PQRPVV------FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSL 179
Query: 201 ESGRF-DIIFWVNV---NTDGNISDIQ---------EIILERLKVNAKELDNAQRADNIS 247
G F + WV+V + G + +Q E +RL +N +E + R I
Sbjct: 180 LEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLR---IL 236
Query: 248 KELKDKRYVLFLDGVSSEINFKEIGIHDDHGRGKVVFACRSREFCWQADDVIHVERLSPR 307
K R +L LD V K + +++ R + D V+ + + P
Sbjct: 237 MLRKHPRSLLILDDVWDSWVLKAFD-----SQCQILLTTRDKSV---TDSVMGPKYVVPV 288
Query: 308 EA---KKLFWEVVG--VNLKKNPDIEQEADSIVEECGGMPYMLKLIGKEL 352
E+ K+ E++ VN+KK D+ ++A SI++EC G P ++ LIG L
Sbjct: 289 ESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIGALL 337
>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 = 36.2 bits (82), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 59/227 (25%), Positives = 98/227 (43%), Gaps = 39/227 (17%)
Query: 144 PQDPFVSRHASKFPSHKEYVETLEKHLSS--GGLKKICICGPLGVGKTTIM-ENSHDSVG 200
PQ P V F + K+ V +++ LS G + I G G GK+ + E D
Sbjct: 120 PQRPVV------FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSL 173
Query: 201 ESGRF-DIIFWVNV---NTDGNISDIQ---------EIILERLKVNAKELDNAQRADNIS 247
G F + WV+V + G + +Q E +RL +N +E + R +
Sbjct: 174 LEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLR 233
Query: 248 KELKDKRYVLFLDGVSSEINFKEIGIHDDHGRGKVVFACRSREFCWQADDVIHVERLSPR 307
K R +L LD V K + +++ R + D V+ + + P
Sbjct: 234 KH---PRSLLILDDVWDSWVLKAFD-----SQCQILLTTRDKSV---TDSVMGPKYVVPV 282
Query: 308 EA---KKLFWEVVG--VNLKKNPDIEQEADSIVEECGGMPYMLKLIG 349
E+ K+ E++ VN+KK D+ ++A SI++EC G P ++ LIG
Sbjct: 283 ESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIG 328
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 57/230 (24%), Positives = 97/230 (42%), Gaps = 39/230 (16%)
Query: 144 PQDPFVSRHASKFPSHKEYVETLEKHL--SSGGLKKICICGPLGVGKTTIM-ENSHDSVG 200
PQ P + F + K+ V +++ L +G + I G G GK+ + E D
Sbjct: 120 PQRPVI------FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSL 173
Query: 201 ESGRFDI-IFWVNV---NTDGNISDIQEIIL---------ERLKVNAKELDNAQRADNIS 247
G F + WV++ + G + +Q + + +RL +N +E + R +
Sbjct: 174 LEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR 233
Query: 248 KELKDKRYVLFLDGVSSEINFKEIGIHDDHGRGKVVFACRSREFCWQADDVIHVERLSPR 307
K R +L LD V K + +++ R + D V+ + + P
Sbjct: 234 KH---PRSLLILDDVWDPWVLKAFD-----NQCQILLTTRDKSV---TDSVMGPKHVVPV 282
Query: 308 EA-----KKLFWEVVGVNLKKNPDIEQEADSIVEECGGMPYMLKLIGKEL 352
E+ K L + VN+KK D+ EA SI++EC G P ++ LIG L
Sbjct: 283 ESGLGREKGLEILSLFVNMKKE-DLPAEAHSIIKECKGSPLVVSLIGALL 331
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 33.9 bits (76), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 16/86 (18%)
Query: 551 LHDTSIRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQCLPSEI 610
L DT RCLPP I ++++L++ ++S +PK++ L+ L+ L+V +++ +P
Sbjct: 411 LTDTIFRCLPPRI-KVLDLHSNKIKS------IPKQVVKLEALQELNVASNQLKSVPD-- 461
Query: 611 GQLIKLKCLRVSWVENVGNHTHAGAW 636
G +L L+ W+ H W
Sbjct: 462 GIFDRLTSLQKIWL-------HTNPW 480
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 33.5 bits (75), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 49/123 (39%), Gaps = 26/123 (21%)
Query: 525 LIVEGRRLEKLPMSFFEYMCHLQLLDLHDTSIRCLPPSI--------------------- 563
