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= 011440
(485 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O2Z|A Chain A, Crystal Structure Of A Protein Member Of The Upf0052
Family (Bh3568) From Bacillus Halodurans At 2.60 A
Resolution
pdb|2O2Z|B Chain B, Crystal Structure Of A Protein Member Of The Upf0052
Family (Bh3568) From Bacillus Halodurans At 2.60 A
Resolution
pdb|2O2Z|C Chain C, Crystal Structure Of A Protein Member Of The Upf0052
Family (Bh3568) From Bacillus Halodurans At 2.60 A
Resolution
pdb|2O2Z|D Chain D, Crystal Structure Of A Protein Member Of The Upf0052
Family (Bh3568) From Bacillus Halodurans At 2.60 A
Resolution
Length = 323
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 79/337 (23%), Positives = 130/337 (38%), Gaps = 101/337 (29%)
Query: 59 QPSLLVFSGGTAFNGVVEELKNITTRVAHVLPVSDDGGSTAEIVRVLGGPAVGDIRSRCL 118
+ +++VF GGT + ++ LK + ++ V+DDGGS+ + + L P GD+R+ +
Sbjct: 4 KKNVIVFGGGTGLSVLLRGLKTFPVSITAIVTVADDGGSSGRLRKELDIPPPGDVRNVLV 63
Query: 119 RLSDESTPEALAVXXXXXXXXXXXXQQAKSEWYNIVEGEHSLWKGVSKPYRETIRAFLSY 178
LS+ +P E + F
Sbjct: 64 ALSE------------------------------------------VEPLLEQL--FQHR 79
Query: 179 FQNEILRRPNESFCFSNGSIGNFFFAGARVFFQSLDAAIFLFSRVSDIPSESQVLPVIST 238
F+N S S+GN AG I S+V ++ +VLP ++
Sbjct: 80 FEN--------GNGLSGHSLGNLLLAGXTSITGDFARGISEXSKVLNV--RGKVLP--AS 127
Query: 239 NDRLTLGCELGDGTVIRGQNEISHPTNGSMEPVKKERSAVPALPSRIKRVFYMSSEGSNL 298
N + L E DGT++ G+ S++P +IKRVF
Sbjct: 128 NRSIILHGEXEDGTIVTGE------------------SSIPKAGKKIKRVF--------- 160
Query: 299 LHEVIAVVLFYWFSYLTQQMVFPTANSAVLDQLNAVDCIIYAMGSLFTSICPSLVLLGIG 358
LT + P L+ + D I+ GSL+TS+ P+L++ GI
Sbjct: 161 ---------------LTPKDTKPLREG--LEAIRKADVIVIGPGSLYTSVLPNLLVPGIC 203
Query: 359 EIISSRSCPKVLLLN-GLEDRETSGFSASCFVTAITD 394
E I + KV + N ++ ET G++AS + AI D
Sbjct: 204 EAIKQSTARKVYICNVXTQNGETDGYTASDHLQAIXD 240
>pdb|2HZB|A Chain A, X-Ray Crystal Structure Of Protein Bh3568 From Bacillus
Halodurans. Northeast Structural Genomics Consortium
Bhr60.
pdb|2HZB|B Chain B, X-Ray Crystal Structure Of Protein Bh3568 From Bacillus
Halodurans. Northeast Structural Genomics Consortium
Bhr60.
pdb|2HZB|C Chain C, X-Ray Crystal Structure Of Protein Bh3568 From Bacillus
Halodurans. Northeast Structural Genomics Consortium
Bhr60.
