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= 012324
(466 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 = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 40/133 (30%), Positives = 56/133 (42%), Gaps = 28/133 (21%)
Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCW-- 314
P + L NL L +R+ L +L I +L L +LDL GC+ L+ P I G
Sbjct: 199 PASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKR 257
Query: 315 LFLRGTA-IEELPSSIDRLRRLGYLNLSDCKRXXXXXXXXXXXXXXXXXXXCGCSNLQRL 373
L L+ + + LP I RL +L L+L GC NL RL
Sbjct: 258 LILKDCSNLLTLPLDIHRLTQLEKLDLR------------------------GCVNLSRL 293
Query: 374 PECLGQLSSPIIL 386
P + QL + I+
Sbjct: 294 PSLIAQLPANCII 306
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 11/77 (14%)
Query: 277 LKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI-----SSG------NVCWLFLRGTAIEEL 325
L++LP+ I +L L +L + C +L LPE +SG N+ L L T I L
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198
Query: 326 PSSIDRLRRLGYLNLSD 342
P+SI L+ L L + +
Sbjct: 199 PASIANLQNLKSLKIRN 215
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 26/58 (44%)
Query: 367 CSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
+ L LP+ Q + L LA+ + +P SI L LR L + LP+PL
Sbjct: 113 AAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPL 170
>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 = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 67/168 (39%), Gaps = 49/168 (29%)
Query: 260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRG 319
+ L NL L L +G L+SLP+G+F+ KL L E L L
Sbjct: 81 LKELTNLTYLIL-TGNQLQSLPNGVFD-------------KLTNLKE--------LVLVE 118
Query: 320 TAIEELPSSI-DRLRRLGYLNLSDCKRXXXXXXXXXXXXXXXXXXXCGCSNLQRLPE-CL 377
++ LP + D+L L YLNL+ + LQ LP+
Sbjct: 119 NQLQSLPDGVFDKLTNLTYLNLAH-------------------------NQLQSLPKGVF 153
Query: 378 GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
+L++ L+L+ ++ +PE + L Y + +S+P +F
Sbjct: 154 DKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVF 201
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 33/88 (37%), Positives = 45/88 (51%), Gaps = 6/88 (6%)
Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPEISSGNVCWL 315
P + L NL L L S + L +LP G+F+ L LT LDL G ++L LP + L
Sbjct: 57 PGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDL-GTNQLTVLPSAVFDRLVHL 114
Query: 316 ---FLRGTAIEELPSSIDRLRRLGYLNL 340
F+ + ELP I+RL L +L L
Sbjct: 115 KELFMCCNKLTELPRGIERLTHLTHLAL 142
>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 = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 46/73 (63%), Gaps = 10/73 (13%)
Query: 276 SLKSLPSGIFN-LEFLTKLDLSGCSKLKRLP-----EISSGNVCWLFLRGTAIEELPSSI 329
SLKSLP+G+F+ L LT+L L G +KL+ LP +++S + +L L ++ LP+ +
Sbjct: 39 SLKSLPNGVFDELTSLTQLYLGG-NKLQSLPNGVFNKLTS--LTYLNLSTNQLQSLPNGV 95
Query: 330 -DRLRRLGYLNLS 341
D+L +L L L+
Sbjct: 96 FDKLTQLKELALN 108
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 9/64 (14%)
Query: 273 SGKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDR 331
G L+SLP+G+FN L LT L+LS ++L+ LP +F + T ++EL + ++
Sbjct: 60 GGNKLQSLPNGVFNKLTSLTYLNLS-TNQLQSLPN-------GVFDKLTQLKELALNTNQ 111
Query: 332 LRRL 335
L+ L
Sbjct: 112 LQSL 115
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGN---VCWLFLRGTAIEELPSSI 329
+ LK LPSG+ L L KL LS + +L +IS+ N + L++RG +++L +
Sbjct: 283 TATHLKGLPSGMKGLNLLKKLVLS-VNHFDQLCQISAANFPSLTHLYIRGN-VKKLHLGV 340
Query: 330 DRLRRLGYLNLSD 342
L +LG L D
Sbjct: 341 GCLEKLGNLQTLD 353
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 7/88 (7%)
Query: 260 MPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPE---ISSGNVCWL 315
+ L NL L L +G L+SLP+G+F+ L L +L L ++L+ LP+ N+ +L
Sbjct: 81 LKELTNLTYLIL-TGNQLQSLPNGVFDKLTNLKELVLVE-NQLQSLPDGVFDKLTNLTYL 138
Query: 316 FLRGTAIEELPSSI-DRLRRLGYLNLSD 342
+L ++ LP + D+L L L+L +
Sbjct: 139 YLYHNQLQSLPKGVFDKLTNLTRLDLDN 166
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%)
Query: 98 KVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGED 157
K++ FL V E INK++ + PS + V + + DSL + + V + + +D
Sbjct: 226 KIVVEFLQNNPDAVYEDLINKIETTVPPSTINVNRFTEDSLLRHAQFVVSQVESYDEAKD 285
Query: 158 VNLVMKFLN 166
+ FL+
Sbjct: 286 DDETPIFLS 294
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
0.323 0.140 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,570,243
Number of Sequences: 62578
Number of extensions: 477866
Number of successful extensions: 1116
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1105
Number of HSP's gapped (non-prelim): 33
length of query: 466
length of database: 14,973,337
effective HSP length: 102
effective length of query: 364
effective length of database: 8,590,381
effective search space: 3126898684
effective search space used: 3126898684
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)