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= psy682
(330 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MI1|A Chain A, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
pdb|1MI1|B Chain B, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
Length = 414
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/53 (64%), Positives = 42/53 (79%)
Query: 277 NLQELIPELFFLPEMLVNSNGYCLGKTEDNVNINNVELPPWASSPEQFVRINR 329
+++ELIPE ++LPE VNSNGY LG ED V +N+V+LPPWA PE FVRINR
Sbjct: 281 DVKELIPEFYYLPEXFVNSNGYNLGVREDEVVVNDVDLPPWAKKPEDFVRINR 333
>pdb|1T77|A Chain A, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|B Chain B, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|C Chain C, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|D Chain D, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
Length = 414
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 29/54 (53%), Positives = 41/54 (75%)
Query: 277 NLQELIPELFFLPEMLVNSNGYCLGKTEDNVNINNVELPPWASSPEQFVRINRM 330
+++ELIPE ++LPEM VN N Y LG +D +++VELPPWA + E+FV INR+
Sbjct: 281 DIKELIPEFYYLPEMFVNFNNYNLGVMDDGTVVSDVELPPWAKTSEEFVHINRL 334
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/40 (72%), Positives = 33/40 (82%)
Query: 179 EPFTTMYLALQEGKFDHPNRLFSSISLAWKNCQRDTSDVK 218
EPFTT +L LQ GKFDH +R FSSIS AW+N QRDTSD+K
Sbjct: 244 EPFTTYFLNLQGGKFDHADRTFSSISRAWRNSQRDTSDIK 283
>pdb|3L07|A Chain A, Methylenetetrahydrofolate
DehydrogenaseMETHENYLTETRAHYDROFOLATE Cyclohydrolase,
Putative Bifunctional Protein Fold From Francisella
Tularensis.
pdb|3L07|B Chain B, Methylenetetrahydrofolate
DehydrogenaseMETHENYLTETRAHYDROFOLATE Cyclohydrolase,
Putative Bifunctional Protein Fold From Francisella
Tularensis
Length = 285
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 210 CQRDTSDVKVHTTFGDLLRSLDPPSGFASPESVVMSREGVIVVNYERGHI 259
C R T+D+K HTT D+L F + + M +EG +V++ H+
Sbjct: 191 CHRFTTDLKSHTTKADILIVAVGKPNFITAD---MVKEGAVVIDVGINHV 237
>pdb|2VUW|A Chain A, Structure Of Human Haspin Kinase Domain
Length = 336
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 259 IAAFTMNGNRLRHESHNDNLQELIPELFFLPEMLVNSNGYCLGKTEDNVNINNV 312
I + G L + SH +E++PE+ E+ + S C +TE + +N+V
Sbjct: 48 IKIIAIEGPDLVNGSHQKTFEEILPEIIISKELSLLSGEVC-NRTEGFIGLNSV 100
>pdb|2WB8|A Chain A, Crystal Structure Of Haspin Kinase
Length = 352
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 259 IAAFTMNGNRLRHESHNDNLQELIPELFFLPEMLVNSNGYCLGKTEDNVNINNV 312
I + G L + SH +E++PE+ E+ + S C +TE + +N+V
Sbjct: 64 IKIIAIEGPDLVNGSHQKTFEEILPEIIISKELSLLSGEVC-NRTEGFIGLNSV 116
>pdb|3DLZ|A Chain A, Crystal Structure Of Human Haspin In Complex With Amp
pdb|3E7V|A Chain A, Crystal Structure Of Human Haspin With A
Pyrazolo-Pyrimidine Ligand
pdb|3F2N|A Chain A, Crystal Structure Of Human Haspin With An
Imidazo-Pyridazine Ligand
pdb|3FMD|A Chain A, Crystal Structure Of Human Haspin With An Isoquinoline
Ligand
pdb|3IQ7|A Chain A, Crystal Structure Of Human Haspin In Complex With
5-Iodotubercidin
Length = 357
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 259 IAAFTMNGNRLRHESHNDNLQELIPELFFLPEMLVNSNGYCLGKTEDNVNINNV 312
I + G L + SH +E++PE+ E+ + S C +TE + +N+V
Sbjct: 69 IKIIAIEGPDLVNGSHQKTFEEILPEIIISKELSLLSGEVC-NRTEGFIGLNSV 121
>pdb|2O61|A Chain A, Crystal Structure Of Nfkb, Irf7, Irf3 Bound To The
Interferon-B Enhancer
Length = 540
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 151 PSGRPLRLPPVLSHPIFDNRAP 172
>pdb|1LE5|A Chain A, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE5|E Chain E, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE9|A Chain A, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LE9|E Chain E, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LEI|A Chain A, The Kb Dna Sequence From The Hlv-Ltr Functions As An
Allosteric Regulator Of Hiv Transcription
Length = 274
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 151 PAGRPLLLTPVLSHPIFDNRAP 172
>pdb|1VKX|A Chain A, Crystal Structure Of The Nfkb P50P65 HETERODIMER COMPLEXED
To The Immunoglobulin Kb Dna
pdb|3GUT|A Chain A, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|C Chain C, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|E Chain E, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|G Chain G, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
Length = 273
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 150 PAGRPLLLTPVLSHPIFDNRAP 171
>pdb|1IKN|A Chain A, IkappabalphaNF-Kappab Complex
Length = 286
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 150 PAGRPLLLTPVLSHPIFDNRAP 171
>pdb|2I9T|A Chain A, Structure Of Nf-Kb P65-P50 Heterodimer Bound To Prdii
Element Of B-Interferon Promoter
Length = 279
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 156 PAGRPLLLTPVLSHPIFDNRAP 177
>pdb|1RAM|A Chain A, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|1RAM|B Chain B, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|2RAM|A Chain A, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|2RAM|B Chain B, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
Length = 273
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 116 PGNLPLTLDPILTHPTSNNNAP 137
P PL L P+L+HP +N AP
Sbjct: 150 PAGRPLLLTPVLSHPIFDNRAP 171
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
0.319 0.134 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,328,331
Number of Sequences: 62578
Number of extensions: 421671
Number of successful extensions: 725
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 714
Number of HSP's gapped (non-prelim): 15
length of query: 330
length of database: 14,973,337
effective HSP length: 99
effective length of query: 231
effective length of database: 8,778,115
effective search space: 2027744565
effective search space used: 2027744565
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)