L ++ +L LP F + L+LL L+D ++ LP I
Sbjct: 42 LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALP 101
Query: 564 ----SRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQCLPSEI-GQLIKLKC 618
+L+NL L L L P+ L KL L + + +Q LP + +L LK
Sbjct: 102 IGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKE 161
Query: 619 LRV 621
LR+
Sbjct: 162 LRL 164
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 51/101 (50%), Gaps = 4/101 (3%)
Query: 524 TLIVEGRRLEKLPMSFFEYMCHLQLLDLHDTSIRCLPPSI-SRLINLNALFLRSCSLLFQ 582
TL V +L+ LP+ F+ + +L L L ++ LPP + L L L L + L
Sbjct: 89 TLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSL-GYNELQS 147
Query: 583 LPKEI-RYLQKLEILDVRHTRIQCLP-SEIGQLIKLKCLRV 621
LPK + L L+ L + + +++ +P +L +LK L++
Sbjct: 148 LPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKL 188
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 319 VNLKKNPDIEQEADSIVEECGGMPYMLKLIGKEL 352
VN+KK D+ EA SI++EC G P ++ LIG L
Sbjct: 306 VNMKKE-DLPAEAHSIIKECKGSPLVVSLIGALL 338
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 7/80 (8%)
Query: 176 KKICICGPLGVGKTTI------MENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILER 229
K I + GP GVGKT I + N+ E+ +F + +V D I D+ + ++
Sbjct: 50 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVKM 109
Query: 230 LKVNAKELDNAQRADNISKE 249
++V A E N RA+ +++E
Sbjct: 110 VRVQAIE-KNRYRAEELAEE 128
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 7/80 (8%)
Query: 176 KKICICGPLGVGKTTI------MENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILER 229
K I + GP GVGKT I + N+ E+ +F + +V D I D+ + ++
Sbjct: 57 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVKM 116
Query: 230 LKVNAKELDNAQRADNISKE 249
++V A E N RA+ +++E
Sbjct: 117 VRVQAIE-KNRYRAEELAEE 135
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 7/80 (8%)
Query: 176 KKICICGPLGVGKTTI------MENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILER 229
K I + GP GVGKT I + N+ E+ +F + +V D I D+ + ++
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVKM 110
Query: 230 LKVNAKELDNAQRADNISKE 249
++V A E N RA+ +++E
Sbjct: 111 VRVQAIE-KNRYRAEELAEE 129
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 32.7 bits (73), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 57/135 (42%), Gaps = 34/135 (25%)
Query: 511 STLPDMPNCCEILTLIVEGRRLEKLP--------MSFFEY-----------MCHLQLLDL 551
++LP +P E+ TL V G +L LP +S F +C L +
Sbjct: 74 TSLPALP--PELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGN 131
Query: 552 HDTSIRCLPPSI-------SRLINLNALFLRSCSL------LFQLPKEIRYLQKLEILDV 598
TS+ LPP + ++L +L AL C L L LP LQ+L + D
Sbjct: 132 QLTSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDN 191
Query: 599 RHTRIQCLPSEIGQL 613
+ + LPSE+ +L
Sbjct: 192 QLASLPTLPSELYKL 206
>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 = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 8/125 (6%)
Query: 500 TKKLSLFGFPSSTLP--DMPNCCEILTLIVEGRRLEKLPMSFFEYMCHLQLLDLHDTS-I 556
++++ L G S +P +C + L + L + + F + L+ LDL D + +
Sbjct: 33 SQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQL 92
Query: 557 RCLPPSISR-LINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQCLPS----EIG 611
