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= 036017
(283 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 51/102 (50%), Gaps = 9/102 (8%)
Query: 185 NCSKLESFPGILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNLG 244
+ + L P + A LE + L ++ LP+S+ L L+EL + C +L++LP+ L
Sbjct: 112 DAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLA 171
Query: 245 S---------LRSLKRLHTGKSAISQLPSSIADLKQVDGLSF 277
S L +L+ L + I LP+SIA+L+ + L
Sbjct: 172 STDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKI 213
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 43/148 (29%), Positives = 63/148 (42%), Gaps = 12/148 (8%)
Query: 143 FPAFISLSLTNLEVLDLAHCKRLNRLSASICK---------LKSLSWLRLYNCSKLESFP 193
PA I+ SL L L + C L L + L +L LRL + + S P
Sbjct: 142 LPASIA-SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL-EWTGIRSLP 199
Query: 194 GILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNLGSLRSLKRLH 253
+ N+ L+ + +R + + L ++ HL L+EL + C L P G LKRL
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI 259
Query: 254 TGK-SAISQLPSSIADLKQVDGLSFYGC 280
S + LP I L Q++ L GC
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLDLRGC 287
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 205 IDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNLGSLRSLKRLHTGKSAISQLPS 264
++LR + + P L L+ ++ L +LPD L+ L ++ + LP+
Sbjct: 86 LELRSVPLPQFPDQAFRLSHLQHXTIDAA-GLXELPDTXQQFAGLETLTLARNPLRALPA 144
Query: 265 SIADLKQVDGLSFYGC 280
SIA L ++ LS C
Sbjct: 145 SIASLNRLRELSIRAC 160
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 41/96 (42%), Gaps = 1/96 (1%)
Query: 82 LKSVDLCNSQNLTRMPDLSETPNLERMYLLNCTNLPFXXXXXXXXXXXXMLRLEGCKILG 141
LKS+ + NS P + P LE + L CT L L L+ C L
Sbjct: 208 LKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267
Query: 142 PFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKS 177
P I LT LE LDL C L+RL + I +L +
Sbjct: 268 TLPLDIH-RLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 14/148 (9%)
Query: 138 KILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESF-PGIL 196
K + F F LSL NL LD++H + L SL L++ S E+F P I
Sbjct: 409 KQMSEFSVF--LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 466
Query: 197 ENMARLEYIDLRLTAIKEL-PSSVEHLEGLKELRMEY--CYKLSKLPDN-LGSLR----S 248
+ L ++DL +++L P++ L L+ L M + + L P L SL+ S
Sbjct: 467 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYS 526
Query: 249 LKRLHTG-KSAISQLPSSIA--DLKQVD 273
L + T K + PSS+A +L Q D
Sbjct: 527 LNHIMTSKKQELQHFPSSLAFLNLTQND 554
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 14/148 (9%)
Query: 138 KILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESF-PGIL 196
K + F F LSL NL LD++H + L SL L++ S E+F P I
Sbjct: 433 KQMSEFSVF--LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 490
Query: 197 ENMARLEYIDLRLTAIKEL-PSSVEHLEGLKELRMEY--CYKLSKLPDN-LGSLR----S 248
+ L ++DL +++L P++ L L+ L M + + L P L SL+ S
Sbjct: 491 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYS 550
Query: 249 LKRLHTG-KSAISQLPSSIA--DLKQVD 273
L + T K + PSS+A +L Q D
Sbjct: 551 LNHIMTSKKQELQHFPSSLAFLNLTQND 578