pdb|2HZB|D Chain D, X-Ray Crystal Structure Of Protein Bh3568 From Bacillus
Halodurans. Northeast Structural Genomics Consortium
Bhr60
Length = 333
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 79/337 (23%), Positives = 130/337 (38%), Gaps = 101/337 (29%)
Query: 59 QPSLLVFSGGTAFNGVVEELKNITTRVAHVLPVSDDGGSTAEIVRVLGGPAVGDIRSRCL 118
+ +++VF GGT + ++ LK + ++ V+DDGGS+ + + L P GD+R+ +
Sbjct: 3 KKNVVVFGGGTGLSVLLRGLKTFPVSITAIVTVADDGGSSGRLRKELDIPPPGDVRNVLV 62
Query: 119 RLSDESTPEALAVXXXXXXXXXXXXQQAKSEWYNIVEGEHSLWKGVSKPYRETIRAFLSY 178
LS+ +P E + F
Sbjct: 63 ALSE------------------------------------------VEPLLEQL--FQHR 78
Query: 179 FQNEILRRPNESFCFSNGSIGNFFFAGARVFFQSLDAAIFLFSRVSDIPSESQVLPVIST 238
F+N S S+GN AG I S+V ++ +VLP ++
Sbjct: 79 FEN--------GNGLSGHSLGNLLLAGXTSITGDFARGISEXSKVLNV--RGKVLP--AS 126
Query: 239 NDRLTLGCELGDGTVIRGQNEISHPTNGSMEPVKKERSAVPALPSRIKRVFYMSSEGSNL 298
N + L E DGT++ G+ S++P +IKRVF
Sbjct: 127 NRSIILHGEXEDGTIVTGE------------------SSIPKAGKKIKRVF--------- 159
Query: 299 LHEVIAVVLFYWFSYLTQQMVFPTANSAVLDQLNAVDCIIYAMGSLFTSICPSLVLLGIG 358
LT + P L+ + D I+ GSL+TS+ P+L++ GI
Sbjct: 160 ---------------LTPKDTKPLREG--LEAIRKADVIVIGPGSLYTSVLPNLLVPGIC 202
Query: 359 EIISSRSCPKVLLLN-GLEDRETSGFSASCFVTAITD 394
E I + KV + N ++ ET G++AS + AI D
Sbjct: 203 EAIKQSTARKVYICNVXTQNGETDGYTASDHLQAIXD 239
>pdb|2P0Y|A Chain A, Crystal Structure Of Q88yi3_lacpl From Lactobacillus
Plantarum. Northeast Structural Genomics Consortium
Target Lpr6
Length = 341
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 89/371 (23%), Positives = 132/371 (35%), Gaps = 116/371 (31%)
Query: 59 QPSLLVFSGGTAFNGVVEELKNITTRVAHVLPVSDDGGSTAEIVRVLGGPAVGDIRSRCL 118
+P ++V GGT V+ L+ + V+ V+DDGGS+ I + GDIR+ +
Sbjct: 10 RPKIVVIGGGTGLPVVLNGLRKQAVDITAVVTVADDGGSSGIIRNYVNVVPPGDIRNVXV 69
Query: 119 RLSDESTPEALAVXXXXXXXXXXXXQQAKSEWYNIVEGEHSLWKGVSKPYRETIRAFLSY 178
LS S P+ L+K + F
Sbjct: 70 ALS--SWPD--------------------------------LYKDI----------FQYR 85
Query: 179 FQNEILRRPNESFCFSNGSIGNFFFAGARVFFQSLDAAIFLFSRVSDIPSESQVLPVIST 238
FQ + + F F+ +IGN A + A+ S + + V P +
Sbjct: 86 FQGD------DQF-FAGHAIGNLIIAALTEXKSGVFDAVQELSNXXQV--DGHVYP--AA 134
Query: 239 NDRLTLGCELGDGTVIRGQNEISHPTNGSMEPVKKERSAVPALPSRIKRVFYMSSEGSNL 298
N+ LTL + DGT + G+ EI+ A ++RV+ G
Sbjct: 135 NEALTLHGKFSDGTELVGEAEIT------------------AAHKSLERVWVTDKNGKE- 175
Query: 299 LHEVIAVVLFYWFSYLTQQMVFPTANSAVLDQLNAVDCIIYAMGSLFTSICPSLVLLGIG 358
P A V+D + A D I+ GSLFTSI P+L + IG
Sbjct: 176 ----------------------PQAVQPVIDAIXAADQIVLGPGSLFTSILPNLTIGNIG 213
Query: 359 EIISSRSCPKVLLLN-GLEDRETSGFSASCFVTAITDALNRAYGDPQKSLKNSPSQYINT 417
+ V + N + ET FS + V LNR G +INT
Sbjct: 214 RAVCESDAEVVYICNIXTQKGETDNFSDADHVR----VLNRHLG----------QNFINT 259
Query: 418 IL-----VPED 423
