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= 009004
(547 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 = 0.15, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 10/92 (10%)
Query: 368 LFDGTSKLQLQELDLSNLPHLSD---NGILTLATCRVPISELRVRQCPLIGDTSVIALAS 424
L DG + EL LS + H++ +G++ LA+ +L R C L+G ++ +
Sbjct: 118 LVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLATRNC-LVGANLLVKIGD 176
Query: 425 MLVDDDRWYGSSIRLLDLYNCGGITQLAFRWL 456
+ 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 = 0.68, Method: Compositional matrix adjust.
Identities = 56/242 (23%), Positives = 103/242 (42%), Gaps = 27/242 (11%)
Query: 271 LSLTHVCLRWCNLLTNHAIKSLASNTGIKVLDLRDCKNLGDEALRAISSLPQLKILLLDG 330
L ++ VC RW L ++ ++ ++ +DL + +S +L+ L L+G
Sbjct: 30 LKVSGVCKRWYRLASDESLWQTLDEFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEG 89
Query: 331 SDISDVGVSYLRLTVITSLVKLSLRGCKRLTDKCISALFDGTSKLQLQELDLSNLPHLSD 390
+SD V+ L ++LV+L+L GC ++ + L S+ L EL+LS ++
Sbjct: 90 LRLSDPIVNTLAKN--SNLVRLNLSGCSGFSEFALQTLLSSCSR--LDELNLSWCFDFTE 145
Query: 391 NGI-LTLATCRVPISELR----------------VRQCPLIGDTSVIALASMLVDD---D 430
+ + +A I++L VR+CP + ++ + ML +D +
Sbjct: 146 KHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD-LSDSVMLKNDCFQE 204
Query: 431 RWYGSSIRLLDLYNCGGITQLAFRWLKKPYFPRLRWLGVTGSVNRDILDALARSRPFLNV 490
+ + ++ L L C I L+ P L+ L V G V L L + P L +
Sbjct: 205 FFQLNYLQHLSLSRCYDIIPETL--LELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQI 262
Query: 491 AC 492
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 = 1.9, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 241 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 300
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLNFGNQVTD--LKPLANLTTLER 176
Query: 301 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 360
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 177 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 228
Query: 361 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 420
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 229 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 285
Query: 421 AL 422
L
Sbjct: 286 NL 287
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 241 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 300
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLNFGNQVTD--LKPLANLTTLER 176
Query: 301 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 360
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 177 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 228
Query: 361 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 420
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 229 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 285
Query: 421 AL 422
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 = 2.2, Method: Compositional matrix adjust.
Identities = 54/184 (29%), Positives = 88/184 (47%), Gaps = 22/184 (11%)
Query: 241 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHA--IKSLASNTGI 298
L + +NL +L +S T DISA S LT L+ N +N +K LA+ T +
Sbjct: 125 LKNLTNLNRLELSSNT------ISDISALS-GLT--SLQQLNFSSNQVTDLKPLANLTTL 175
Query: 299 KVLDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCK 358
+ LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G
Sbjct: 176 ERLDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-N 227
Query: 359 RLTDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTS 418
+L D A + L L +SNL LS G+ L ++ +++ PL G T+
Sbjct: 228 QLKDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTA 284
Query: 419 VIAL 422
+ L
Sbjct: 285 LTNL 288
>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 = 2.5, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 241 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 300
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 130 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLSFGNQVTD--LKPLANLTTLER 181
Query: 301 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 360
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 182 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 233
Query: 361 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 420
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 234 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 290
Query: 421 AL 422
L
Sbjct: 291 NL 292
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 19/182 (10%)
Query: 241 LHSCSNLYKLRVSHGTQLTDLVFHDISATSLSLTHVCLRWCNLLTNHAIKSLASNTGIKV 300
L + +NL +L +S T DISA S + L + N +T+ +K LA+ T ++
Sbjct: 129 LKNLTNLNRLELSSNT------ISDISALSGLTSLQQLSFGNQVTD--LKPLANLTTLER 180
Query: 301 LDLRDCKNLGDEALRAISSLPQLKILLLDGSDISDVGVSYLRLTVITSLVKLSLRGCKRL 360
LD+ K + D + ++ L L+ L+ + ISD+ L ++T+L +LSL G +L
Sbjct: 181 LDISSNK-VSD--ISVLAKLTNLESLIATNNQISDIT----PLGILTNLDELSLNG-NQL 232
Query: 361 TDKCISALFDGTSKLQLQELDLSNLPHLSDNGILTLATCRVPISELRVRQCPLIGDTSVI 420
D A + L L +SNL LS G+ L ++ +++ PL G T++
Sbjct: 233 KDIGTLASLTNLTDLDLANNQISNLAPLS--GLTKLTELKLGANQIS-NISPLAGLTALT 289
Query: 421 AL 422
L
Sbjct: 290 NL 291
>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 = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 10/81 (12%)
Query: 379 ELDLSNLPHLSDN---GILTLATCRVPISELRVRQCPLIGDTSVIALASMLVDDDRWYGS 435
EL S + H++ G++ LA+ +L R C L+G+ ++ + + D
Sbjct: 124 ELTQSQMLHIAQQIAAGMVYLASQHFVHRDLATRNC-LVGENLLVKIGDFGMSRD----- 177
Query: 436 SIRLLDLYNCGGITQLAFRWL 456
+ 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 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,661,825
Number of Sequences: 62578
Number of extensions: 630138
Number of successful extensions: 1399
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1382
Number of HSP's gapped (non-prelim): 45
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
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: 54 (25.4 bits)