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 14/148 (9%)
Query: 138 KILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESF-PGIL 196
K + F F LSL NL LD++H + L SL L++ S E+F P I
Sbjct: 114 KQMSEFSVF--LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 171
Query: 197 ENMARLEYIDLRLTAIKEL-PSSVEHLEGLKELRMEY--CYKLSKLPDN-LGSLR----S 248
+ L ++DL +++L P++ L L+ L M + + L P L SL+ S
Sbjct: 172 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYS 231
Query: 249 LKRLHTG-KSAISQLPSSIA--DLKQVD 273
L + T K + PSS+A +L Q D
Sbjct: 232 LNHIMTSKKQELQHFPSSLAFLNLTQND 259
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 59/122 (48%), Gaps = 8/122 (6%)
Query: 138 KILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESF-PGIL 196
K + F F LSL NL LD++H + L SL L++ S E+F P I
Sbjct: 409 KQMSEFSVF--LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 466
Query: 197 ENMARLEYIDLRLTAIKEL-PSSVEHLEGLKELRMEYCYKLSKLPDNL-GSLRSLKR--L 252
+ L ++DL +++L P++ L L+ L M +L +PD + L SL++ L
Sbjct: 467 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMA-SNQLKSVPDGIFDRLTSLQKIWL 525
Query: 253 HT 254
HT
Sbjct: 526 HT 527
>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 = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 55/106 (51%), Gaps = 4/106 (3%)
Query: 140 LGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESFP-GILEN 198
L P + LTNL+ L L + + KL +L++L L + ++L+S P G+ +
Sbjct: 97 LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAH-NQLQSLPKGVFDK 155
Query: 199 MARLEYIDLRLTAIKELPSSV-EHLEGLKELRMEYCYKLSKLPDNL 243
+ L +DL ++ LP V + L LK+LR+ Y +L +PD +
Sbjct: 156 LTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL-YQNQLKSVPDGV 200
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 140 LGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESFP-GILEN 198
L P + LTNL LDL++ + + KL L LRLY ++L+S P G+ +
Sbjct: 145 LQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDR 203
Query: 199 MARLEYI 205
+ L+YI
Sbjct: 204 LTSLQYI 210
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 68/139 (48%), Gaps = 7/139 (5%)
Query: 145 AFISLSLTNLEVLDLAHCKRLNRLS-ASICKLKSLSWLRLYNCSKLESFPGILENMARLE 203
AF L+L LE LDL+ +L + A+ L L L L C E PG+ +A L+
Sbjct: 75 AFTGLAL--LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQ 132
Query: 204 YIDLRLTAIKELP-SSVEHLEGLKELRMEYCYKLSKLPDN-LGSLRSLKRLHTGKSAISQ 261
Y+ L+ A++ LP + L L L + + ++S +P+ L SL RL ++ ++
Sbjct: 133 YLYLQDNALQALPDDTFRDLGNLTHLFL-HGNRISSVPERAFRGLHSLDRLLLHQNRVAH 191
Query: 262 L-PSSIADLKQVDGLSFYG 279
+ P + DL ++ L +
Sbjct: 192 VHPHAFRDLGRLMTLYLFA 210
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 68/139 (48%), Gaps = 7/139 (5%)
Query: 145 AFISLSLTNLEVLDLAHCKRLNRLS-ASICKLKSLSWLRLYNCSKLESFPGILENMARLE 203
AF L+L LE LDL+ +L + A+ L L L L C E PG+ +A L+
Sbjct: 74 AFTGLAL--LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQ 131
Query: 204 YIDLRLTAIKELP-SSVEHLEGLKELRMEYCYKLSKLPDN-LGSLRSLKRLHTGKSAISQ 261
Y+ L+ A++ LP + L L L + + ++S +P+ L SL RL ++ ++
Sbjct: 132 YLYLQDNALQALPDDTFRDLGNLTHLFL-HGNRISSVPERAFRGLHSLDRLLLHQNRVAH 190
