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= 006538
(641 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V5Q|A Chain A, Discovery Of A Selective Trk Inhibitor With Efficacy In
Rodent Cancer Tumor Models
pdb|3V5Q|B Chain B, Discovery Of A Selective Trk Inhibitor With Efficacy In
Rodent Cancer Tumor Models
Length = 297
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 10/92 (10%)
Query: 462 LFDGTSKLQLQELDLSNLPHLSD---NGILTLATCRVPISELRVRQCPLIGDTSVIALAS 518
L DG + EL LS + H++ +G++ LA+ +L R C L+G ++ +
Sbjct: 118 LVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLATRNC-LVGANLLVKIGD 176
Query: 519 MLVDDDRWYGSSIRLLDLYNCGGITQLAFRWL 550
+ D + D Y GG T L RW+
Sbjct: 177 FGMSRD------VYSTDYYRVGGHTMLPIRWM 202
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 32.3 bits (72), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 56/242 (23%), Positives = 103/242 (42%), Gaps = 27/242 (11%)
Query: 365 LSLTHVCLRWCNLLTNHAIKSLASNTGIKVLDLRDCKNLGDEALRAISSLPQLKILLLDG 424
L ++ VC RW L ++ ++ ++ +DL + +S +L+ L L+G
Sbjct: 30 LKVSGVCKRWYRLASDESLWQTLDEFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEG 89
Query: 425 SDISDVGVSYLRLTVITSLVKLSLRGCKRLTDKCISALFDGTSKLQLQELDLSNLPHLSD 484
+SD V+ L ++LV+L+L GC ++ + L S+ L EL+LS ++
Sbjct: 90 LRLSDPIVNTLAKN--SNLVRLNLSGCSGFSEFALQTLLSSCSR--LDELNLSWCFDFTE 145
Query: 485 NGI-LTLATCRVPISELR----------------VRQCPLIGDTSVIALASMLVDD---D 524
+ + +A I++L VR+CP + ++ + ML +D +
Sbjct: 146 KHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD-LSDSVMLKNDCFQE 204
Query: 525 RWYGSSIRLLDLYNCGGITQLAFRWLKKPYFPRLRWLGVTGSVNRDILDALARSRPFLNV 584
+ + ++ L L C I L+ P L+ L V G V L L + P L +
Sbjct: 205 FFQLNYLQHLSLSRCYDIIPETL--LELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQI 262
Query: 585 AC 586
C
Sbjct: 263 NC 264
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 335 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 394
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLNFGNQVTD--LKPLANLTTLER 176
Query: 395 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 454
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 177 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 228
Query: 455 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 514
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 229 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 285
Query: 515 AL 516
L
Sbjct: 286 NL 287
>pdb|2KGR|A Chain A, Solution Structure Of Protein Itsn1 From Homo Sapiens.
Northeast Structural Genomics Consortium Target Hr5524a
Length = 111
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 51 FLTSFHLLDIALSTEIIKPLLPPN---PYLRSLKVD 83
F+ + HL+D+A+S + + P+LPP P R ++++
Sbjct: 70 FILAMHLIDVAMSGQPLPPVLPPEYIPPSFRRVRLE 105
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 335 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 394
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLNFGNQVTD--LKPLANLTTLER 176
Query: 395 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 454
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 177 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 228
Query: 455 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 514
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 229 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 285
Query: 515 AL 516
L
Sbjct: 286 NL 287
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 54/184 (29%), Positives = 88/184 (47%), Gaps = 22/184 (11%)
Query: 335 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHA--IKSLASNTGI 392
L + +NL +L +S T DISA S LT L+ N +N +K LA+ T +
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALS-GLT--SLQQLNFSSNQVTDLKPLANLTTL 175
Query: 393 KVLDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCK 452
+ LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G
Sbjct: 176 ERLDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-N 227
Query: 453 RLTDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTS 512
+L D A + L L +SNL LS G+ L ++ +++ PL G T+
Sbjct: 228 QLKDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTA 284
Query: 513 VIAL 516
+ L
Sbjct: 285 LTNL 288
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 335 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 394
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 129 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLSFGNQVTD--LKPLANLTTLER 180
Query: 395 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 454
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 181 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDI----TPLGILTNLDELSLNG-NQL 232
Query: 455 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 514
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 233 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 289
Query: 515 AL 516
L
Sbjct: 290 NL 291
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 335 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 394
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 130 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLSFGNQVTD--LKPLANLTTLER 181
Query: 395 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 454
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 182 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 233
Query: 455 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 514
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 234 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 290
Query: 515 AL 516
L
Sbjct: 291 NL 292
>pdb|4ASZ|A Chain A, Crystal Structure Of Apo Trkb Kinase Domain
pdb|4AT3|A Chain A, Crystal Structure Of Trkb Kinase Domain In Complex With
Cpd5n
pdb|4AT4|A Chain A, Crystal Structure Of Trkb Kinase Domain In Complex With
Ex429
pdb|4AT5|A Chain A, Crystal Structure Of Trkb Kinase Domain In Complex With
Gw2580
Length = 299
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 10/81 (12%)
Query: 473 ELDLSNLPHLSDN---GILTLATCRVPISELRVRQCPLIGDTSVIALASMLVDDDRWYGS 529
EL S + H++ G++ LA+ +L R C L+G+ ++ + + D
Sbjct: 124 ELTQSQMLHIAQQIAAGMVYLASQHFVHRDLATRNC-LVGENLLVKIGDFGMSRD----- 177
Query: 530 SIRLLDLYNCGGITQLAFRWL 550
+ D Y GG T L RW+
Sbjct: 178 -VYSTDYYRVGGHTMLPIRWM 197
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
0.322 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,938,745
Number of Sequences: 62578
Number of extensions: 716440
Number of successful extensions: 1536
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 1518
Number of HSP's gapped (non-prelim): 49
length of query: 641
length of database: 14,973,337
effective HSP length: 105
effective length of query: 536
effective length of database: 8,402,647
effective search space: 4503818792
effective search space used: 4503818792
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: 55 (25.8 bits)