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= psy964
(154 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QO8|A Chain A, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
pdb|1QO8|D Chain D, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
Length = 566
Score = 30.4 bits (67), Expect = 0.43, Method: Composition-based stats.
Identities = 26/109 (23%), Positives = 45/109 (41%), Gaps = 13/109 (11%)
Query: 3 RFFKYIENRDVAKQVMKERGLKKIRLGIEGYPTYKEKIYRSTSTTMYRFFKYIE---NRD 59
RF + RD A + ++ G + + ++Y+ M R + ++E D
Sbjct: 389 RFISELTTRDKASDAILKQP------GQFAWIIFDNQLYKKAK--MVRGYDHLEMLYKGD 440
Query: 60 VAKQVMKERGLKKIRLG--IEGYPTYKEKVKKRAGGRSDVIYNYVQRPF 106
+Q+ K G+K L + Y Y K A GR+D+ N Q P+
Sbjct: 441 TVEQLAKSTGMKVADLAKTVSDYNGYVASGKDTAFGRADMPLNMTQSPY 489
>pdb|1TP9|A Chain A, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|B Chain B, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|C Chain C, Prx D (Type Ii) From Populus Tremula
pdb|1TP9|D Chain D, Prx D (Type Ii) From Populus Tremula
Length = 162
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 81 PTYKEKVKK-RAGGRSDVIYNYVQRPFIHMSWEKEEAKSRHVDFQA 125
P + EK + ++ G ++++ V PF+ +W K +++HV F A
Sbjct: 57 PGFIEKAGELKSKGVTEILCISVNDPFVMKAWAKSYPENKHVKFLA 102
>pdb|2X2U|A Chain A, First Two Cadherin-Like Domains From Human Ret
Length = 246
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 58 RDVAKQVMKERGLKKIRLGIEGYPTYKEKVKKRAGGR--SDVIYNYVQRPFIHMSWEKEE 115
RD ++V RLG Y TY+ ++ + R D Y+QR H SWEK
Sbjct: 29 RDAPEEV------PSFRLGQHLYGTYRTRLHENNWIRIQEDTGLLYLQRSLDHSSWEKLS 82
Query: 116 AKSR 119
++R
Sbjct: 83 VRNR 86
>pdb|3ITG|A Chain A, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
pdb|3ITG|B Chain B, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
Length = 602
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 GIEGYPTYKEKIYRSTS 45
G+EGYP Y K+Y S
Sbjct: 364 GLEGYPVYTRKVYTDVS 380
>pdb|1K87|A Chain A, Crystal Structure Of E.coli Puta (residues 1-669)
Length = 669
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 GIEGYPTYKEKIYRSTS 45
G+EGYP Y K+Y S
Sbjct: 449 GLEGYPVYTRKVYTDVS 465
>pdb|1TIW|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With
L-Tetrahydro-2-Furoic Acid
pdb|1TJ0|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Co-Crystallized With L-Lactate
pdb|1TJ1|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With L-Lactate
pdb|2FZN|A Chain A, Structure Of The E. Coli Puta Proline Dehydrogenase Domain
Reduced By Dithionite And Complexed With Proline
pdb|2FZM|A Chain A, Structure Of The E. Coli Puta Proline Dehydrogenase Domain
Reduced By Dithionite And Complexed With So2
Length = 602
Score = 26.6 bits (57), Expect = 5.4, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 GIEGYPTYKEKIYRSTS 45
G+EGYP Y K+Y S
Sbjct: 364 GLEGYPVYTRKVYTDVS 380
>pdb|1TJ2|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With Acetate
Length = 584
Score = 26.6 bits (57), Expect = 5.5, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 GIEGYPTYKEKIYRSTS 45
G+EGYP Y K+Y S
Sbjct: 364 GLEGYPVYTRKVYTDVS 380
>pdb|1B6S|A Chain A, Structure Of N5-Carboxyaminoimidazole Ribonucleotide
Synthetase
pdb|1B6S|B Chain B, Structure Of N5-Carboxyaminoimidazole Ribonucleotide
Synthetase
pdb|1B6S|C Chain C, Structure Of N5-Carboxyaminoimidazole Ribonucleotide
Synthetase
pdb|1B6S|D Chain D, Structure Of N5-Carboxyaminoimidazole Ribonucleotide
Synthetase
Length = 355
Score = 26.6 bits (57), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 95 SDVIYNYVQRPFIHMSWEKEEAKS 118
SDV Y++++ P +H+ W +E +
Sbjct: 288 SDVNYDWLKLPLVHLHWYDKEVRP 311
>pdb|1B6R|A Chain A, N5-Carboxyaminoimidazole Ribonucleotide Synthetase From E.
Coli
pdb|3ETH|A Chain A, Crystal Structure Of E. Coli Purk In Complex With Mgatp
pdb|3ETH|B Chain B, Crystal Structure Of E. Coli Purk In Complex With Mgatp
pdb|3ETJ|A Chain A, Crystal Structure E. Coli Purk In Complex With Mg, Adp,
And Pi
pdb|3ETJ|B Chain B, Crystal Structure E. Coli Purk In Complex With Mg, Adp,
And Pi
Length = 355
Score = 26.6 bits (57), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 95 SDVIYNYVQRPFIHMSWEKEEAKS 118
SDV Y++++ P +H+ W +E +
Sbjct: 288 SDVNYDWLKLPLVHLHWYDKEVRP 311
>pdb|3E2Q|A Chain A, Crystal Structure Reduced Puta86-630 Mutant Y540s
Complexed With Trans-4-Hydroxy-L-Proline
pdb|3E2R|A Chain A, Crystal Structure Puta86-630 Mutant Y540s Complexed With
L-Tetrahydro- 2-Furoic Acid
pdb|3E2S|A Chain A, Crystal Structure Reduced Puta86-630 Mutant Y540s
Complexed With L- Proline
Length = 551
Score = 26.6 bits (57), Expect = 6.2, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 GIEGYPTYKEKIYRSTS 45
G+EGYP Y K+Y S
Sbjct: 364 GLEGYPVYTRKVYTDVS 380
>pdb|3ILV|A Chain A, Crystal Structure Of A Glutamine-Dependent Nad(+)
Synthetase From Cytophaga Hutchinsonii
Length = 634
Score = 26.2 bits (56), Expect = 7.7, Method: Composition-based stats.
Identities = 10/40 (25%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 98 IYNYVQRPFIHMSWEKEEAKSRHVDFQATLPLDWISDNIE 137
I N ++RP ++WEK++ +++ + P+ W N++
Sbjct: 416 IENVIERP---LTWEKDDITLQNIQARGRAPIIWXLTNVK 452
>pdb|4D8O|A Chain A, Crystal Structure Of The Ankyrin-B Zu5-Zu5-Upa-Dd Tandem
Length = 581
Score = 26.2 bits (56), Expect = 7.8, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 71 KKIRLGIEGYPTYKEKVKKRAGGRS 95
K+IR+G++ P + E VKK G ++
Sbjct: 212 KRIRVGLQAQPMHSELVKKILGNKA 236
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 0.139 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,759,051
Number of Sequences: 62578
Number of extensions: 192186
Number of successful extensions: 561
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 544
Number of HSP's gapped (non-prelim): 23
length of query: 154
length of database: 14,973,337
effective HSP length: 90
effective length of query: 64
effective length of database: 9,341,317
effective search space: 597844288
effective search space used: 597844288
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: 47 (22.7 bits)