Query: 262 L-PSSIADLKQVDGLSFYG 279
+ P + DL ++ L +
Sbjct: 191 VHPHAFRDLGRLMTLYLFA 209
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 35.4 bits (80), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 3/84 (3%)
Query: 187 SKLESFP-GILENMARLEYIDLRLTAIKELPSSV-EHLEGLKELRMEYCYKLSKLPDNLG 244
++L + P G+ +++ +L +DL + LPS+V + L LKEL M C KL++LP +
Sbjct: 74 NQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM-CCNKLTELPRGIE 132
Query: 245 SLRSLKRLHTGKSAISQLPSSIAD 268
L L L ++ + +P D
Sbjct: 133 RLTHLTHLALDQNQLKSIPHGAFD 156
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 136 GCKILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESFPGI 195
G LG P + SLT L VLDL + SA +L L L + C+KL P
Sbjct: 72 GSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMC-CNKLTELPRG 130
Query: 196 LENMARLEYIDLRLTAIKELP 216
+E + L ++ L +K +P
Sbjct: 131 IERLTHLTHLALDQNQLKSIP 151
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 35.4 bits (80), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 169 SASICKLKSLSWLRLYNCSKLESFP-GILENMARLEYIDLRLTAIKELPSSVEHLEGLKE 227
S + ++ SL L L KLE G E + L+Y++L + IK++P ++ L GL+E
Sbjct: 164 SYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEE 222
Query: 228 LRMEYCYKLSKLPDNLGSLRSLKRLHTGKSAISQLPSSIADLKQVDGLS 276
L M + P + L SLK+L S + S+ + DGL+
Sbjct: 223 LEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQV-----SLIERNAFDGLA 266
>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 = 34.3 bits (77), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 62/126 (49%), Gaps = 9/126 (7%)
Query: 156 VLDLAHCKRLNRLSASICKLKSLSWLRLY-NCSKLESFPGILENMARLEYIDLRLTAIKE 214
LDL++ + N +SA+I K L+ RLY N + L P ++N++ L +DL +
Sbjct: 228 ALDLSNLQIFN-ISANIFKYDFLT--RLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTS 284
Query: 215 LPSSVEHLEGLKELRMEYCYK--LSKLPDNLGSLRSLKRLHTGKSAISQLPSSIADLKQV 272
LP+ L +L+ Y + ++ LP G+L +L+ L + + + I K V
Sbjct: 285 LPAE---LGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSV 341
Query: 273 DGLSFY 278
GL FY
Sbjct: 342 TGLIFY 347
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 50/101 (49%), Gaps = 8/101 (7%)
Query: 185 NCSKLESFPGILENMARLEYID---LRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPD 241
+ S L+ F I N+ + +++ L ++ ELP+ +++L L+ L + + +L+ LP
Sbjct: 230 DLSNLQIF-NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN-RLTSLPA 287
Query: 242 NLGSLRSLKRLHTGKSAISQLPSSIADLKQVDGLSFYGCRG 282
LGS LK + + ++ LP +L L F G G
Sbjct: 288 ELGSCFQLKYFYFFDNMVTTLPWEFGNLC---NLQFLGVEG 325
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 54/106 (50%), Gaps = 4/106 (3%)
Query: 140 LGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESFP-GILEN 198
L P + LTNL+ L L + + KL +L++L LY+ ++L+S P G+ +
Sbjct: 97 LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYH-NQLQSLPKGVFDK 155
Query: 199 MARLEYIDLRLTAIKELPSSV-EHLEGLKELRMEYCYKLSKLPDNL 243
+ L +DL ++ LP V + L LK+L + +L +PD +
Sbjct: 156 LTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLN-DNQLKSVPDGV 200
