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= 024256
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GHD|A Chain A, Crystal Structure Of A Cystathionine Beta-Synthase Domain
Protein Fused To A Zn-Ribbon-Like Domain
pdb|3GHD|B Chain B, Crystal Structure Of A Cystathionine Beta-Synthase Domain
Protein Fused To A Zn-Ribbon-Like Domain
Length = 70
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%)
Query: 54 KVVTISPTDTVLMATKKMLELRLSSAVVTVENKPRGILTSKDILMRVISQNLPADSTLVE 113
K + + P DTV K + + SAVV ++ G++T +DIL +V+++ VE
Sbjct: 1 KAIVVQPKDTVDRVAKILSRNKAGSAVVXEGDEILGVVTERDILDKVVAKGKNPKEVKVE 60
Query: 114 KVMTPNP 120
++ T NP
Sbjct: 61 EIXTKNP 67
>pdb|2RC3|A Chain A, Crystal Structure Of Cbs Domain, Ne2398
pdb|2RC3|B Chain B, Crystal Structure Of Cbs Domain, Ne2398
pdb|2RC3|C Chain C, Crystal Structure Of Cbs Domain, Ne2398
pdb|2RC3|D Chain D, Crystal Structure Of Cbs Domain, Ne2398
Length = 135
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 52/109 (47%), Gaps = 4/109 (3%)
Query: 41 FRPSLSTI---IPEKSK-VVTISPTDTVLMATKKMLELRLSSAVVTVENKPRGILTSKDI 96
F+ + T+ + EK VV I P D+V A +KM + + +V + K GILT +D
Sbjct: 1 FQGHMKTVKHLLQEKGHTVVAIGPDDSVFNAMQKMAADNIGALLVMKDEKLVGILTERDF 60
Query: 97 LMRVISQNLPADSTLVEKVMTPNPECATIDTPIVDALHIMHDGKFLHLP 145
+ + P T V+++MT ++ D + ++ + + HLP
Sbjct: 61 SRKSYLLDKPVKDTQVKEIMTRQVAYVDLNNTNEDCMALITEMRVRHLP 109
>pdb|2YZI|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Pyrococcus Horikoshii
pdb|2YZI|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
From Pyrococcus Horikoshii
Length = 138
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 2/93 (2%)
Query: 53 SKVVTISPTDTVLMATKKMLELRLSSAVVTVEN-KPRGILTSKDILMRVISQNLPADSTL 111
K++ + P+ +V A++ E + S VV ++ G T DI+ RVI LP D
Sbjct: 15 KKLLGVKPSTSVQEASRLXXEFDVGSLVVINDDGNVVGFFTKSDIIRRVIVPGLPYDIP- 73
Query: 112 VEKVMTPNPECATIDTPIVDALHIMHDGKFLHL 144
VE++ T N A ++TP+ + L + + H+
Sbjct: 74 VERIXTRNLITANVNTPLGEVLRKXAEHRIKHI 106
>pdb|3FHM|A Chain A, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|B Chain B, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|C Chain C, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|D Chain D, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
Length = 165
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 6/115 (5%)
Query: 37 RERMFRPSLSTIIPE-----KSKVVTISPTDTVLMATKKMLELRLSSAVVT-VENKPRGI 90
RE ++ ++T + + VVT+ P ++ A + ++ + VVT + GI
Sbjct: 14 RENLYFQGMATFVKDLLDRKGRDVVTVGPDVSIGEAAGTLHAHKIGAVVVTDADGVVLGI 73
Query: 91 LTSKDILMRVISQNLPADSTLVEKVMTPNPECATIDTPIVDALHIMHDGKFLHLP 145
T +D++ V Q + V MT N ++ + IM G+F H+P
Sbjct: 74 FTERDLVKAVAGQGAASLQQSVSVAMTKNVVRCQHNSTTDQLMEIMTGGRFRHVP 128
>pdb|4FRY|A Chain A, The Structure Of A Putative Signal-Transduction Protein
With Cbs Domains From Burkholderia Ambifaria Mc40-6
pdb|4FRY|B Chain B, The Structure Of A Putative Signal-Transduction Protein
With Cbs Domains From Burkholderia Ambifaria Mc40-6
Length = 157
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 43/91 (47%)
Query: 55 VVTISPTDTVLMATKKMLELRLSSAVVTVENKPRGILTSKDILMRVISQNLPADSTLVEK 114
+ T++ D V A K M E + + +V + GI+T +D +V+ Q + +T VE+
Sbjct: 23 IYTVTKNDFVYDAIKLMAEKGIGALLVVDGDDIAGIVTERDYARKVVLQERSSKATRVEE 82
Query: 115 VMTPNPECATIDTPIVDALHIMHDGKFLHLP 145
+MT + + +M + + HLP
Sbjct: 83 IMTAKVRYVEPSQSTDECMALMTEHRMRHLP 113
>pdb|2EF7|A Chain A, Crystal Structure Of St2348, A Hypothetical Protein With
Cbs Domains From Sulfolobus Tokodaii Strain7
