RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7900
(293 letters)
>2lck_A Mitochondrial uncoupling protein 2; membrane protein, proton
translocator, mitochondrial carrier transport protein,
structural genomics; NMR {Mus musculus}
Length = 303
Score = 99.7 bits (249), Expect = 1e-24
Identities = 49/246 (19%), Positives = 88/246 (35%), Gaps = 30/246 (12%)
Query: 13 FICGFGAAVINIAVTFPINKIIFRQQLHGV--------------GVLKAMSQ-VHAEGIP 57
F+ AA I +TFP++ R Q+ G GVL + V EG
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 58 YLYRGILPPLLQKSISTSLMFGMYDKSNLFLLPYLSDHPILMKFTSAMFAGSIEAML-TP 116
LY G++ L ++ S+ G+YD F I + + G++ + P
Sbjct: 65 SLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQP 124
Query: 117 FERLQTLLQ-DSAYHTQLN--NTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVV---- 169
+ ++ Q + +T K I +E G++ ++G SP + RN N
Sbjct: 125 TDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAELVT 184
Query: 170 FFIARDEVMIRFPTESNKDRMYKVFIKDFLIGAVIGAINSSVFFPFNVIKIHMQSKLGGS 229
+ + +D ++ + F G + + P +V+K + G
Sbjct: 185 YDLIKDTLLKANLMTDD-------LPCHFTSAFGAGFCTTVIASPVDVVKTRYMNSALGQ 237
Query: 230 YDSLWQ 235
Y S
Sbjct: 238 YHSAGH 243
Score = 68.9 bits (169), Expect = 1e-13
Identities = 42/180 (23%), Positives = 74/180 (41%), Gaps = 12/180 (6%)
Query: 10 YEEFICGFGAAVINIAVTFPINKIIFRQQLHGV--------GVLKAMSQ-VHAEGIPYLY 60
+ G + +AV P + + R Q ++A EGI L+
Sbjct: 105 GSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLW 164
Query: 61 RGILPPLLQKSISTSLMFGMYDKSNLFLLPY-LSDHPILMKFTSAMFAGSIEAML-TPFE 118
+G P + + +I YD LL L + FTSA AG ++ +P +
Sbjct: 165 KGTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVIASPVD 224
Query: 119 RLQTLLQDSAYHTQLNNTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVVFFIARDEVM 178
++T +SA Q ++ H + ++ G + +Y+G P LR G NVV F+ +++
Sbjct: 225 VVKTRYMNSA-LGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLK 283
Score = 64.6 bits (158), Expect = 3e-12
Identities = 32/138 (23%), Positives = 51/138 (36%), Gaps = 14/138 (10%)
Query: 97 ILMKFTSAMFAGSIEAMLT-PFE----RLQT-----LLQDSAYHTQLNNTPHLVKHIYKE 146
+ +KF A A I ++T P + RLQ L +A Q + + +
Sbjct: 1 MTVKFLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRT 60
Query: 147 YGMKEYYRGLSPVLLRNGPSNVVFFIARDEVMIRFPTESNKDRMYKVFIKDFLIGAVIGA 206
G + Y GL L R V D V + S + L G+ GA
Sbjct: 61 EGPRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSR----LLAGSTTGA 116
Query: 207 INSSVFFPFNVIKIHMQS 224
+ +V P +V+K+ Q+
Sbjct: 117 LAVAVAQPTDVVKVRFQA 134
>1okc_A ADP, ATP carrier protein heart isoform T1; mitochondrial
transporter, nucleotide translocation, membrane protein,
transport; HET: CXT CDL LDM PC1; 2.2A {Bos taurus} SCOP:
f.42.1.1 PDB: 2c3e_A*
Length = 297
Score = 86.2 bits (214), Expect = 1e-19
Identities = 42/233 (18%), Positives = 81/233 (34%), Gaps = 27/233 (11%)
Query: 13 FICGFGAAVINIAVTFPINKIIFRQQLHGV-----------GVLKAMSQVHA-EGIPYLY 60
F+ G AA I+ PI ++ Q+ G++ + ++ +G +
Sbjct: 11 FLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLSFW 70
