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= 036287
(488 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 41/200 (20%), Positives = 89/200 (44%), Gaps = 18/200 (9%)
Query: 158 INMYSRCGDIDKALQVFEEMKERDVTT----YNSLIAGLAMHGRSIEA---------VEM 204
++M S+ GD+ +AL++++E + V YN L+ ++ + E+ ++
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 205 FREMINQGIRPTKVTFVGVLNACSHGGLVDLGFEIFQSMTRDYGIEPQIEHYGCIVDLLS 264
F++MI + P + TF ++ F++ + M + +GI+P++ YG +
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM-KAFGIQPRLRSYGPALFGFC 151
Query: 265 RVGRPEEAYDFITNMKIAPDHIMLGSLLSACKIHGKLQLGEQIAK---RLLD-CRSADSG 320
R G ++AY+ +M + L + K+ + +++ K RL D R
Sbjct: 152 RKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKS 211
Query: 321 TYVLLSNAYASSGKWKEAVQ 340
T+ ++ + S K V+
Sbjct: 212 TFDMIEEWFKSEVATKTGVK 231
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 33/134 (24%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 94 NGEMARALDLFREMQRDNVRPNEVTIV----CVLSACSQLGALELGRWIHSYMGKHRIDL 149
N ++R D+F++M D V PNE T ++ A ++ + + ++ + R+
Sbjct: 83 NPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRL-- 140
Query: 150 NHIVGGALINMYSRCGDIDKALQVFEEMKERDVTTYNSLIAGL---AMHGRSIEAV---- 202
G AL + R GD DKA +V M E +V +A L +M ++ + V
Sbjct: 141 -RSYGPALFG-FCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTL 198
Query: 203 EMFREMINQGIRPT 216
+ R+++ Q + T
Sbjct: 199 QRLRDLVRQVSKST 212
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 35.0 bits (79), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 26/126 (20%), Positives = 57/126 (45%), Gaps = 14/126 (11%)
Query: 162 SRCGDIDKALQVFEEMKERDVTT----YNSLIAGLAMHGRSIEA---------VEMFREM 208
S+ GD+ +AL++++E + V YN L+ ++ + E+ ++F++
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQX 96
Query: 209 INQGIRPTKVTFVGVLNACSHGGLVDLGFEIFQSMTRDYGIEPQIEHYGCIVDLLSRVGR 268
I + P + TF + F+ + + +GI+P++ YG + R G
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEXAFDXVK-QXKAFGIQPRLRSYGPALFGFCRKGD 155
Query: 269 PEEAYD 274
++AY+
Sbjct: 156 ADKAYE 161
>pdb|1XI4|A Chain A, Clathrin D6 Coat
pdb|1XI4|B Chain B, Clathrin D6 Coat
pdb|1XI4|C Chain C, Clathrin D6 Coat
pdb|1XI4|D Chain D, Clathrin D6 Coat
pdb|1XI4|E Chain E, Clathrin D6 Coat
pdb|1XI4|F Chain F, Clathrin D6 Coat
pdb|1XI4|G Chain G, Clathrin D6 Coat
pdb|1XI4|H Chain H, Clathrin D6 Coat
pdb|1XI4|I Chain I, Clathrin D6 Coat
pdb|1XI5|A Chain A, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|B Chain B, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|C Chain C, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|D Chain D, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|E Chain E, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|F Chain F, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|G Chain G, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|H Chain H, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|I Chain I, Clathrin D6 Coat With Auxilin J-Domain
pdb|3IYV|A Chain A, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|B Chain B, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|C Chain C, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|D Chain D, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|E Chain E, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|F Chain F, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|G Chain G, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|H Chain H, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|I Chain I, Clathrin D6 Coat As Full-Length Triskelions
Length = 1630
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 299 GKLQLGEQIAKRLLDC--RSADSGTYVLLSNAYASSGKWKEAVQI----RAKMKEAGVQK 352
K QL + + K +D ++ D +Y+ + A +SG W+E V+ R K +E+ V+
Sbjct: 1112 AKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVET 1171
Query: 353 EPGCSSIEVNN--EIHEFILG 371
E + + N E+ EFI G
Sbjct: 1172 ELIFALAKTNRLAELEEFING 1192
>pdb|1B89|A Chain A, Clathrin Heavy Chain Proximal Leg Segment (Bovine)
Length = 449
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 299 GKLQLGEQIAKRLLDC--RSADSGTYVLLSNAYASSGKWKEAVQI----RAKMKEAGVQK 352
K QL + + K +D ++ D +Y+ + A +SG W+E V+ R K +E+ V+
Sbjct: 39 AKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVET 98
Query: 353 EPGCSSIEVNN--EIHEFILG 371
E + + N E+ EFI G
Sbjct: 99 ELIFALAKTNRLAELEEFING 119
>pdb|3LVG|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVG|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVG|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVH|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
pdb|3LVH|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
pdb|3LVH|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
Length = 624
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 299 GKLQLGEQIAKRLLDC--RSADSGTYVLLSNAYASSGKWKEAVQI----RAKMKEAGVQK 352
K QL + + K +D ++ D +Y+ + A +SG W+E V+ R K +E+ V+
Sbjct: 61 AKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVET 120
Query: 353 EPGCSSIEVNN--EIHEFILG 371
E + + N E+ EFI G
Sbjct: 121 ELIFALAKTNRLAELEEFING 141
>pdb|3S6B|A Chain A, Crystal Structure Of Methionine Aminopeptidase 1b From
Plasmodium Falciparum, Pf10_0150
Length = 368
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 342 RAKMKEAGVQKEPGCSSIEVNNEIHEFILGDIRHPQREQIYKKMQELKQIVKLEGYSPST 401
R + A PG ++ E++ ++HEFI+ + +P YK + V
Sbjct: 120 RKTLDYAHTLVSPGVTTDEIDRKVHEFIIKNNAYPSTLNYYKFPKSCCTSV--------N 171
Query: 402 EVVLHDIEDW 411
E+V H I D+
Sbjct: 172 EIVCHGIPDY 181
>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 = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 157 LINMYSRCGDIDKALQVFEEMKERDVTTY 185
++ Y CGD D + VFE MK D+ +
Sbjct: 79 IVKFYGVCGDGDPLIMVFEYMKHGDLNKF 107
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 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,240,644
Number of Sequences: 62578
Number of extensions: 571538
Number of successful extensions: 1579
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1574
Number of HSP's gapped (non-prelim): 11
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
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: 53 (25.0 bits)