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= 003639
(806 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 = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 295 AIIGKLKNLEILSFWGSGIVKLPEELGHLTKLRQLDLSNCFKLKVIAPNVISRLVRLEEL 354
A I L+NL+ L S + L + HL KL +LDL C L+ P + L+ L
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP-IFGGRAPLKRL 258
Query: 355 YMSNC 359
+ +C
Sbjct: 259 ILKDC 263
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 300 LKNLEILSFWGSGIVKLPEELGHLTKLRQLDLSNCFKLKVIAPNVISRLVRLEELYMSNC 359
L NL+ L +GI LP + +L L+ L + N L + P I L +LEEL + C
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS-PLSALGP-AIHHLPKLEELDLRGC 239
>pdb|1UNG|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNG|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNL|A Chain A, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|1UNL|B Chain B, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|3O0G|A Chain A, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
pdb|3O0G|B Chain B, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
Length = 292
Score = 32.7 bits (73), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 47/182 (25%), Positives = 72/182 (39%), Gaps = 46/182 (25%)
Query: 70 ALQELRMPSEVNFEGVPAEAYSTI----ELSFKNLK-------------------GEQLK 106
AL+ +R+ + + EGVP+ A I EL KN+ + LK
Sbjct: 31 ALKRVRL--DDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLK 88
Query: 107 KIFMLCSL-LGNSICTSYLFQCCMGLGILQKVNKLEDARNKLYALVHELRDSCLLLEGDS 165
K F C+ L I S+LFQ GLG +RN L+ +L+ LL+ +
Sbjct: 89 KYFDSCNGDLDPEIVKSFLFQLLKGLGFCH-------SRNVLH---RDLKPQNLLINRNG 138
Query: 166 NQELSMHDVIRDVAISIACREQHAVLVRNEDVWEWPDDIAL-KECYAISL----RGCSIH 220
+L+ + R I + C V +W P D+ + Y+ S+ GC
Sbjct: 139 ELKLANFGLARAFGIPVRCYSAEVVT-----LWYRPPDVLFGAKLYSTSIDMWSAGCIFA 193
Query: 221 EL 222
EL
Sbjct: 194 EL 195
>pdb|1H4L|A Chain A, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
pdb|1H4L|B Chain B, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
Length = 292
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 47/182 (25%), Positives = 72/182 (39%), Gaps = 46/182 (25%)
Query: 70 ALQELRMPSEVNFEGVPAEAYSTI----ELSFKNLK-------------------GEQLK 106
AL+ +R+ + + EGVP+ A I EL KN+ + LK
Sbjct: 31 ALKRVRL--DDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLK 88
Query: 107 KIFMLCSL-LGNSICTSYLFQCCMGLGILQKVNKLEDARNKLYALVHELRDSCLLLEGDS 165
K F C+ L I S+LFQ GLG +RN L+ +L+ LL+ +
Sbjct: 89 KYFDSCNGDLDPEIVKSFLFQLLKGLGFCH-------SRNVLH---RDLKPQNLLINRNG 138
Query: 166 NQELSMHDVIRDVAISIACREQHAVLVRNEDVWEWPDDIAL-KECYAISL----RGCSIH 220
+L+ + R I + C V +W P D+ + Y+ S+ GC
Sbjct: 139 ELKLADFGLARAFGIPVRCYSAEVVT-----LWYRPPDVLFGAKLYSTSIDMWSAGCIFA 193
Query: 221 EL 222
EL
Sbjct: 194 EL 195
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 63/137 (45%), Gaps = 15/137 (10%)
Query: 284 LCLVECMLDDIAIIGKLKNLEILSFWGSGIVKLPEEL-GHLTKLRQLDLSNCFKLKVIAP 342
L L L DI+ + +L NL L G+ + LP + LT L++L L +L+ +
Sbjct: 68 LALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN-QLQSLPD 126
Query: 343 NVISRLVRLEELYMSNCFVEWDDEG-----PNSERINARLDELMHLP-----RLATLEVH 392
V +L L LY+ + ++ +G N R++ ++L LP +L L+
Sbjct: 127 GVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQL 186
Query: 393 VKNDNVL---PEGFFAR 406
NDN L P+G F R
Sbjct: 187 SLNDNQLKSVPDGVFDR 203
>pdb|3A8P|A Chain A, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|B Chain B, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|C Chain C, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|D Chain D, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8Q|A Chain A, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|B Chain B, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|C Chain C, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|D Chain D, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
Length = 263
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 63/165 (38%), Gaps = 32/165 (19%)
Query: 103 EQLKKIFMLCSLLGNSICTSYLFQCCMGLGILQKVNKLEDARNKLYALVHELRDSCLLLE 162
