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= 028460
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FH2|A Chain A, The Crystal Structure Of The Probable Atp-Dependent
Protease (Heat Shock Protein) From Corynebacterium
Glutamicum
Length = 146
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 53/98 (54%), Gaps = 6/98 (6%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA R +A+ EAR L + GTE L+G++ EG AK L + GI+L VR+E
Sbjct: 6 RFTDRARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEV 65
Query: 144 LNLLGKSDLFFFSPE--RPPLTEQAQRALDWAFNEKLK 179
++G+ P P T +A++ L+ + E L+
Sbjct: 66 EEIIGQGS----QPTTGHIPFTPRAKKVLELSLREGLQ 99
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 81 KIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVR 140
IP ++ RA + ++ E ++ + GTE L+G++ EG A+ L G L +VR
Sbjct: 79 HIP-FTPRAKKVLELSLREGLQMGHKYIGTEFLLLGLIREGEGVAAQVLVKLGADLPRVR 137
Query: 141 EETLNLL 147
++ + LL
Sbjct: 138 QQVIQLL 144
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|B Chain B, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|C Chain C, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|D Chain D, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|E Chain E, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|F Chain F, Structure Of Meca121 And Clpc1-485 Complex
Length = 468
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 57/100 (57%), Gaps = 11/100 (11%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA + A+A+ EA +L + N GTE L+G++ EG AK L+A G+ K+++E
Sbjct: 5 RFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEV 64
Query: 144 LNLLGK----SDLFFFSPERPPLTEQAQRALDWAFNEKLK 179
+L+G+ S ++P +A++ ++ + +E K
Sbjct: 65 ESLIGRGQEMSQTIHYTP-------RAKKVIELSMDEARK 97
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETL 144
++ RA + ++ EARKL + GTE L+G++ EG A+ L G++L K R++ L
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVL 139
Query: 145 NLLGKSD 151
LLG ++
Sbjct: 140 QLLGSNE 146
>pdb|2K77|A Chain A, Nmr Solution Structure Of The Bacillus Subtilis Clpc N-
Domain
Length = 146
Score = 50.1 bits (118), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 49/85 (57%), Gaps = 4/85 (4%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA + A+A+ EA +L + N GTE L+G++ EG AK L+A G+ K+++E
Sbjct: 6 RFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEV 65
Query: 144 LNLLGK----SDLFFFSPERPPLTE 164
+L+G+ S ++P + E
Sbjct: 66 ESLIGRGQEMSQTIHYTPRAKKVIE 90
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 38/64 (59%)
Query: 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETL 144
++ RA + ++ EARKL + GTE L+G++ EG A+ L G++L K R++ L
Sbjct: 81 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVL 140
Query: 145 NLLG 148
LLG
Sbjct: 141 QLLG 144
>pdb|2Y1Q|A Chain A, Crystal Structure Of Clpc N-Terminal Domain
Length = 150
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 49/85 (57%), Gaps = 4/85 (4%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA + A+A+ EA +L + N GTE L+G++ EG AK L+A G+ K+++E
Sbjct: 5 RFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEV 64
Query: 144 LNLLGK----SDLFFFSPERPPLTE 164
+L+G+ S ++P + E
Sbjct: 65 ESLIGRAQEMSQTIHYTPRAKKVIE 89
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETL 144
++ RA + ++ EARKL + GTE L+G++ EG A+ L G++L K R++ L
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVL 139
Query: 145 NLLGKSD 151
LLG ++
Sbjct: 140 QLLGNNE 146
>pdb|2Y1R|A Chain A, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|B Chain B, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|C Chain C, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|D Chain D, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|E Chain E, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|F Chain F, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|G Chain G, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|H Chain H, Structure Of Meca121 & Clpc N-Domain Complex
Length = 149
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 49/86 (56%), Gaps = 4/86 (4%)
Query: 83 PKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREE 142
+++ RA + A+A+ EA +L + N GTE L+G++ EG AK L+A G+ K+++E
Sbjct: 4 GRFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKE 63
Query: 143 TLNLLGK----SDLFFFSPERPPLTE 164
+L+G+ S ++P + E
Sbjct: 64 VESLIGRGQEMSQTIHYTPRAKKVIE 89
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETL 144
++ RA + ++ EARKL + GTE L+G++ EG A+ L G++L K R++ L
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVL 139
Query: 145 NLLGKSD 151
LLG ++
Sbjct: 140 QLLGSNE 146
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 48.5 bits (114), Expect = 3e-06, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 85 WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETL 144
++ RA + ++ EARKL + GTE L+G++ EG A+ L G++L K R++ L
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVL 139
Query: 145 NLLGKSD 151
LLG ++
Sbjct: 140 QLLGSNE 146
Score = 47.4 bits (111), Expect = 6e-06, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 43/66 (65%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA + A+A+ EA +L + N GTE L+G++ EG AK L+A G+ K+++E
