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= 014826
(418 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 7/83 (8%)
Query: 59 SLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCE-LYNLEKLDISYCFNLKELPEGI-G 116
SLP + KL +L YLNL ++ LP+ + + L NL +LD+SY L+ LPEG+
Sbjct: 123 SLPDGVF---DKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN-QLQSLPEGVFD 178
Query: 117 KLINMKHLLNRGTNSLRYMPVGI 139
KL +K L N L+ +P G+
Sbjct: 179 KLTQLKD-LRLYQNQLKSVPDGV 200
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 68 IKKLVHLRYLNLRFPKIVKLPETLCE-LYNLEKLDISYCFNLKELPEGI-GKLINMKHLL 125
+K+L +L YL L ++ LP + + L NL++L + L+ LP+G+ KL N+ +L
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL-VLVENQLQSLPDGVFDKLTNLTYL- 138
Query: 126 NRGTNSLRYMPVGI 139
N N L+ +P G+
Sbjct: 139 NLAHNQLQSLPKGV 152
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 7/83 (8%)
Query: 59 SLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCE-LYNLEKLDISYCFNLKELPEGI-G 116
SLP + KL +L YL L ++ LP+ + + L NL +LD+ L+ LPEG+
Sbjct: 123 SLPDGVF---DKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNN-QLQSLPEGVFD 178
Query: 117 KLINMKHLLNRGTNSLRYMPVGI 139
KL +K L+ N L+ +P G+
Sbjct: 179 KLTQLKQ-LSLNDNQLKSVPDGV 200
>pdb|1RM6|A Chain A, Structure Of 4-Hydroxybenzoyl-Coa Reductase From Thauera
Aromatica
pdb|1RM6|D Chain D, Structure Of 4-Hydroxybenzoyl-Coa Reductase From Thauera
Aromatica
pdb|1SB3|A Chain A, Structure Of 4-Hydroxybenzoyl-Coa Reductase From Thauera
Aromatica
pdb|1SB3|D Chain D, Structure Of 4-Hydroxybenzoyl-Coa Reductase From Thauera
Aromatica
Length = 769
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 59 SLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCFNLKELPEGI 115
+L E + + ++VH L+ R P IV+ P+ E+ +E +D + F KE EG+
Sbjct: 674 ALSEETVYDNGRMVHGNILDYRVPTIVESPD--IEVIIVESMDPNGPFGAKEASEGM 728
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 87 LPETLCELYNLEKLDISYCFNLKEL-PEGIGKLINMKHLLNRGTNSLRYMPVGI 139
LP+ EL NL LD+S C L++L P L +++ +LN +N L+ +P GI
Sbjct: 462 LPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGI 513
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 84 IVKLPETLCELYNLEKLDISYCFNLKELPEGIGKL 118
++ LP + L LEKLD+ C NL LP I +L
Sbjct: 266 LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 2/85 (2%)
Query: 52 ALDVSQVSLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCFNLKEL 111
AL++ V LP + +L HL++ + + +LP+T + LE L ++ L+ L
Sbjct: 85 ALELRSVPLP-QFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRAL 142
Query: 112 PEGIGKLINMKHLLNRGTNSLRYMP 136
P I L ++ L R L +P
Sbjct: 143 PASIASLNRLRELSIRACPELTELP 167
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 69 KKLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCFNLKELPEGIGKLINMKHLLNRG 128
+ LV+L+ L L + I LP ++ L NL+ L I L L I L ++ L RG
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRG 238
Query: 129 TNSLRYMP 136
+LR P
Sbjct: 239 CTALRNYP 246
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 42/157 (26%), Positives = 62/157 (39%), Gaps = 27/157 (17%)
Query: 252 VFPSWMTSLTNLKSLGLSLCENCEQLP-PLGKL-PSLEQLFISYMSSVKRVGDEFLGVES 309
P+ + SL L+ L + C +LP PL S E + + S++ E+ G+ S
Sbjct: 141 ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL---EWTGIRS 197
Query: 310 DRHDXXXXXLVIIAFPKLKSLRIEG------------LMELEEWDY-GIT--RTGNTVIN 354
I LKSL+I L +LEE D G T R +
Sbjct: 198 -------LPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFG 250
Query: 355 IMPHLSSLVIDSCYELKALPDHIHQTTTLKRLWILNC 391
L L++ C L LP IH+ T L++L + C
