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= psy179
(359 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AL0|A Chain A, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 475
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 37/70 (52%), Gaps = 8/70 (11%)
Query: 181 LKEILGTDGVLIYPTFPAQAQRHGEILLTTSGVYYAM-----LANVIGFPSTNVPLGLGS 235
L E+L ++ PT P A + GEI + YY M AN+ G P+ +VP G S
Sbjct: 374 LNEVLSQYDAILTPTSPVTAFKIGEIKDPLT--YYLMDIFTIPANLAGLPAISVPFGF-S 430
Query: 236 NGLPVGLQVC 245
N LPVG+QV
Sbjct: 431 NNLPVGVQVI 440
>pdb|2GI3|A Chain A, Crystal Structure Of Glutamyl-Trna(Gln) Amidotransferase
Subunit A (Tm1272) From Thermotoga Maritima At 1.80 A
Resolution
Length = 476
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 181 LKEILGTDGVLIYPTFPAQAQRHGEI---LLTTSGVYYAMLANVIGFPSTNVPLGLGSNG 237
L E+L ++ PT P A + GEI L + + AN+ G P+ +VP G SN
Sbjct: 375 LNEVLSQYDAILTPTSPVTAFKIGEIKDPLTYYLXDIFTIPANLAGLPAISVPFGF-SNN 433
Query: 238 LPVGLQV 244
LPVG+QV
Sbjct: 434 LPVGVQV 440
>pdb|3A2P|A Chain A, Structure Of 6-Aminohexanoate Cyclic Dimer Hydrolase
Length = 493
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 52/121 (42%), Gaps = 20/121 (16%)
Query: 174 DLRVFFGLKEILGTDG--VLIYPTFPAQAQRHGEILLTTS----GVYYA-------MLA- 219
+LR + G E G +LI PT Q GE++L G A MLA
Sbjct: 365 ELRYYAGKVERWWEAGWDLLILPTVTRQTPEIGELMLAKGTDLEGRQSAFISGSLQMLAF 424
Query: 220 ----NVIGFPSTNVPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHS--PLIPSTPQYL 273
NV G P+ ++P+G+ S+G+P+G+Q+ + A P + PQ L
Sbjct: 425 TVPFNVSGQPAISLPIGMSSDGMPIGVQIVAAYGREDLLLQVAAQLEGALPWVARRPQLL 484
Query: 274 D 274
+
Sbjct: 485 N 485
>pdb|3A2Q|A Chain A, Structure Of 6-Aminohexanoate Cyclic Dimer Hydrolase
Complexed With Substrate
Length = 493
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 52/121 (42%), Gaps = 20/121 (16%)
Query: 174 DLRVFFGLKEILGTDG--VLIYPTFPAQAQRHGEILLTTS----GVYYA-------MLA- 219
+LR + G E G +LI PT Q GE++L G A MLA
Sbjct: 365 ELRYYAGKVERWWEAGWDLLILPTVTRQTPEIGELMLAKGTDLEGRQSAFISGSLQMLAF 424
Query: 220 ----NVIGFPSTNVPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHS--PLIPSTPQYL 273
NV G P+ ++P+G+ S+G+P+G+Q+ + A P + PQ L
Sbjct: 425 TVPFNVSGQPAISLPIGMSSDGMPIGVQIVAAYGREDLLLQVAAQLEGALPWVARRPQLL 484
Query: 274 D 274
+
Sbjct: 485 N 485
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
pdb|1A77|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
Length = 326
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 1 MPELVLSPEACMGKVFSIDDMNSLYSIIEPLSHSKSQP--NTVAEFLKSLIGLSSYTPHL 58
+P+ ++S E GK +ID MN+LY + + P N E + G+ T HL
Sbjct: 9 IPKNIISFEDLKGKKVAIDGMNALYQFLTSIRLRDGSPLRNRKGEITSAYNGVFYKTIHL 68
Query: 59 L 59
L
Sbjct: 69 L 69
>pdb|3KPK|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans, C160a Mutant
Length = 434
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 5 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 63
>pdb|3SXI|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Cys128ala Variant From Acidithiobacillus Ferrooxidans
Complexed With Decylubiquinone
pdb|3T14|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Cys128ala Variant From Acidithiobacillus Ferrooxidans
With Bound Disulfide
pdb|3T2K|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Cys128ala Variant From Acidithiobacillus Ferrooxidans
With Bound Trisulfane
Length = 437
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3SX6|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Cys356ala Variant From Acidithiobacillus Ferrooxidans
Complexed With Decylubiquinone
Length = 437
