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= psy14289
(297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NBN|A Chain A, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
pdb|3NBN|D Chain D, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
Length = 433
Score = 341 bits (874), Expect = 3e-94, Method: Compositional matrix adjust.
Identities = 165/218 (75%), Positives = 181/218 (83%), Gaps = 1/218 (0%)
Query: 77 RNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQ 136
R +RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++
Sbjct: 4 RPPPKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKK 63
Query: 137 EQLLREGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSV 196
EQ+ R+G SEQ +Q CAFIGIGNSDQ+MQQL+L GK YC AKTLYISDSDKRKHFMLSV
Sbjct: 64 EQMERDGCSEQESQPCAFIGIGNSDQEMQQLNLE-GKNYCTAKTLYISDSDKRKHFMLSV 122
Query: 197 KMFYGSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL 256
KMFYG+ DIGVF SKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL
Sbjct: 123 KMFYGNSDDIGVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL 182
Query: 257 HVENGNFHASSTQWGAFTIHLLXXXXXXXXXXXVRDWF 294
HVE GNFHASS QWGAF IHLL VRD +
Sbjct: 183 HVEGGNFHASSQQWGAFFIHLLDDDESEGEEFTVRDGY 220
>pdb|2F8X|C Chain C, Crystal Structure Of Activated Notch, Csl And Maml On
Hes-1 Promoter Dna Sequence
pdb|3V79|C Chain C, Structure Of Human Notch1 Transcription Complex Including
Csl, Ram, Ank, And Maml-1 On Hes-1 Promoter Dna Sequence
Length = 434
Score = 341 bits (874), Expect = 3e-94, Method: Compositional matrix adjust.
Identities = 165/218 (75%), Positives = 181/218 (83%), Gaps = 1/218 (0%)
Query: 77 RNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQ 136
R +RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++
Sbjct: 4 RPPPKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKK 63
Query: 137 EQLLREGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSV 196
EQ+ R+G SEQ +Q CAFIGIGNSDQ+MQQL+L GK YC AKTLYISDSDKRKHFMLSV
Sbjct: 64 EQMERDGCSEQESQPCAFIGIGNSDQEMQQLNLE-GKNYCTAKTLYISDSDKRKHFMLSV 122
Query: 197 KMFYGSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL 256
KMFYG+ DIGVF SKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL
Sbjct: 123 KMFYGNSDDIGVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYL 182
Query: 257 HVENGNFHASSTQWGAFTIHLLXXXXXXXXXXXVRDWF 294
HVE GNFHASS QWGAF IHLL VRD +
Sbjct: 183 HVEGGNFHASSQQWGAFFIHLLDDDESEGEEFTVRDGY 220
>pdb|3IAG|C Chain C, Csl (Rbp-Jk) Bound To Hes-1 Nonconsensus Site
Length = 422
Score = 340 bits (873), Expect = 4e-94, Method: Compositional matrix adjust.