Sbjct: 251 GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC 287
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 13/100 (13%)
Query: 40 VEELFRESTSLRALDVSQVSLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCE-LYNLE 98
++EL+ S L AL V L L L+L ++ LP + + L +L+
Sbjct: 66 LKELYLGSNQLGALPVGV----------FDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLK 115
Query: 99 KLDISYCFNLKELPEGIGKLINMKHLLNRGTNSLRYMPVG 138
+L + C L ELP GI +L ++ HL N L+ +P G
Sbjct: 116 ELFMC-CNKLTELPRGIERLTHLTHLA-LDQNQLKSIPHG 153
>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 = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 62 TEILRNIKKLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCFN--LKELPEGIGKLI 119
TE+ IK L +LR L+L ++ LP L + L+ Y F+ + LP G L
Sbjct: 260 TELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF---YFFDNMVTTLPWEFGNLC 316
Query: 120 NMKHL 124
N++ L
Sbjct: 317 NLQFL 321
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 51 RALDVSQVSLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCFNLKE 110
ALD+S + + I NI K L L L + +LP + L NL LD+S+ L
Sbjct: 227 HALDLSNLQI-FNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN-RLTS 284
Query: 111 LPEGIGKLINMKHL 124
LP +G +K+
Sbjct: 285 LPAELGSCFQLKYF 298
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 50/89 (56%), Gaps = 8/89 (8%)
Query: 53 LDVSQV-SLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCE-LYNLEKLDISYCFNLKE 110
LD +Q+ SLP + ++ KL YL+L + ++ LP+ + + L +L++L + Y LK
Sbjct: 116 LDRNQLKSLPPRVFDSLTKLT---YLSLGYNELQSLPKGVFDKLTSLKELRL-YNNQLKR 171
Query: 111 LPEG-IGKLINMKHLLNRGTNSLRYMPVG 138
+PEG KL +K L N L+ +P G
Sbjct: 172 VPEGAFDKLTELKT-LKLDNNQLKRVPEG 199
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 8/106 (7%)
Query: 37 AEIVEELFRESTSLRALDVSQVSLPTEILRNIKKLVHLRYLNLRFPKIVKLPETLCELYN 96
A + + FR T L L++ L T L L L L ++ LP L +
Sbjct: 48 ATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP--LGVFDH 105
Query: 97 LEKLDISYCF--NLKELPEGI-GKLINMKHL-LNRGTNSLRYMPVG 138
L +LD Y LK LP G+ +L +K L LN TN L+ +P G
Sbjct: 106 LTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLN--TNQLQSIPAG 149
>pdb|1LQS|L Chain L, Crystal Structure Of Human Cytomegalovirus Il-10 Bound To
Soluble Human Il-10r1
pdb|1LQS|M Chain M, Crystal Structure Of Human Cytomegalovirus Il-10 Bound To
Soluble Human Il-10r1
Length = 157
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 242 LEIQFNRGNTVFPSWMTSLTNLKSLGLSLCENCEQLPPLG 281
LEI F G+ V+P T L +++S S+ ++ Q P LG
Sbjct: 74 LEIVFPAGDHVYPGLKTELHSMRSTLESIYKDMRQCPLLG 113
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 70 KLVHLRYLNLRFPKIVKLPETLCELYNLEKLDISYCF--NLKELPEGI-GKLINMKHLLN 126
KL L L+L +I LP+ + L KL I Y L+ LP G+ KL +K L
Sbjct: 50 KLTQLTKLSLSQNQIQSLPDGV--FDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELA- 106
Query: 127 RGTNSLRYMPVGI 139
TN L+ +P GI
Sbjct: 107 LDTNQLKSVPDGI 119
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 0.139 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,092,103
Number of Sequences: 62578
Number of extensions: 411004
Number of successful extensions: 923
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 890
Number of HSP's gapped (non-prelim): 54
length of query: 418
length of database: 14,973,337
effective HSP length: 101
effective length of query: 317
effective length of database: 8,652,959
effective search space: 2742988003
effective search space used: 2742988003
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: 53 (25.0 bits)