>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 = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 69/139 (49%), Gaps = 7/139 (5%)
Query: 145 AFISLSLTNLEVLDLAHCKRLNRLSASICK-LKSLSWLRLYNCSKLESFPGILENMARLE 203
AF L+L LE LDL+ +L + + + L L L L C E PG+ +A L+
Sbjct: 74 AFTGLTL--LEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQ 131
Query: 204 YIDLRLTAIKELP-SSVEHLEGLKELRMEYCYKLSKLPDN-LGSLRSLKRLHTGKSAISQ 261
Y+ L+ ++ LP ++ L L L + + ++ +P++ L SL RL ++ +++
Sbjct: 132 YLYLQDNNLQALPDNTFRDLGNLTHLFL-HGNRIPSVPEHAFRGLHSLDRLLLHQNHVAR 190
Query: 262 L-PSSIADLKQVDGLSFYG 279
+ P + DL ++ L +
Sbjct: 191 VHPHAFRDLGRLMTLYLFA 209
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 54/118 (45%), Gaps = 9/118 (7%)
Query: 160 AHCKRLNRLSASICKLKSLSWLRLY-------NCSKLESFP-GILENMARLEYIDLRLTA 211
A K+L+ S + L S ++ RL N +KL++ P GI + + LE + +
Sbjct: 37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK 96
Query: 212 IKELPSSV-EHLEGLKELRMEYCYKLSKLPDNLGSLRSLKRLHTGKSAISQLPSSIAD 268
++ LP V + L L ELR++ S P SL L L G + + LP + D
Sbjct: 97 LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFD 154
Score = 30.8 bits (68), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 140 LGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLESFP-GILEN 198
L P + SLT L L L + + + KL SL LRLYN ++L+ P G +
Sbjct: 121 LKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN-NQLKRVPEGAFDK 179
Query: 199 MARLEYIDLRLTAIKELP-SSVEHLEGLKELRME 231
+ L+ + L +K +P + + LE LK L+++
Sbjct: 180 LTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQ 213
>pdb|2WWU|A Chain A, Crystal Structure Of The Catalytic Domain Of Phd Finger
Protein 8
Length = 371
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 131 MLRLEGCKILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLE 190
+L+ +G + P P+F + + D ++ + CK+K +++ Y K E
Sbjct: 51 VLKKDGLGMTLPSPSFTVRDVEHYVGSD-KEIDVIDVTRQADCKMKLGDFVKYYYSGKRE 109
Query: 191 SFPGILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYC 233
+ N+ LE+ D RL+ + E P V L ++ L E C
Sbjct: 110 K----VLNVISLEFSDTRLSNLVETPKIVRKLSWVENLWPEEC 148
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 177 SLSWLRLYNCSKLESFPG-ILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYCYK 235
L L L + + LE P + + +D+ T I LPS LE LK+LR Y
Sbjct: 178 QLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRARSTYN 235
Query: 236 LSKLP 240
L KLP
Sbjct: 236 LKKLP 240
>pdb|4DO0|A Chain A, Crystal Structure Of Human Phf8 In Complex With Daminozide
Length = 374
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 131 MLRLEGCKILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLE 190
+L+ +G + P P+F + + D ++ + CK+K +++ Y K E
Sbjct: 54 VLKKDGLGMTLPSPSFTVRDVEHYVGSD-KEIDVIDVTRQADCKMKLGDFVKYYYSGKRE 112
Query: 191 SFPGILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYC 233
+ N+ LE+ D RL+ + E P V L ++ L E C
Sbjct: 113 K----VLNVISLEFSDTRLSNLVETPKIVRKLSWVENLWPEEC 151
>pdb|3K3N|A Chain A, Crystal Structure Of The Catalytic Core Domain Of Human
Phf8
pdb|3K3O|A Chain A, Crystal Structure Of The Catalytic Core Domain Of Human