R + P+ R L +L+ L L C L P R L L+ L ++ +Q LP ++G
Sbjct: 93 RVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLG 152
Query: 612 QLIKL 616
L L
Sbjct: 153 NLTHL 157
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 49/190 (25%), Positives = 79/190 (41%), Gaps = 21/190 (11%)
Query: 774 IGSQYAVNLSNFGVDNLVRLQACVIEDCNEMTSIIDGNHRGVVPFQGLNNLHIKNLPKLM 833
+G V +S+ L L+ +E CN +TSI P + L++LH + +L
Sbjct: 135 VGDNDLVYISHRAFSGLNSLEQLTLEKCN-LTSI---------PTEALSHLHGLIVLRLR 184
Query: 834 HIWVGPIASGSLNSLRTLRV-KICH-SIKTLFSKEMVAQLNELQDLQVEDCQMIEEIVEA 891
H+ + I S L L+V +I H + + LN L L + C + A
Sbjct: 185 HLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLN-LTSLSITHCNLT-----A 238
Query: 892 GTVLAIGEFPKLKTLELIDLPKLSTICNSLLLPWPSLETIKIKACNALKSFPSTFKNTTM 951
LA+ L+ L L P +STI S+L L+ I++ P F+
Sbjct: 239 VPYLAVRHLVYLRFLNLSYNP-ISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNY 297
Query: 952 LKV--IKGDQ 959
L+V + G+Q
Sbjct: 298 LRVLNVSGNQ 307
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 58/130 (44%), Gaps = 18/130 (13%)
Query: 176 KKICICGPLGVGKTTI------MENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILER 229
K I + GP GVGKT I + N+ E+ +F + +V D I D+ + + +
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAM-K 109
Query: 230 LKVNAKELDNAQRADNISKELKDKRYVLFLDGV--SSEINFKEIGIHDDHGRGKVVFACR 287
L + N RA+++++E LD + ++ + E+ HD H + F +
Sbjct: 110 LVRQQEIAKNRARAEDVAEE-------RILDALLPPAKNQWGEVENHDSHSSTRQAFRKK 162
Query: 288 SREFCWQADD 297
RE Q DD
Sbjct: 163 LRE--GQLDD 170
>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 = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 548 LLDLHDTSIRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQC-L 606
+LD +D + +P +S NLN + L + L ++PK I L+ L IL + + +
Sbjct: 472 ILDFNDLTGE-IPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530
Query: 607 PSEIGQLIKLKCLRVSWVENVGNHTHAGAWPGEMI 641
P+E+G C + W++ + + G P M
Sbjct: 531 PAELGD-----CRSLIWLD-LNTNLFNGTIPAAMF 559
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 548 LLDLHDTSIRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQC-L 606
+LD +D + +P +S NLN + L + L ++PK I L+ L IL + + +
Sbjct: 469 ILDFNDLTGE-IPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527
Query: 607 PSEIGQLIKLKCLRVSWVENVGNHTHAGAWPGEMI 641
P+E+G C + W++ + + G P M
Sbjct: 528 PAELGD-----CRSLIWLD-LNTNLFNGTIPAAMF 556
>pdb|3ET6|B Chain B, The Crystal Structure Of The Catalytic Domain Of A
Eukaryotic Guanylate Cyclase
Length = 190
Score = 31.6 bits (70), Expect = 2.6, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 721 FNIVVGYPQSTSLLAGFDVSEWSAEKHLRFSAGVEEIPGEFLTILKQAYSFELIGSQYAV 780
F+ +VG+ + S + +V E + RF A +EE P Q Y E IG Y V
Sbjct: 14 FSDIVGFTEIASRSSPLEVXSLLDELYQRFDAAIEEYP--------QLYKVETIGDAYMV 65
>pdb|3ET6|A Chain A, The Crystal Structure Of The Catalytic Domain Of A
Eukaryotic Guanylate Cyclase
Length = 190
Score = 31.6 bits (70), Expect = 2.6, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 721 FNIVVGYPQSTSLLAGFDVSEWSAEKHLRFSAGVEEIPGEFLTILKQAYSFELIGSQYAV 780
F+ +VG+ + S + +V E + RF A +EE P Q Y E IG Y V
Sbjct: 14 FSDIVGFTEIASRSSPLEVXSLLDELYQRFDAAIEEYP--------QLYKVETIGDAYMV 65