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3SZW|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Cys128ser Variant From Acidithiobacillus Ferrooxidans In
Complex With Decylubiquinone
Length = 437
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3SZF|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase H198a
Variant From Acidithiobacillus Ferrooxidans In Complex
With Bound Trisulfide And Decylubiquinone
Length = 437
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3T2Z|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans
pdb|3T2Z|B Chain B, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans
pdb|3T31|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans In Complex With
Decylubiquinone
pdb|3SZ0|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans In Complex With Sodium
Selenide
pdb|3SZC|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans In Complex With Gold (I)
Cyanide
pdb|3T0K|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase From
Acidithiobacillus Ferrooxidans With Bound Trisulfide And
Decylubiquinone
Length = 437
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3SY4|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Ser126ala Variant From Acidithiobacillus Ferrooxidans
pdb|3SYI|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
Ser126ala Variant From Acidithiobacillus Ferrooxidans
Using 7.0 Kev Diffraction Data
Length = 437
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 8 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 66
>pdb|3T2Y|A Chain A, Crystal Structure Of Sulfide:quinone Oxidoreductase
His132ala Variant From Acidithiobacillus Ferrooxidans
With Bound Disulfide
Length = 434
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 229 VPLGLGSNGLPVGLQVCETASVAQCVTSFVANEHSPLIPSTP------QYLDNIDSPRR 281
V LG G+ G+P ++ E VT AN++ +PS P + D+I P R
Sbjct: 5 VILGAGTGGMPAAYEMKEALGSGHEVTLISANDYFQFVPSNPWVGVGWKERDDIAFPIR 63
>pdb|1M21|A Chain A, Crystal Structure Analysis Of The Peptide Amidase Pam In
Complex With The Competitive Inhibitor Chymostatin
pdb|1M21|B Chain B, Crystal Structure Analysis Of The Peptide Amidase Pam In
Complex With The Competitive Inhibitor Chymostatin
pdb|1M22|A Chain A, X-Ray Structure Of Native Peptide Amidase From
Stenotrophomonas Maltophilia At 1.4 A
pdb|1M22|B Chain B, X-Ray Structure Of Native Peptide Amidase From
Stenotrophomonas Maltophilia At 1.4 A
Length = 503
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 219 ANVIGFPSTNVPLGLGSNGLPVGLQVCETA 248
A V G+PS VP+G +GLPVGL TA
Sbjct: 439 AAVAGYPSLTVPMGQ-IDGLPVGLLFMGTA 467
>pdb|4EA3|A Chain A, Structure Of The NOFQ OPIOID RECEPTOR IN COMPLEX WITH A
PEPTIDE Mimetic
pdb|4EA3|B Chain B, Structure Of The NOFQ OPIOID RECEPTOR IN COMPLEX WITH A
PEPTIDE Mimetic
Length = 434
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 6/78 (7%)
Query: 199 QAQRHGEILLTTSGVYYAMLANVIGFPSTNVPLGLGSNGLPVGLQVCETASVAQCVTSFV 258
+AQ E L TT Y + + +PLGL + + L VC + C+ +V
Sbjct: 96 EAQAAAEQLKTTRNAY------IQKYLGAFLPLGLKVTIVGLYLAVCVGGLLGNCLVMYV 149
Query: 259 ANEHSPLIPSTPQYLDNI 276
H+ + +T Y+ N+
Sbjct: 150 ILRHTKMKTATNIYIFNL 167
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
0.321 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,613,102
Number of Sequences: 62578
Number of extensions: 420334
Number of successful extensions: 965
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: 933
Number of HSP's gapped (non-prelim): 33
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
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: 52 (24.6 bits)