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= 024275
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 104/231 (45%), Gaps = 19/231 (8%)
Query: 38 QFMISGSIAGSVEHMAMYPVDTLKTRMQVIGASRPL-------HPAGVRQAFSSVLKLEG 90
+F+ +G+ A + + +P+DT K R+Q+ G S+ L GV ++++ EG
Sbjct: 4 KFLGAGT-AACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEG 62
Query: 91 PAGFYRGIAAMGLGAGPAHA-VYFSVYELCKEFFSGGVPNNSM-AHAVSGVFSTVASDAV 148
P Y G+ A GL + A V +Y+ K+F++ G + + + ++G + + AV
Sbjct: 63 PRSLYNGLVA-GLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAV 121
Query: 149 ITPMDMVKQRLQLKSSP-----YKGVADCVKRVLVEEGIGAFYASYRTTVIMNAPFQAVH 203
P D+VK R Q ++ Y+ + K + EEGI + V NA
Sbjct: 122 AQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAE 181
Query: 204 FATYEAVKRALMEFDPNSGSDESLVVHXXXXXXXXXXXXXXXXPLDVVKTQ 254
TY+ +K L++ N +D+ L H P+DVVKT+
Sbjct: 182 LVTYDLIKDTLLK--ANLMTDD-LPCHFTSAFGAGFCTTVIASPVDVVKTR 229
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 77/182 (42%), Gaps = 8/182 (4%)
Query: 40 MISGSIAGSVEHMAMYPVDTLKTRMQV---IGASRPLHPAGVRQAFSSVLKLEGPAGFYR 96
+++GS G++ P D +K R Q G R +A+ ++ + EG G ++
Sbjct: 108 LLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQS--TVEAYKTIAREEGIRGLWK 165
Query: 97 GIAAMGLGAGPAHAVYFSVYELCKE-FFSGGVPNNSM-AHAVSGVFSTVASDAVITPMDM 154
G + + Y+L K+ + + + H S + + + +P+D+
Sbjct: 166 GTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVIASPVDV 225
Query: 155 VKQR-LQLKSSPYKGVADCVKRVLVEEGIGAFYASYRTTVIMNAPFQAVHFATYEAVKRA 213
VK R + Y C +L +EG AFY + + + + V F TYE +KRA
Sbjct: 226 VKTRYMNSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRA 285
Query: 214 LM 215
LM
Sbjct: 286 LM 287
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 50/127 (39%), Gaps = 15/127 (11%)
Query: 145 SDAVITPMDMVKQRLQLK-----------SSPYKGVADCVKRVLVEEGIGAFYASYRTTV 193
+D + P+D K RLQ++ S+ Y+GV + ++ EG + Y +
Sbjct: 15 ADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPRSLYNGLVAGL 74
Query: 194 IMNAPFQAVHFATYEAVKRALMEFDPNSGSDESLVVHXXXXXXXXXXXXXXXXPLDVVKT 253
F +V Y++VK+ + ++G L+ P DVVK
Sbjct: 75 QRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLA----GSTTGALAVAVAQPTDVVKV 130
Query: 254 QLQCQVR 260
+ Q Q R
Sbjct: 131 RFQAQAR 137
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 60.5 bits (145), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 50/241 (20%), Positives = 98/241 (40%), Gaps = 21/241 (8%)
Query: 34 LEFWQFMISGSIAGSVEHMAMYPVDTLKTRMQVIGASRPLHP----AGVRQAFSSVLKLE 89
L F + ++G +A ++ A+ P++ +K +QV AS+ + G+ + K +
Sbjct: 5 LSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQ 64
Query: 90 GPAGFYRGIAAMGLGAGPAHAVYFSVYELCKEFFSGGVPNNSM------AHAVSGVFSTV 143
G F+RG A + P A+ F+ + K+ F GGV + + SG +
Sbjct: 65 GFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGA 124
Query: 144 ASDAVITPMDMVKQRLQLK------SSPYKGVADCVKRVLVEEGIGAFYASYRTTVIMNA 197
S + P+D + RL + G+ +C+ ++ +G+ Y + +V
Sbjct: 125 TSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGII 184
Query: 198 PFQAVHFATYEAVKRALMEFDPNSGSDESLVVHXXXXXXXXXXXXXXXXPLDVVKTQLQC 257
++A +F Y+ K L DP + ++V P D V+ ++
Sbjct: 185 IYRAAYFGVYDTAKGMLP--DPK---NVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMM 239
Query: 258 Q 258
Q
Sbjct: 240 Q 240
Score = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 87/196 (44%), Gaps = 25/196 (12%)
