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= 048784
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QMX|B Chain B, The Crystal Structure Of L-Phe Inhibited Prephenate
Dehydratase From Chlorobium Tepidum Tls
pdb|2QMX|A Chain A, The Crystal Structure Of L-Phe Inhibited Prephenate
Dehydratase From Chlorobium Tepidum Tls
Length = 283
Score = 220 bits (561), Expect = 6e-58, Method: Compositional matrix adjust.
Identities = 134/285 (47%), Positives = 162/285 (56%), Gaps = 26/285 (9%)
Query: 1 GVRGAYSESAAEKAYPNCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYDLL 60
G GAYSE AA + E +PCE FD F AV D AV+PIENSLGGSIH+NYDLL
Sbjct: 13 GEPGAYSEIAALRF---GEPLPCESFDDVFSAVTEQKADYAVIPIENSLGGSIHQNYDLL 69
Query: 61 LRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVR-EAVDD 119
LR + I+ E V HCLL PG VE + SHPQAL QC N +R EA D
Sbjct: 70 LRRPVVILAETFVKVEHCLLGLPGASVETATKAXSHPQALVQCHNFFATHPQIRAEAAYD 129
Query: 120 TAGAAKYVSFEQLKDXXXXXXXXXXXIYGLNILAEDIQDDCDNVTRFLMLARE------- 172
TAG+AK V+ + K +YGL+IL E++ D+ N+TRF +A E
Sbjct: 130 TAGSAKXVAESRDKSALAIASKRAGELYGLDILKENLADEEWNITRFFCIAHENNPDISH 189
Query: 173 -PIIPGTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNS 231
+ P R KTSIVF+L G LF+ALA FALR I+LTKIESRP R
Sbjct: 190 LKVRPDVARQ-KTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRK---------- 238
Query: 232 GFGKYFDYLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYPI 276
K F+YLFY DF DQ NAL +L+EFAT ++VLGSY +
Sbjct: 239 ---KAFEYLFYADFIGHREDQNVHNALENLREFATXVKVLGSYGV 280
>pdb|3MWB|A Chain A, The Crystal Structure Of Prephenate Dehydratase In Complex
With L-Phe From Arthrobacter Aurescens To 2.0a
pdb|3MWB|B Chain B, The Crystal Structure Of Prephenate Dehydratase In Complex
With L-Phe From Arthrobacter Aurescens To 2.0a
Length = 313
Score = 125 bits (313), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 90/284 (31%), Positives = 137/284 (48%), Gaps = 26/284 (9%)
Query: 1 GVRGAYSESAAEKAYPNCEA--VPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYD 58
G +G ++E+A + +A +PC +TA E V D A +PIENS+ G + D
Sbjct: 13 GPQGTFTEAALXQVPGAADATRIPCTNVNTALERVRAGEADAAXVPIENSVEGGVTATLD 72
Query: 59 LLLR-HRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVREAV 117
+ L I+ E + L+A PGV++ D+KR+ +H A AQC + + + V
Sbjct: 73 AIATGQELRIIREALVPITFVLVARPGVELSDIKRISTHGHAWAQCRLWVDEHLPNADYV 132
Query: 118 DDTAGAAKYVSFEQLKDXXXXXXXXXXXIY-----GLNILAEDIQDDCDNVTRFLMLARE 172
++ AA L+D + GLN+LAEDI D+ D VTRF++++R
Sbjct: 133 PGSSTAASAXGL--LEDDAPYEAAICAPLIAAEQPGLNVLAEDIGDNPDAVTRFILVSRP 190
Query: 173 PIIPGTDRPFKTSIVFSL-EEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNS 231
+P KT++V L E+ PG L + L FA R +NL++IESRP
Sbjct: 191 GALPERTGADKTTVVVPLPEDHPGALXEILDQFASRGVNLSRIESRPT------------ 238
Query: 232 GFGKYFD-YLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSY 274