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 40/71 (56%), Gaps = 9/71 (12%)
Query: 556 IRCLPPSISRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDVRHTRIQCLPSEIGQLIK 615
RCLPP + ++++L+ + + +PK++ +LQ L+ L+V +++ +P G +
Sbjct: 445 FRCLPPKV-KVLDLHN------NRIMSIPKDVTHLQALQELNVASNQLKSVPD--GVFDR 495
Query: 616 LKCLRVSWVEN 626
L L+ W+ +
Sbjct: 496 LTSLQYIWLHD 506
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 176 KKICICGPLGVGKTTIMENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILERLKVNAK 235
+ I +CGP G GKT IM N ++ S +D++ +N + D E IL L +
Sbjct: 1268 RGIILCGPPGSGKTMIMNN---ALRNSSLYDVV-GINFSKDTT----TEHILSALHRHTN 1319
Query: 236 ELDNAQRADNISKELKDKRYVLFLDGVSSEINFKEIGIHDDHGRGKVVFACR 287
+ ++ + K K VLF D EIN ++ D +G VV R
Sbjct: 1320 YVTTSKGLTLLPKS-DIKNLVLFCD----EINLPKL---DKYGSQNVVLFLR 1363
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 163 VETLEKHLSSGGLKKICICGPLGVGKTT-IMENSHDSVGESGRFDIIFWVNVNTDGNISD 221
V+ L+ ++ +G + + GP GVGKTT + + + GE+ R + + +N + + I+
Sbjct: 34 VKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFL-ELNASDERGINV 92
Query: 222 IQEIILE 228
I+E + E
Sbjct: 93 IREKVKE 99
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 176 KKICICGPLGVGKTTIMENSHDSVGESGRFDIIFWVNVNTDGNISDIQEIILERLKVNAK 235
+ I +CGP G GKT IM N ++ S +D++ +N + D E IL L +
Sbjct: 1049 RGIILCGPPGSGKTMIMNN---ALRNSSLYDVV-GINFSKDTT----TEHILSALHRHTN 1100
Query: 236 ELDNAQRADNISKELKDKRYVLFLDGVSSEINFKEIGIHDDHGRGKVVFACR 287
+ ++ + K K VLF D EIN ++ D +G VV R
Sbjct: 1101 YVTTSKGLTLLPKS-DIKNLVLFCD----EINLPKL---DKYGSQNVVLFLR 1144
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 49/110 (44%), Gaps = 7/110 (6%)
Query: 131 RTEIGQIIKMEPKPQDPFVSRHASK----FPSHKEYVETLEKHLSSGGLKKICICGPLGV 186
+ +I ++ + Q P+V ++ K + V L+K L S L + GP G
Sbjct: 10 KRKISKLAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGT 69
Query: 187 GKT-TIMENSHDSVGESGRFDIIFWVNVNTDGNISDIQEII--LERLKVN 233
GKT TI+ + + G I +N + + IS ++E + RL V+
Sbjct: 70 GKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVS 119
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 540 FEYMCHLQLLDLHDTSIRCLPPSI-SRLINLNALFLRSCSLLFQLPKEIRYLQKLEILDV 598
FE + HLQ+L L+ + LPP + S L L L L S L ++ LEILD+
Sbjct: 476 FEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLP--ANLEILDI 533
Query: 599 RHTRIQCLPSEIGQLIKLKCLRVS 622
+R Q L + L L ++
Sbjct: 534 --SRNQLLAPNPDVFVSLSVLDIT 555
>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 = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 518 NCCEILTLIVEGRRLEKLPMSFFEYMCHLQLLDLHDTSIRCLP 560
N ++LTLI+ RL +P F+ + L+LL LH I +P
Sbjct: 76 NMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVP 118
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,730,829
Number of Sequences: 62578
Number of extensions: 1113075
Number of successful extensions: 2801
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 2761
Number of HSP's gapped (non-prelim): 80
length of query: 984
length of database: 14,973,337
effective HSP length: 108
effective length of query: 876
effective length of database: 8,214,913
effective search space: 7196263788
effective search space used: 7196263788
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)