Sbjct: 5 RFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEV 64
Query: 144 LNLLGK 149
+L+G+
Sbjct: 65 ESLIGR 70
>pdb|4EV4|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1 E166a Mutant With The Acylenzyme Intermediate Of
Meropenem
Length = 283
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 92 SFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNL 146
+AEL A L+Y + G L+ L+ G F+R+ G +F++ L L
Sbjct: 94 GMTVAELSAATLQYSDNGAANLLLEKLIGGPEGMTSFMRSIGDNVFRLDRWALEL 148
>pdb|3CVU|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion
pdb|3CVY|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Repaired
Ds Dna
pdb|2WB2|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Double
Stranded Dna Containing A T(6-4)c Photolesion
pdb|3CVV|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion And F0 Cofactor
pdb|2WQ6|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(Dewar)c Lesion
pdb|2WQ7|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(6-4)c Lesion
Length = 543
Score = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 28/75 (37%)
Query: 129 LRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSVFSVILIF 188
LR G R L + DL+ E + EQ DWA N S F
Sbjct: 380 LRQEGWIHHLARHAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAGNWMWLSASAFF 439
Query: 189 SKFFESKSPSASGEK 203
++F SP A G+K
Sbjct: 440 HQYFRVYSPVAFGKK 454
>pdb|4EQI|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1
pdb|4EQI|B Chain B, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1
Length = 283
Score = 30.8 bits (68), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 92 SFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNL 146
+AEL A L+Y + G L+ L+ G F+R+ G +F++ L L
Sbjct: 94 GMTVAELSAATLQYSDNGAANLLLEKLIGGPEGMTSFMRSIGDNVFRLDRWELEL 148
>pdb|4EUZ|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1 S70a- Meropenem Complex
Length = 283
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 92 SFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNL 146
+AEL A L+Y + G L+ L+ G F+R+ G +F++ L L
Sbjct: 94 GMTVAELSAATLQYSDNGAANLLLEKLIGGPEGMTSFMRSIGDNVFRLDRWELEL 148
>pdb|3CVW|A Chain A, Drosophila Melanogaster (6-4) Photolyase H365n Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion And
Cofactor F0
Length = 543
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 28/75 (37%)
Query: 129 LRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSVFSVILIF 188
LR G R L + DL+ E + EQ DWA N S F
Sbjct: 380 LRQEGWIHNLARHAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAGNWMWLSASAFF 439
Query: 189 SKFFESKSPSASGEK 203
++F SP A G+K
Sbjct: 440 HQYFRVYSPVAFGKK 454
>pdb|3CVX|A Chain A, Drosophila Melanogaster (6-4) Photolyase H369m Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion
Length = 543
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 28/75 (37%)
Query: 129 LRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSVFSVILIF 188
LR G R L + DL+ E + EQ DWA N S F
Sbjct: 380 LRQEGWIHHLARMAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAGNWMWLSASAFF 439
Query: 189 SKFFESKSPSASGEK 203
++F SP A G+K
Sbjct: 440 HQYFRVYSPVAFGKK 454
>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi
Length = 722
Score = 29.6 bits (65), Expect = 1.4, Method: Composition-based stats.
Identities = 31/100 (31%), Positives = 44/100 (44%), Gaps = 29/100 (29%)
Query: 137 FKVR--EETLNLLGK---SDLFFFS-------PERPPLTEQAQRALD------------- 171
FKVR EE +N LG L F + PER L E + AL+
Sbjct: 388 FKVRINEELVNNLGNFVHRALTFVNRYFDGVVPERGELDELDREALEEIEKAFKEVGELI 447
Query: 172 --WAFNEKLKSVFSVILIFSKFFESKSP--SASGEKVRVG 207
+ F + LK V S+ +++F+ K P +A +KVR G
Sbjct: 448 MNYRFKDALKRVMSLASFGNRYFDHKQPWKTAKEDKVRTG 487
>pdb|3FES|A Chain A, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|B Chain B, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|C Chain C, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|D Chain D, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
Length = 145
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 9/103 (8%)
Query: 84 KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
+++ RA ++ +A A+ L + G+E L+G+L E AK L G T + +
Sbjct: 7 RFTQRAKKAIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVLSKVGFTEAYLEGKI 66
Query: 144 LNLLGK----SDLFFFSPERPPLTEQAQRALDWAFNEKLKSVF 182
++ GK S+ SP + E L F KLK+ +
Sbjct: 67 VDXEGKGEEISEDIVLSPRSKQILE-----LSGXFANKLKTNY 104
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 73 KPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRAN 132
K E S D + S R+ + ++ A KLK GTE L+ I+ EG K L
Sbjct: 72 KGEEISEDIV--LSPRSKQILELSGXFANKLKTNYIGTEHILLAIIQEGEGIANKILNYA 129
Query: 133 GIT 135
G+
Sbjct: 130 GVN 132
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 0.131 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,180,625
Number of Sequences: 62578
Number of extensions: 178184
Number of successful extensions: 329
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 309
Number of HSP's gapped (non-prelim): 22
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
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: 49 (23.5 bits)