pdb|2EF7|B Chain B, Crystal Structure Of St2348, A Hypothetical Protein With
Cbs Domains From Sulfolobus Tokodaii Strain7
Length = 133
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 52 KSKVVTISPTDTVLMATKKMLELRLSSAVVTVENKPRGILTSKDILMRVISQNLPADSTL 111
K++V++++ + K E + S +V NKP GI+T +DI ++ I + + T
Sbjct: 11 KTQVISVTKDAKLNDIAKVXTEKNIGSVIVVDGNKPVGIITERDI-VKAIGKGKSLE-TK 68
Query: 112 VEKVMTPNPECATIDTPIVDALHIMHDGKFLHLP 145
E+ T + D+PI AL + HLP
Sbjct: 69 AEEFXTASLITIREDSPITGALALXRQFNIRHLP 102
>pdb|2CU0|A Chain A, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase From Pyrococcus Horikoshii Ot3
pdb|2CU0|B Chain B, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase From Pyrococcus Horikoshii Ot3
Length = 486
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 8/91 (8%)
Query: 55 VVTISPTDTVLMATKKMLELRLSSAVVTVENKPRGILTSKDILMRVISQNLPADSTLVEK 114
V+TI+P +TV A M + + V + K GI+T KDI R + LV++
Sbjct: 103 VITIAPDETVDFALFLMEKHGIDGLPVVEDEKVVGIITKKDIAAR--------EGKLVKE 154
Query: 115 VMTPNPECATIDTPIVDALHIMHDGKFLHLP 145
+MT + +AL IM + + LP
Sbjct: 155 LMTKEVITVPESIEVEEALKIMIENRIDRLP 185
>pdb|2YZQ|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Pyrococcus Horikoshii
Length = 282
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 52 KSKVVTISPTDTVLMATKKMLELRLSSAVVT-VENKPRGILTSKDILMRVISQN 104
K V + DT+ A K MLE VV + KP GILT DI+ R +++
Sbjct: 67 KRDVPVVKENDTLKKAAKLMLEYDYRRVVVVDSKGKPVGILTVGDIIRRYFAKS 120
>pdb|2IY5|B Chain B, Phenylalanyl-Trna Synthetase From Thermus Thermophilus
Complexed With Trna And A Phenylalanyl-Adenylate Analog
Length = 785
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 235 AFAFKVQDNKGLMHR--FTCGMLPFPNFIEVTNY 266
AF +V + M R F GM P N ++VTNY
Sbjct: 218 AFGLRVAPSPLWMQRALFAAGMRPINNVVDVTNY 251
>pdb|1PYS|B Chain B, Phenylalanyl-Trna Synthetase From Thermus Thermophilus
pdb|1B7Y|B Chain B, Phenylalanyl Trna Synthetase Complexed With
Phenylalaninyl-Adenylate
pdb|1EIY|B Chain B, The Crystal Structure Of Phenylalanyl-Trna Synthetase From
Thermus Thermophilus Complexed With Cognate Trnaphe
pdb|1B70|B Chain B, Phenylalanyl Trna Synthetase Complexed With Phenylalanine
pdb|1JJC|B Chain B, Crystal Structure At 2.6a Resolution Of Phenylalanyl-trna
Synthetase Complexed With Phenylalanyl-adenylate In The
Presence Of Manganese
pdb|2AKW|B Chain B, Crystal Structure Of T.thermophilus Phenylalanyl-trna
Synthetase Complexed With P-cl-phenylalanine
pdb|2ALY|B Chain B, Crystal Structure Of T.Thermophilus Phenylalanyl-Trna
Synthetase Complexed With
5'-O-[n-(L-Tyrosyl)sulphamoyl]adenosine
pdb|2AMC|B Chain B, Crystal Structure Of Phenylalanyl-Trna Synthetase
Complexed With L- Tyrosine
pdb|3HFZ|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With M-Tyrosine
pdb|3TEH|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With L-Dopa
Length = 785
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 235 AFAFKVQDNKGLMHR--FTCGMLPFPNFIEVTNY 266
AF +V + M R F GM P N ++VTNY
Sbjct: 218 AFGLRVAPSPLWMQRALFAAGMRPINNVVDVTNY 251
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
0.316 0.130 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,818,315
Number of Sequences: 62578
Number of extensions: 249473
Number of successful extensions: 487
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 478
Number of HSP's gapped (non-prelim): 18
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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: 51 (24.3 bits)