Identities = 164/214 (76%), Positives = 180/214 (84%), Gaps = 1/214 (0%)
Query: 81 QRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLL 140
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 3 KRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQME 62
Query: 141 REGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFY 200
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L GK YC AKTLYISDSDKRKHFMLSVKMFY
Sbjct: 63 RDGCSEQESQPCAFIGIGNSDQEMQQLNLE-GKNYCTAKTLYISDSDKRKHFMLSVKMFY 121
Query: 201 GSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVEN 260
G+ DIGVF SKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVE
Sbjct: 122 GNSDDIGVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVEG 181
Query: 261 GNFHASSTQWGAFTIHLLXXXXXXXXXXXVRDWF 294
GNFHASS QWGAF IHLL VRD +
Sbjct: 182 GNFHASSQQWGAFYIHLLDDDESEGEEFTVRDGY 215
>pdb|3BRG|C Chain C, Csl (Rbp-Jk) Bound To Dna
Length = 427
Score = 340 bits (873), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 164/214 (76%), Positives = 180/214 (84%), Gaps = 1/214 (0%)
Query: 81 QRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLL 140
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 8 KRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQME 67
Query: 141 REGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFY 200
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L GK YC AKTLYISDSDKRKHFMLSVKMFY
Sbjct: 68 RDGCSEQESQPCAFIGIGNSDQEMQQLNLE-GKNYCTAKTLYISDSDKRKHFMLSVKMFY 126
Query: 201 GSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVEN 260
G+ DIGVF SKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVE
Sbjct: 127 GNSDDIGVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVEG 186
Query: 261 GNFHASSTQWGAFTIHLLXXXXXXXXXXXVRDWF 294
GNFHASS QWGAF IHLL VRD +
Sbjct: 187 GNFHASSQQWGAFYIHLLDDDESEGEEFTVRDGY 220
>pdb|3BRF|A Chain A, Csl (Lag-1) Bound To Dna With Lin-12 Ram Peptide, C2221
Length = 478
Score = 257 bits (656), Expect = 7e-69, Method: Compositional matrix adjust.
Identities = 136/235 (57%), Positives = 164/235 (69%), Gaps = 37/235 (15%)
Query: 81 QRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQ 138
Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+GW+L++++
Sbjct: 11 QSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQGWKLKKDR 70
Query: 139 LLR---------------EGE---SEQAAQLCAFIGIGNSDQDMQQLDLNNGK------- 173
+ + E + +QA +L A+IGIG+ + QQLD + GK
Sbjct: 71 VAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFSTGKVRHPGDQ 130
Query: 174 -------QYCAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKPSKKKQS 226
YCAAKTLYISDSDKRK+F L+ + FYG G +IG F S+RIKVISKPSKKKQS
Sbjct: 131 RQDPNIYDYCAAKTLYISDSDKRKYFDLNAQFFYGCGMEIGGFVSQRIKVISKPSKKKQS 190
Query: 227 LKNAD---LCIASGTKVALFNRLRSQTVSTRYLHVENGNFHASSTQWGAFTIHLL 278
+KN D LCIASGTKVALFNRLRSQTVSTRYLHVE FHASST+WGAFTIHL
Sbjct: 191 MKNTDCKYLCIASGTKVALFNRLRSQTVSTRYLHVEGNAFHASSTKWGAFTIHLF 245
>pdb|1TTU|A Chain A, Crystal Structure Of Csl Bound To Dna
pdb|2FO1|A Chain A, Crystal Structure Of The Csl-Notch-Mastermind Ternary
Complex Bound To Dna
pdb|3BRD|A Chain A, Csl (Lag-1) Bound To Dna With Lin-12 Ram Peptide, P212121
Length = 477
Score = 256 bits (655), Expect = 7e-69, Method: Compositional matrix adjust.