Query: 35 EFWQF----MISGSIAGSVEHMAMYPVDTLKTRM--QVIGASRPLHPAGVRQAFSSVLKL 88
+FW++ + SG AG+ +YP+D +TR+ V + G+ + + K
Sbjct: 107 QFWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKS 166
Query: 89 EGPAGFYRGIAAMGLGAGPAHAVYFSVYELCKEFFSGGVPNNSMAHA-VSGVFS---TVA 144
+G G Y+G G A YF VY+ K G +P+ H VS + + T
Sbjct: 167 DGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAK----GMLPDPKNVHIIVSWMIAQTVTAV 222
Query: 145 SDAVITPMDMVKQRLQLKSSP------YKGVADCVKRVLVEEGIGAFYASYRTTVI--MN 196
+ V P D V++R+ ++S Y G DC +++ +EG AF+ + V+ M
Sbjct: 223 AGLVSYPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMG 282
Query: 197 APFQAVHFATYEAVKR 212
F V Y+ +K+
Sbjct: 283 GAFVLV---LYDEIKK 295
>pdb|3CO8|A Chain A, Crystal Structure Of Alanine Racemase From Oenococcus Oeni
pdb|3CO8|B Chain B, Crystal Structure Of Alanine Racemase From Oenococcus Oeni
Length = 380
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 7/72 (9%)
Query: 130 NSMAHAVSGVFSTVASDAVITPMDMVKQRLQLKSSPYKGVADCVKRVLVEEGI--GAFYA 187
NS+A + V+ S+ V+ P+D +K +LKS+ VK++ EGI G+ +
Sbjct: 218 NSIARVGTVVYGVEPSEGVLGPIDKLKPVFELKSA-----LTFVKKIPAGEGISYGSKFV 272
Query: 188 SYRTTVIMNAPF 199
+ R T I P
Sbjct: 273 TSRDTWIGTLPI 284
>pdb|2HVG|A Chain A, Crystal Structure Of Adenylosuccinate Lyase From
Plasmodium Vivax
pdb|2HVG|B Chain B, Crystal Structure Of Adenylosuccinate Lyase From
Plasmodium Vivax
Length = 482
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 112 YFSVYELCKEFFSGGVPNNSMAHAVSGVFSTVASDAVITPMDMVKQRLQLKSSPYKGVAD 171
Y YE K+F G V + + + + P D+V Q L+L + Y G AD
Sbjct: 415 YVDAYEELKQFTRGKVIDQKIXQEF------IKTKCAFLPQDVVDQLLELTPATYTGYAD 468
>pdb|2QGA|B Chain B, Plasmodium Vivax Adenylosuccinate Lyase Pv003765 With Amp
Bound
pdb|2QGA|C Chain C, Plasmodium Vivax Adenylosuccinate Lyase Pv003765 With Amp
Bound
Length = 465
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 112 YFSVYELCKEFFSGGVPNNSMAHAVSGVFSTVASDAVITPMDMVKQRLQLKSSPYKGVAD 171
Y YE K+F G V + + + + P D+V Q L+L + Y G AD
Sbjct: 398 YVDAYEELKQFTRGKVIDQKIMQEF------IKTKCAFLPQDVVDQLLELTPATYTGYAD 451
>pdb|3PB2|A Chain A, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
pdb|3PB2|B Chain B, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
pdb|3PB2|C Chain C, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
pdb|3PB2|D Chain D, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
pdb|3PB2|E Chain E, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
pdb|3PB2|F Chain F, Characterisation Of The First Monomeric
Dihydrodipicolinate Synthase Variant Reveals
Evolutionary Insights
Length = 300
Score = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 9/75 (12%)
Query: 117 ELCKEFFSGGVPNNSMAHA-----VSGVF---STVASDAVITPMDMVKQRLQLKSSP-YK 167
ELC E+FSG + ++ HA + +F + + A + M ++ L+L P +
Sbjct: 225 ELCAEYFSGNLEKSAEVHAKLRPLMKALFVETNPIPVKAALNLMGFIENELRLPLVPASE 284
Query: 168 GVADCVKRVLVEEGI 182
+ ++ VL E G+
Sbjct: 285 KTVELLRNVLKESGL 299
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 0.133 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,162,171
Number of Sequences: 62578
Number of extensions: 263233
Number of successful extensions: 578
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 564
Number of HSP's gapped (non-prelim): 12
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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)