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= 005288
(704 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A2K|A Chain A, Crystal Structure Of Tils Complexed With Trna
pdb|3A2K|B Chain B, Crystal Structure Of Tils Complexed With Trna
Length = 464
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 71/255 (27%), Positives = 105/255 (41%), Gaps = 37/255 (14%)
Query: 85 IALGVSGGPDSMALC----VLTAGWKTGGFNQNGEAGEFIDGLLAITVDHGLR-EESKEE 139
+ +GVSGGPDS+AL L WK ++A VDH R ES+EE
Sbjct: 21 VIVGVSGGPDSLALLHVFLSLRDEWKLQ--------------VIAAHVDHMFRGRESEEE 66
Query: 140 ANIVSHRVSDMGIRCEIVRCDWLDGRPKQG-HLQEAARDMRYRLFQKVCIQHQIGVLLIA 198
V + I CE + D + G QEAAR RYR F ++ +HQ G + +
Sbjct: 67 MEFVKRFCVERRILCETAQIDVPAFQRSAGLGAQEAARICRYRFFAELMEKHQAGYVAVG 126
Query: 199 HHADDQAELFILRLSRNSGVLGLAGMAFSSQIFSSYAYSCHDDLKNHSILLVRPLLDFSK 258
HH DDQ E ++RL R S G AG+ Y L+RP L S+
Sbjct: 127 HHGDDQVETILMRLVRGSTSKGYAGIPVKRPFHGGY--------------LIRPFLAVSR 172
Query: 259 DDMYKICQGGNRDWVEDPTNRSPLFVRNRIRMSLGDL---SSCSFKSELQAVISACRRTR 315
++ C+ DP+N + RNR R + L + Q
Sbjct: 173 AEIEAYCRQMGLSPRCDPSNEKDDYTRNRFRHHIVPLLRQENPRLHERFQQYSEMMAEDE 232
Query: 316 SYVEHVCSNLINEAV 330
++E + ++ +N+ +
Sbjct: 233 QFLEELAADALNKVM 247
>pdb|1NI5|A Chain A, Structure Of The Mesj Pp-Atpase From Escherichia Coli
Length = 433
Score = 59.3 bits (142), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 61/215 (28%), Positives = 92/215 (42%), Gaps = 44/215 (20%)
Query: 84 RIALGVSGGPDSMALCVLTAGWKTGGFNQNGEAGEFIDGLLAITVDHGLREESKEEANIV 143
+I + SGG DS L W+T G A L AI V HGL S V
Sbjct: 15 QILVAFSGGLDSTVLLHQLVQWRT---ENPGVA------LRAIHVHHGL---SANADAWV 62
Query: 144 SHRVSDMGIRCEIVRCDW----LDGRPKQGH----LQEAARDMRYRLFQKVCIQHQIGVL 195
+H CE V W + R + ++ AR RY+ F + + + VL
Sbjct: 63 TH--------CENVCQQWQVPLVVERVQLAQEGLGIEAQARQARYQAFARTLLPGE--VL 112
Query: 196 LIAHHADDQAELFILRLSRNSGVLGLAGMAFSSQIFSSYAYSCHDDLKNHSILLVRPLLD 255
+ A H DDQ E F+L L R SG GL+ A S+ + L+RPLL
Sbjct: 113 VTAQHLDDQCETFLLALKRGSGPAGLSAXAEVSEFAGTR--------------LIRPLLA 158
Query: 256 FSKDDMYKICQGGNRDWVEDPTNRSPLFVRNRIRM 290
++ ++ + + + W+ED +N+ + RN +R+
Sbjct: 159 RTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRL 193
>pdb|1WY5|A Chain A, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|1WY5|B Chain B, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|2E21|A Chain A, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|B Chain B, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|C Chain C, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|D Chain D, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E89|A Chain A, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|C Chain C, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|D Chain D, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|B Chain B, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
Length = 317
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 51/252 (20%), Positives = 94/252 (37%), Gaps = 31/252 (12%)
Query: 82 HHRIALGVSGGPDSMALCVLTAGWKTGGFNQNGEAGEFIDGLLAITVDHGLREESKEEAN 141
R+ + SGG DS+ L + K + F +H LRE ++ +
Sbjct: 24 ERRVLIAFSGGVDSVVLTDVLLKLKNYFSLKEVALAHF---------NHMLRESAERDEE 74
Query: 142 IVSHRVSDMGIRCEIVRCDWLD-GRPKQGHLQEAARDMRYRLFQKVCIQHQIGVLLIAHH 200
+ ++ + + D + + L+EA R +RY+ +++ + AHH
Sbjct: 75 FCKEFAKERNMKIFVGKEDVRAFAKENRMSLEEAGRFLRYKFLKEILESEGFDCIATAHH 134
Query: 201 ADDQAELFILRLSRNSGVLGLAGMAFSSQIFSSYAYSCHDDLKNHSILLVRPLLDFSKDD 260
+D E +L +R +G+ GL G ++ RPL + +
Sbjct: 135 LNDLLETSLLFFTRGTGLDGLIGFLPKEEVIR------------------RPLYYVKRSE 176
Query: 261 MYKICQGGNRDWVEDPTNRSPLFVRNRIRMS-LGDLSSC--SFKSELQAVISACRRTRSY 317
+ + + WVED TN RNRIR + +L + + ++ R R +
Sbjct: 177 IEEYAKFKGLRWVEDETNYEVSIPRNRIRHRVIPELKRINENLEDTFLKMVKVLRAEREF 236
Query: 318 VEHVCSNLINEA 329
+E L E
Sbjct: 237 LEEEAQKLYKEV 248
>pdb|3K4O|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From
Methanocaldococcus Jannaschii
pdb|3K4O|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From
Methanocaldococcus Jannaschii
pdb|3K4Y|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp
pdb|3K4Y|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp
pdb|3K52|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ip
pdb|3K52|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ip
pdb|3K56|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp Beta-S
pdb|3K56|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp Beta-S
Length = 266
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 42/92 (45%), Gaps = 4/92 (4%)
Query: 527 PSIPLQPGQVCYFMNRFFVTWKLIKENGSRAFPREVHNDGGLGEDSWNEYCSSCLVGDEM 586
P++ +QP F ++ IKE R +H D + D N Y + GD++
Sbjct: 113 PAVSIQPSSFVVFGDKLIFDTSAIKEMLKRNLVPVIHGD--IVIDDKNGY--RIISGDDI 168
Query: 587 VAELRHMIESDWLYLAKLSKGLSSGNLPLERV 618
V L + +++D + A G+ N P++R+
Sbjct: 169 VPYLANELKADLILYATDVDGVLIDNKPIKRI 200
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 0.137 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,998,604
Number of Sequences: 62578
Number of extensions: 814262
Number of successful extensions: 1805
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1798
Number of HSP's gapped (non-prelim): 4
length of query: 704
length of database: 14,973,337
effective HSP length: 106
effective length of query: 598
effective length of database: 8,340,069
effective search space: 4987361262
effective search space used: 4987361262
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: 55 (25.8 bits)