Phf8 Complexed With Alpha-Ketoglutarate
Length = 371
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 131 MLRLEGCKILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLE 190
+L+ +G + P P+F + + D ++ + CK+K +++ Y K E
Sbjct: 43 VLKKDGLGMTLPSPSFTVRDVEHYVGSD-KEIDVIDVTRQADCKMKLGDFVKYYYSGKRE 101
Query: 191 SFPGILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYC 233
+ N+ LE+ D RL+ + E P V L ++ L E C
Sbjct: 102 K----VLNVISLEFSDTRLSNLVETPKIVRKLSWVENLWPEEC 140
>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 = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 200 ARLEYIDLRLTAIKELPSSV-EHLEGLKELRMEYCYKLSKLPDNL-GSLRSLKRLHTGKS 257
A+ Y+DL ++K LP+ V + L L +L + KL LP+ + L SL L+ +
Sbjct: 28 AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGG-NKLQSLPNGVFNKLTSLTYLNLSTN 86
Query: 258 AISQLPSSIAD 268
+ LP+ + D
Sbjct: 87 QLQSLPNGVFD 97
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 178 LSWLRLYNCSKLESFPG-ILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYCYKL 236
L L L + + LE P + + +D+ T I LPS LE LK+LR Y L
Sbjct: 179 LDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GLENLKKLRARSTYNL 236
Query: 237 SKLP 240
KLP
Sbjct: 237 KKLP 240
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 131 MLRLEGCKILGPFPAFISLSLTNLEVLDLAHCKRLNRLSASICKLKSLSWLRLYNCSKLE 190
+L+ +G + P P+F + + D ++ + CK+K +++ Y K E
Sbjct: 127 VLKKDGLGMTLPSPSFTVRDVEHYVGSD-KEIDVIDVTRQADCKMKLGDFVKYYYSGKRE 185
Query: 191 SFPGILENMARLEYIDLRLTAIKELPSSVEHLEGLKELRMEYC 233
+ N+ LE+ D RL+ + E P V L ++ L E C
Sbjct: 186 K----VLNVISLEFSDTRLSNLVETPKIVRKLSWVENLWPEEC 224
>pdb|1WNW|A Chain A, D136n Mutant Of Heme Oxygenase From Corynebacterium
Diphtheriae (hmuo)
pdb|1WNW|B Chain B, D136n Mutant Of Heme Oxygenase From Corynebacterium
Diphtheriae (hmuo)
pdb|1WNW|C Chain C, D136n Mutant Of Heme Oxygenase From Corynebacterium
Diphtheriae (hmuo)
Length = 215
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 10 YLHNLRGDPIMSSKVHLDQGLDYLPEELRYLHWHGYPLRTLPTNLSTDKLVVLNLPCSNV 69
YL NL G +++ + G+D PE L + H+ G + + +KL L L
Sbjct: 133 YLGNLSGGQVIARMMQRHYGVD--PEALGFYHFEGIAKLKVYKDEYREKLNNLELSDEQR 190
Query: 70 ELLWEEKKEAF 80
E L +E +AF
Sbjct: 191 EHLLKEATDAF 201
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 163 KRLNRLSASICKLKSLSWLRLYNCSKLESFPGILENMARLEYIDLRLTAIKELPSSV-EH 221
+ L + A I + L + +KLE PG+ +++ +L Y++L + + LP V +
Sbjct: 29 RSLASVPAGIPTTTQVLHLYINQITKLE--PGVFDSLTQLTYLNLAVNQLTALPVGVFDK 86
Query: 222 LEGLKELRMEYCYKLSKLP----DNLGSLRSL 249
L L L + + +L +P DNL SL +
Sbjct: 87 LTKLTHLAL-HINQLKSIPMGVFDNLKSLTHI 117
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 151 LTNLEVLDLAHCKRLNRL------SASICKLKSLSWLRLYN--CSKLESFP-GILENMAR 201
L LE+LDL H L RL I LK LS L + N + + P + +++
Sbjct: 503 LEKLEILDLQH-NNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFE 561
Query: 202 LEYIDLRLTAIKELPSSV 219
L+ IDL L + LP+SV
Sbjct: 562 LKIIDLGLNNLNTLPASV 579
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 151 LTNLEVLDLAHCKRLNRL------SASICKLKSLSWLRLYN--CSKLESFP-GILENMAR 201