Identities = 136/235 (57%), Positives = 164/235 (69%), Gaps = 37/235 (15%)
Query: 81 QRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQ 138
Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+GW+L++++
Sbjct: 10 QSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQGWKLKKDR 69
Query: 139 LLR---------------EGE---SEQAAQLCAFIGIGNSDQDMQQLDLNNGK------- 173
+ + E + +QA +L A+IGIG+ + QQLD + GK
Sbjct: 70 VAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFSTGKVRHPGDQ 129
Query: 174 -------QYCAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKPSKKKQS 226
YCAAKTLYISDSDKRK+F L+ + FYG G +IG F S+RIKVISKPSKKKQS
Sbjct: 130 RQDPNIYDYCAAKTLYISDSDKRKYFDLNAQFFYGCGMEIGGFVSQRIKVISKPSKKKQS 189
Query: 227 LKNAD---LCIASGTKVALFNRLRSQTVSTRYLHVENGNFHASSTQWGAFTIHLL 278
+KN D LCIASGTKVALFNRLRSQTVSTRYLHVE FHASST+WGAFTIHL
Sbjct: 190 MKNTDCKYLCIASGTKVALFNRLRSQTVSTRYLHVEGNAFHASSTKWGAFTIHLF 244
>pdb|3HDI|A Chain A, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
pdb|3HDI|B Chain B, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
Length = 421
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 5/130 (3%)
Query: 86 EAMERYLRDR---SDMVIVILHAKVAQKSYGNEKRFFCP-PPCIYLY-GEGWRLRQEQLL 140
E M R+ DR D V++ + V + K F P Y Y GE +++
Sbjct: 168 EGMLRHYMDRFYTGDYVVISVAGNVHDELIDKIKETFSQVKPTTYNYQGEKPMFLPNRIV 227
Query: 141 REGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFY 200
R+ E+EQA + G+ D+D+ L L N + + D +++ SV ++
Sbjct: 228 RKKETEQAHLCLGYPGLPIGDKDVYALVLLNNVLGGSMSSRLFQDIREKRGLCYSVFSYH 287
Query: 201 GSGHDIGVFT 210
S D G+ T
Sbjct: 288 SSFRDSGMLT 297
>pdb|1DI1|A Chain A, Crystal Structure Of Aristolochene Synthase From
Penicillium Roqueforti
pdb|1DI1|B Chain B, Crystal Structure Of Aristolochene Synthase From
Penicillium Roqueforti
pdb|1DGP|A Chain A, Aristolochene Synthase Farnesol Complex
pdb|1DGP|B Chain B, Aristolochene Synthase Farnesol Complex
Length = 300
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 9/61 (14%)
Query: 162 QDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKPS 221
QDM+ L+ N KQ +Y D ++ +GH G F +KV+++ S
Sbjct: 188 QDMKALEANCAKQLSVVNDIYSYDKEEEAS---------RTGHKEGAFLCSAVKVLAEES 238
Query: 222 K 222
K
Sbjct: 239 K 239
>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|C Chain C, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|E Chain E, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|G Chain G, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|B Chain B, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
Length = 440
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%)
Query: 75 HYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPC 124
H ++ +L E E Y + D VI+++ A + QK+Y RF P
Sbjct: 198 HGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPI 247
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition
Particle
Length = 433
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%)
Query: 75 HYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPC 124
H ++ +L E E Y + D VI+++ A + QK+Y RF P
Sbjct: 191 HGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPI 240
>pdb|3SS6|A Chain A, Crystal Structure Of The Bacillus Anthracis Acetyl-Coa
Acetyltransferase
pdb|3SS6|B Chain B, Crystal Structure Of The Bacillus Anthracis Acetyl-Coa
Acetyltransferase
Length = 394
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 161 DQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKP 220
D D+ +++ QY A + D +K V G GH IG T RI V
Sbjct: 311 DADLLEINEAFAAQYLAVEKELDLDREKVNVNGSGV----GLGHPIGC-TGARITVSLIH 365
Query: 221 SKKKQSLKN--ADLCIASGTKVALF 243
K++ L+ A LC+ G VALF
Sbjct: 366 ELKRRGLEKGIASLCVGGGIGVALF 390
>pdb|2V5P|A Chain A, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
pdb|2V5P|B Chain B, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
Length = 492
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 223 KKQSLKNADLCIASGTKVALFNRLRSQTVSTRY 255
++ K+ +C+ SGTK A F RL+S + R+
Sbjct: 339 EQGGCKDGGVCLLSGTKGASFGRLQSMKLDYRH 371
>pdb|2V5O|A Chain A, Structure Of Human Igf2r Domains 11-14
Length = 627
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 223 KKQSLKNADLCIASGTKVALFNRLRSQTVSTRY 255
++ K+ +C+ SGTK A F RL+S + R+
Sbjct: 339 EQGGCKDGGVCLLSGTKGASFGRLQSMKLDYRH 371
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 0.135 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,342,608
Number of Sequences: 62578
Number of extensions: 322966
Number of successful extensions: 682
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 18
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
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: 51 (24.3 bits)