G+Y Y F +D + D + +AL L + R LGSY
Sbjct: 239 --GQYLGHYFFSIDADGHATDSRVADALAGLHRISPATRFLGSY 280
>pdb|2QMW|A Chain A, The Crystal Structure Of The Prephenate Dehydratase (Pdt)
From Staphylococcus Aureus Subsp. Aureus Mu50
pdb|2QMW|B Chain B, The Crystal Structure Of The Prephenate Dehydratase (Pdt)
From Staphylococcus Aureus Subsp. Aureus Mu50
Length = 267
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 63/227 (27%), Positives = 98/227 (43%), Gaps = 13/227 (5%)
Query: 1 GVRGAYSESAAEKAYPNCEAV--PCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYD 58
G +G +S A + + EA P +AV V+PIENS+ G+I+ D
Sbjct: 10 GPKGTFSYLACRQYFSENEATFQPKSNLFEVIKAVADDDTSIGVVPIENSIEGTINIVAD 69
Query: 59 LLLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVREAVD 118
L + + GE++ + L N + D+K+V S A++Q N + + + VD
Sbjct: 70 ALAQQDVFAHGEIRLDINFALYGNGTDSISDIKKVYSIAPAISQTTNYIHQHQFDYDYVD 129
Query: 119 DTAGAAKYVSFEQLKDXXXXXXXXXXXIYGLNILAEDIQDDCDNVTRFLMLAREPIIPGT 178
T + + YG + I+D NVTRFL++ +
Sbjct: 130 STIQSLTKIE----NGVAAIAPLGSGEAYGFTPIDTHIEDYPHNVTRFLVIKNQQQFDQN 185
Query: 179 DRPFKTSIVFSL---EEGPGVLFKALAVFALRQINLTKIESRPLRNQ 222
TS+ F + + PG+L L FAL INL+ IESRPL+ Q
Sbjct: 186 ----ATSLXFLITPXHDKPGLLASVLNTFALFNINLSWIESRPLKTQ 228
>pdb|3LUY|A Chain A, Putative Chorismate Mutase From Bifidobacterium
Adolescentis
Length = 329
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/246 (23%), Positives = 96/246 (39%), Gaps = 29/246 (11%)
Query: 41 AVLPIENSLGGSIHRNYDLLLRHRLHIVG--EVKFAVRHCLLANPGVKVEDLKRVLSHPQ 98
++ EN++ G + N D L+ + +VG V V G + + +HP
Sbjct: 60 GIVAWENNVEGYVVPNLDALIDAK-DLVGFARVGVNVEFDAYVAQGADPAEARIATAHPH 118
Query: 99 ALAQCENTLTKLGLVREAVDDTAGAAKYVSFEQLKDXXXXXXXXXXXIYGLNILAEDIQD 158
LAQC+ + + L + A A + + + +Y + + IQD
Sbjct: 119 GLAQCKRFIAEHRLSTQPATSNAAACR----DLIPGEIAFGPAICGELYDITRIGTAIQD 174
Query: 159 DCDNVTRFLML------AREPIIPGTDRPFKTSIVFSL---EEGPGVLFKALAVFALRQI 209
T FL+L AR P + + V +L GPGVL L VF +
Sbjct: 175 YQGAATDFLVLSPRAEVARLLAKPRAEANVEYESVLTLIPLVTGPGVLANLLDVFRDAGL 234
Query: 210 NLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYVDFEASMADQKAQNALRHLKEFATFLR 269
N T SRP++ G+ Y F V +A+ +++ ++AL + E + +
Sbjct: 235 NXTSFISRPIK-------------GRTGTYSFIVTLDAAPWEERFRDALVEIAEHGDWAK 281
Query: 270 VLGSYP 275
L YP
Sbjct: 282 TLAVYP 287
>pdb|1PHZ|A Chain A, Structure Of Phosphorylated Phenylalanine Hydroxylase
pdb|2PHM|A Chain A, Structure Of Phenylalanine Hydroxylase Dephosphorylated
Length = 429
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/36 (55%), Positives = 24/36 (66%)
Query: 185 SIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLR 220
S++FSL+E G L K L +F INLT IESRP R
Sbjct: 36 SLIFSLKEEVGALAKVLRLFEENDINLTHIESRPSR 71
>pdb|3K2O|A Chain A, Structure Of An Oxygenase
pdb|3K2O|B Chain B, Structure Of An Oxygenase
Length = 336