+L VPED
Sbjct: 260 VLVNTEKVPED 270
>pdb|2PPV|A Chain A, Crystal Structure Of A Protein Belonging To The Upf0052
(Se_0549) From Staphylococcus Epidermidis Atcc 12228 At
2.00 A Resolution
Length = 332
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 55/208 (26%), Positives = 80/208 (38%), Gaps = 53/208 (25%)
Query: 197 SIGNFFFAGARVFFQSLDAAIFLFSRVSDIPSESQVLPVISTNDRLTLGCELGDGTVIRG 256
S+GN AG AI S+V +I + QV+P STN + L DG ++ G
Sbjct: 89 SLGNLVIAGXTNITNDFGHAIKELSKVLNI--KGQVIP--STNASVQLNAVXEDGEIVHG 144
Query: 257 QNEISHPTNGSMEPVKKERSAVPALPSRIKRVFYMSSEGSNLLHEVIAVVLFYWFSYLTQ 316
+ I P +I RVF S+
Sbjct: 145 ETNI------------------PKTHKKIDRVFLEPSD---------------------- 164
Query: 317 QMVFPTANSAVLDQLNAVDCIIYAMGSLFTSICPSLVLLGIGEIISSRSCPKVLLLN-GL 375
V P N A+ + L D I+ GSL+TS+ +L + GI E + S PK+ + N
Sbjct: 165 --VEP-XNEAI-EALEQADLIVLGPGSLYTSVISNLCVKGISEALLRTSAPKLYVSNVXT 220
Query: 376 EDRETSGFSASCFVTAITDALNRAYGDP 403
+ ET + + DAL R G+P
Sbjct: 221 QPGETDNYDVKEHI----DALTRQVGEP 244
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%)
Query: 59 QPSLLVFSGGTAFNGVVEELKNITTRVAHVLPVSDDGGSTAEIVRVLGGPAVGDIRSRCL 118
Q ++++ GGT + + L+ + ++ V+D+GGST +I V PA GDIR+
Sbjct: 4 QXNVVLIGGGTGLSVLARGLREFPIDITAIVTVADNGGSTGKIRDVXDIPAPGDIRNVIA 63
Query: 119 RLSD 122
LSD
Sbjct: 64 ALSD 67
>pdb|2Q7X|A Chain A, Crystal Structure Of A Putative Phospho Transferase
(Sp_1565) From Streptococcus Pneumoniae Tigr4 At 2.00 A
Resolution
pdb|2Q7X|B Chain B, Crystal Structure Of A Putative Phospho Transferase
(Sp_1565) From Streptococcus Pneumoniae Tigr4 At 2.00 A
Resolution
Length = 326
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 46/99 (46%), Gaps = 2/99 (2%)
Query: 321 PTANSAVLDQLNAVDCIIYAMGSLFTSICPSLVLLGIGEIISSRSCPKVLLLNGLEDR-E 379
P A+ V+ + D I+ GSLFTSI P++V+ IG + + N R E
Sbjct: 172 PLASRRVVQTILESDXIVLGPGSLFTSILPNIVIXEIGRALLETXAEIAYVCNIXTQRGE 231
Query: 380 TSGFSASCFVTAITDALNRAYGDP-QKSLKNSPSQYINT 417
T F+ S V + L R + D +++ P +Y N+
Sbjct: 232 TEHFTDSDHVEVLHRHLGRPFIDTVLVNIEXVPQEYXNS 270
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 60 PSLLVFSGGTAFNGVVEELKNITTRVAHVLPVSDDGGSTAEI---VRVLGGPAVGDIRSR 116
P + V GGT ++ L+ +A ++ V+DDGGS+ E+ + L P GD+R+
Sbjct: 5 PXITVIGGGTGSPVILXSLREXDVEIAAIVTVADDGGSSGELRXNXQQLTPP--GDLRNV 62
Query: 117 CLRLSD 122
+ SD
Sbjct: 63 LVAXSD 68
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
0.320 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,964,252
Number of Sequences: 62578
Number of extensions: 499154
Number of successful extensions: 1050
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1037
Number of HSP's gapped (non-prelim): 13
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
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: 53 (25.0 bits)