E KK + C L NS YLFQ + V + A L+A H D+ LL+
Sbjct: 84 EHPKKEHVFC--LSNSCGDVYLFQATSQTDLENWVTAIHSACASLFAKKHGKEDTVRLLK 141
Query: 163 GDSN---QELSMHDVIRDVA---ISIACREQHAVLVRNEDVWEWPD-------DIALKEC 209
+ Q++ M ++ +A +S+ ++ + N+ + +W D+ C
Sbjct: 142 SQTRSLLQKIDMDSKMKKMAELQLSVVSDPKNRKAIENQ-IRQWEQNLEKFHMDLFRMRC 200
Query: 210 YAISLRGCSIHELPEGLECPRLEFLHINPKDSLFDINNPCNFFTG 254
Y SL+G ELP NPK L + P G
Sbjct: 201 YLASLQG---GELP-------------NPKSLLAATSRPSKLALG 229
>pdb|3R8F|A Chain A, Protein-Dna Complex
pdb|3R8F|B Chain B, Protein-Dna Complex
pdb|3R8F|C Chain C, Protein-Dna Complex
pdb|3R8F|D Chain D, Protein-Dna Complex
Length = 324
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 488 VDSKERVPLDDAFPILESLNLYNLIKLERICQDRLSVQSFNELKTIRVEHCDQLSNIFLL 547
++ KER D I+E + Y +K+E I D+ + ++ +E + I + C ++ + L+
Sbjct: 219 LERKERKERDKLMQIVEFVANYYAVKVEDILSDKRNKRT-SEARKIAMYLCRKVCSASLI 277
Query: 548 SAAKCLPRLERIAVINC-RNIQE 569
A+ R + VI+ R+++E
Sbjct: 278 EIARAFKRKDHTTVIHAIRSVEE 300
>pdb|2HCB|A Chain A, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|B Chain B, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|C Chain C, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|D Chain D, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
Length = 323
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 488 VDSKERVPLDDAFPILESLNLYNLIKLERICQDRLSVQSFNELKTIRVEHCDQLSNIFLL 547
++ KER D I+E + Y +K+E I D+ + ++ +E + I + C ++ + L+
Sbjct: 218 LERKERKERDKLMQIVEFVANYYAVKVEDILSDKRNKRT-SEARKIAMYLCRKVCSASLI 276
Query: 548 SAAKCLPRLERIAVINC-RNIQE 569
A+ R + VI+ R+++E
Sbjct: 277 EIARAFKRKDHTTVIHAIRSVEE 299
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 297 IGKLKNLEILSFWGSGIV-KLPEELGHLTKLRQLDLSNCFKLKVIAPNVISRLVRLEELY 355
IG + L IL+ + I +P+E+G L L LDLS+ KL P +S L L E+
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 710
Query: 356 MSN 358
+SN
Sbjct: 711 LSN 713
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 297 IGKLKNLEILSFWGSGIV-KLPEELGHLTKLRQLDLSNCFKLKVIAPNVISRLVRLEELY 355
IG + L IL+ + I +P+E+G L L LDLS+ KL P +S L L E+
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 707
Query: 356 MSN 358
+SN
Sbjct: 708 LSN 710
>pdb|2ZBM|A Chain A, Crystal Structure Of I115m Mutant Cold-Active Protein
Tyrosine Phosphatase
Length = 336
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 517 ICQDRLSVQSFNELKTIRVEHCDQLSNIFLLSAAK-CLPRLERIAVINCRNIQEIFAVDG 575
IC +RL S +L+ R EHC L L S K +P + + + + V G
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQIMPD----TYLGIKKVVALSDVHG 81
Query: 576 EYDAI 580
+YD +
Sbjct: 82 QYDVL 86
>pdb|2Z72|A Chain A, New Structure Of Cold-Active Protein Tyrosine Phosphatase
At 1.1 Angstrom
Length = 342
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 517 ICQDRLSVQSFNELKTIRVEHCDQLSNIFLLSAAK-CLPRLERIAVINCRNIQEIFAVDG 575
IC +RL S +L+ R EHC L L S K +P + + + + V G
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQIMPD----TYLGIKKVVALSDVHG 81
Query: 576 EYDAI 580
+YD +
Sbjct: 82 QYDVL 86
>pdb|1V73|A Chain A, Crystal Structure Of Cold-Active Protein-Tyrosine
Phosphatase Of A Psychrophile Shewanella Sp
Length = 342
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 517 ICQDRLSVQSFNELKTIRVEHCDQLSNIFLLSAAK-CLPRLERIAVINCRNIQEIFAVDG 575
IC +RL S +L+ R EHC L L S K +P + + + + V G
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQIMPD----TYLGIKKVVALSDVHG 81
Query: 576 EYDAI 580
+YD +
Sbjct: 82 QYDVL 86
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,984,534
Number of Sequences: 62578
Number of extensions: 880251
Number of successful extensions: 1717
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1713
Number of HSP's gapped (non-prelim): 23
length of query: 806
length of database: 14,973,337
effective HSP length: 107
effective length of query: 699
effective length of database: 8,277,491
effective search space: 5785966209
effective search space used: 5785966209
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)