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 160 CDNVTRF--LMLAREPIIPGTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESR 217
DNV R L L+ E + +RP+K ++ + +EG + A + L ++ R
Sbjct: 44 ADNVERADALQLSVEEFVERYERPYKPVVLLNAQEG----WSAQEKWTLERLK------R 93
Query: 218 PLRNQPLRSSDDNSGFGKYFDYLFYVDFEASMAD 251
RNQ + +DN G+ +Y+++ S D
Sbjct: 94 KYRNQKFKCGEDNDGYSVKXKXKYYIEYXESTRD 127
>pdb|3LD8|A Chain A, Structure Of Jmjd6 And Fab Fragments
pdb|3LDB|A Chain A, Structure Of Jmjd6 Complexd With Alpha-Ketoglutarate And
Fab Fragment
Length = 334
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 160 CDNVTRF--LMLAREPIIPGTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESR 217
DNV R L L+ E + +RP+K ++ + +EG + A + L ++ R
Sbjct: 43 ADNVERADALQLSVEEFVERYERPYKPVVLLNAQEG----WSAQEKWTLERLK------R 92
Query: 218 PLRNQPLRSSDDNSGFGKYFDYLFYVDFEASMAD 251
RNQ + +DN G+ +Y+++ S D
Sbjct: 93 KYRNQKFKCGEDNDGYSVKMKMKYYIEYMESTRD 126
>pdb|2OVI|A Chain A, Structure Of The Heme Binding Protein Chux
pdb|2OVI|B Chain B, Structure Of The Heme Binding Protein Chux
pdb|2OVI|C Chain C, Structure Of The Heme Binding Protein Chux
pdb|2OVI|D Chain D, Structure Of The Heme Binding Protein Chux
Length = 164
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 7/64 (10%)
Query: 16 PNCEAVPCEQFDTAFEAVERW-----LVDRA--VLPIENSLGGSIHRNYDLLLRHRLHIV 68
P+ VP ++FDT ++ V W LV A +L L HR+ LR + +
Sbjct: 37 PSSTVVPGDKFDTVWDTVCEWGNVTTLVHTADVILEFSGELPSGFHRHGYFNLRGKHGMS 96
Query: 69 GEVK 72
G +K
Sbjct: 97 GHIK 100
>pdb|3R3L|A Chain A, Structure Of Np Protein From Lassa Av Strain
pdb|3R3L|B Chain B, Structure Of Np Protein From Lassa Av Strain
pdb|3R3L|C Chain C, Structure Of Np Protein From Lassa Av Strain
Length = 582
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 12 EKAYPNCEAVPCEQFDTAFEAVERWLVDRAVLP 44
E+ P+C + C FD A LV RAVLP
Sbjct: 523 EEITPHCALMDCIMFDAAVSGGLNTLVLRAVLP 555
>pdb|2FFJ|A Chain A, Crystal Structure Of A Duf89 Family Protein (Af1104) From
Archaeoglobus Fulgidus Dsm 4304 At 2.45 A Resolution
pdb|2FFJ|B Chain B, Crystal Structure Of A Duf89 Family Protein (Af1104) From
Archaeoglobus Fulgidus Dsm 4304 At 2.45 A Resolution
Length = 300
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 20/26 (76%), Gaps = 1/26 (3%)
Query: 165 RFLMLAREPIIPGTDRPFKTSIVFSL 190
+ L LA+E I+ G+D PFKT+++ S+
Sbjct: 96 QVLPLAKE-IVEGSDDPFKTAVIVSI 120
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 0.138 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,589,662
Number of Sequences: 62578
Number of extensions: 288146
Number of successful extensions: 687
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 667
Number of HSP's gapped (non-prelim): 15
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
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: 51 (24.3 bits)