L LE+LDL H L RL I LK LS L + N + + P + +++
Sbjct: 508 LEKLEILDLQH-NNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFE 566
Query: 202 LEYIDLRLTAIKELPSSV 219
L+ IDL L + LP+SV
Sbjct: 567 LKIIDLGLNNLNTLPASV 584
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 151 LTNLEVLDLAHCKRLNRL------SASICKLKSLSWLRLYN--CSKLESFP-GILENMAR 201
L LE+LDL H L RL I LK LS L + N + + P + +++
Sbjct: 513 LEKLEILDLQH-NNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFE 571
Query: 202 LEYIDLRLTAIKELPSSV 219
L+ IDL L + LP+SV
Sbjct: 572 LKIIDLGLNNLNTLPASV 589
>pdb|2IHM|A Chain A, Polymerase Mu In Ternary Complex With Gapped 11mer Dna
Duplex And Bound Incoming Nucleotide
pdb|2IHM|B Chain B, Polymerase Mu In Ternary Complex With Gapped 11mer Dna
Duplex And Bound Incoming Nucleotide
Length = 360
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 216 PSSVEHLEGLKELRMEYCYKLSKLPDNLGSLRSLKRLHTGKSAISQLPSSIADLKQVDGL 275
PS + H L +E + + N G L S R S + LP +A L Q+ GL
Sbjct: 10 PSPLTHHNTLLSEALETLAEAAGFEANEGRLLSFSR---AASVLKSLPCPVASLSQLHGL 66
Query: 276 SFYG 279
++G
Sbjct: 67 PYFG 70
>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 = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 7/63 (11%)
Query: 201 RLEYIDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNLGSLRSLKRLHTGKSAIS 260
LE +L L+++ ELP HLE L + C L++LP+ SL+SL + A+S
Sbjct: 75 ELELNNLGLSSLPELPP---HLESL----VASCNSLTELPELPQSLKSLLVDNNNLKALS 127
Query: 261 QLP 263
LP
Sbjct: 128 DLP 130
>pdb|3GN8|A Chain A, X-Ray Crystal Structure Of Ancgr2 In Complex With
Dexamethasone
pdb|3GN8|B Chain B, X-Ray Crystal Structure Of Ancgr2 In Complex With
Dexamethasone
Length = 249
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 204 YIDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNL-----GSLRSLKRLHTGKSA 258
+ ++R+T IKEL ++ EG + Y+L+KL D++ G L+ KS
Sbjct: 158 FDEIRMTYIKELGKAIVKREGNSSQNWQRFYQLTKLLDSMHEMVGGLLQFCFYTFVNKSL 217
Query: 259 ISQLPSSIADL 269
+ P +A++
Sbjct: 218 SVEFPEMLAEI 228
>pdb|4E2J|A Chain A, X-Ray Crystal Structure Of The Ancestral Glucocorticoid
Receptor 2 Ligand Binding Domain In Complex With
Mometasone Furoate And Tif-2 Coactivator Fragment
pdb|4E2J|B Chain B, X-Ray Crystal Structure Of The Ancestral Glucocorticoid
Receptor 2 Ligand Binding Domain In Complex With
Mometasone Furoate And Tif-2 Coactivator Fragment
Length = 250
Score = 27.3 bits (59), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 204 YIDLRLTAIKELPSSVEHLEGLKELRMEYCYKLSKLPDNL-----GSLRSLKRLHTGKSA 258
+ ++R+T IKEL ++ EG + Y+L+KL D++ G L+ KS
Sbjct: 160 FDEIRMTYIKELGKAIVKREGNSSQNWQRFYQLTKLLDSMHEMVGGLLQFCFYTFVNKSL 219
Query: 259 ISQLPSSIADL 269
+ P +A++
Sbjct: 220 SVEFPEMLAEI 230
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: 7,824,678
Number of Sequences: 62578
Number of extensions: 298703
Number of successful extensions: 744
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 692
Number of HSP's gapped (non-prelim): 82
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
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: 51 (24.3 bits)