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= psy15249
(235 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F3U|A Chain A, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
Human Tfiif
pdb|1F3U|C Chain C, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
Human Tfiif
pdb|1F3U|E Chain E, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
Human Tfiif
pdb|1F3U|G Chain G, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
Human Tfiif
Length = 118
Score = 80.9 bits (198), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 50/124 (40%), Positives = 67/124 (54%), Gaps = 19/124 (15%)
Query: 28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
LDLT A + GVWLVKVPKY++ +W K G E GKL+I + G+ VS +L+E +
Sbjct: 6 LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQGRTE-VSFTLNEDLANI 64
Query: 86 -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
P P++H +Q V QTL VF+ S+KL LEG +VQ+
Sbjct: 65 HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 113
Query: 141 ECRP 144
ECRP
Sbjct: 114 ECRP 117
>pdb|1BBY|A Chain A, Dna-Binding Domain From Human Rap30, Nmr, Minimized
Average
pdb|2BBY|A Chain A, Dna-Binding Domain From Human Rap30, Nmr, 30 Structures
Length = 69
Score = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 31/54 (57%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVP 54
MLF+AFEKHQYYN+KDLV ITKQP+V L GV VK N WE P
Sbjct: 12 MLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGIH--KNTWELKP 63
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/33 (66%), Positives = 25/33 (75%)
Query: 187 LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCY 219
+ YLKEILKE+ N+K HKN WELKPEYR Y
Sbjct: 36 VVYLKEILKEIGVQNVKGIHKNTWELKPEYRHY 68
>pdb|3O8O|B Chain B, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|D Chain D, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|F Chain F, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|H Chain H, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
Length = 766
Score = 29.6 bits (65), Expect = 1.4, Method: Composition-based stats.
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 86 DPNEEKIPKDHRLDVQIVN 104
D NE K+PKD RL + IVN
Sbjct: 382 DHNEPKLPKDKRLKIAIVN 400
>pdb|2HWK|A Chain A, Crystal Structure Of Venezuelan Equine Encephalitis
Alphavirus Nsp2 Protease Domain
Length = 320
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 6/82 (7%)
Query: 86 DPNEEKIPKDHRLDVQIV---NRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLEC 142
DP +P + RL +V N FS ++ + ++ EKL + GK+V L
Sbjct: 127 DPRINLVPVNRRLPHALVLHHNEHPQSDFSSFVSKLKGRTVLVVGEKLSVPGKMVDWLSD 186
Query: 143 RPYADSCYMKLKLDSIIKASQP 164
RP A + +LD I P
Sbjct: 187 RPEAT---FRARLDLGIPGDVP 205
>pdb|4DJD|D Chain D, Crystal Structure Of Folate-Free Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr)
pdb|4DJD|F Chain F, Crystal Structure Of Folate-Free Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr)
pdb|4DJE|D Chain D, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate
pdb|4DJE|F Chain F, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate
pdb|4DJF|D Chain D, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate And Ti(Iii) Citrate
Reductant
pdb|4DJF|F Chain F, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate And Ti(Iii) Citrate
Reductant
Length = 323
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 96 HRLDVQIVNRQTLGVFSHYIPPVNPDAI-VPESEKLMLEGKIVQKLECRPYADSCYMKL 153
H + +IVNR +G+ I P PD + P ++ + G+ QK AD Y+KL
Sbjct: 44 HHFEGEIVNRPVIGMEVQDIVPDWPDVLKDPFTDVINEPGRWAQKCVAEYGADLIYLKL 102
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
0.318 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,903,956
Number of Sequences: 62578
Number of extensions: 272487
Number of successful extensions: 684
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 677
Number of HSP's gapped (non-prelim): 10
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)