Query: 61 RGILPPLLQKSISTSLMFGMYDKSNLFLLPYLSDH-----PILMKFTSAMFAGSIEAMLT 115
RG L +++ + +L F DK L + H S AG+
Sbjct: 71 RGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLCFV 130
Query: 116 -PFE----RLQTLLQDSAYHTQLNNTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVVF 170
P + RL + A + + + I+K G++ Y+G + + +
Sbjct: 131 YPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAY 190
Query: 171 FIARDEVMIRFPTESNKDRMYKVFIKDFLIGAVIGAINSSVFFPFNVIKIHMQ 223
F D P N I ++I + A+ V +PF+ ++ M
Sbjct: 191 FGVYDTAKGMLPDPKNVH-----IIVSWMIAQTVTAVAGLVSYPFDTVRRRMM 238
Score = 67.7 bits (166), Expect = 2e-13
Identities = 31/178 (17%), Positives = 65/178 (36%), Gaps = 20/178 (11%)
Query: 10 YEEFICGFGAAVINIAVTFPINKIIFRQQLHGV---------GVLKAMSQ-VHAEGIPYL 59
G A ++ +P++ R G+ +++ ++G+ L
Sbjct: 113 AGNLASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGL 172
Query: 60 YRGILPPLLQKSISTSLMFGMYD--KSNLFLLPYLSDHPILMKFTSAMFAGSIEAMLT-P 116
Y+G + I + FG+YD K +LP + I++ + A ++ +++ P
Sbjct: 173 YQGFNVSVQGIIIYRAAYFGVYDTAKG---MLPDPKNVHIIVSWMIAQTVTAVAGLVSYP 229
Query: 117 FE----RLQTLLQDSAYHTQLNNTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVVF 170
F+ R+ T + I K+ G K +++G +LR V
Sbjct: 230 FDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFVL 287
Score = 33.4 bits (77), Expect = 0.068
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 194 FIKDFLIGAVIGAINSSVFFPFNVIKIHMQ 223
F+KDFL G V AI+ + P +K+ +Q
Sbjct: 7 FLKDFLAGGVAAAISKTAVAPIERVKLLLQ 36
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 49.7 bits (118), Expect = 7e-07
Identities = 47/282 (16%), Positives = 85/282 (30%), Gaps = 96/282 (34%)
Query: 24 IAVTFPINKIIFRQQL-HGVGVLKAMSQVHAEGIPYLYRGILPPLLQKSISTSLMFGM-- 80
I ++ P+ I QL H V K + E YL +G + + T++
Sbjct: 234 IPISCPL---IGVIQLAHYVVTAKLLGFTPGELRSYL-KGAT--GHSQGLVTAVAIAETD 287
Query: 81 -----YDKSN-----LFLL--------PYLSDHPILMKFTSAMFAGSIEAMLT----PFE 118
+ LF + P S P +++ + G ML+ E
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 119 RLQTLLQDSAYHTQLNNTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVVFFIA----- 173
++Q + + N+ K + +S L NG N+V ++
Sbjct: 348 QVQDYVN------KTNSHLPAGKQVE-----------IS---LVNGAKNLV--VSGPPQS 385
Query: 174 --------RDEVMIRFPTESNKDR-----MYKVFIKDFLIGAVIGAINSSVFFPFNVIKI 220
R + P+ ++ R F FL + + PF
Sbjct: 386 LYGLNLTLRK---AKAPSGLDQSRIPFSERKLKFSNRFL---PVAS-------PF----- 427
Query: 221 HMQSK-LGGSYDSLWQDQGGQE---EGSGLNV-VTSTGGGTH 257
H S L + D + +D + + V T G+
Sbjct: 428 H--SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Score = 38.1 bits (88), Expect = 0.003
Identities = 53/316 (16%), Positives = 97/316 (30%), Gaps = 102/316 (32%)
Query: 2 ATTSSCKNYEEFICGFGAAVINIAVTFPINKIIFR-QQLHGVGVLKAM----SQVHAEGI 56
+ ++E F F + I V F I R + + L S + EG+
Sbjct: 281 VAIAETDSWESF---FVSVRKAITVLFFIG---VRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 57 P-YLY--RGILPPLLQKSISTSLMFGMYDKSNLFLLP-----YLS-----DHPILMKFTS 103
P + + +Q + +K+N L P +S + ++
Sbjct: 335 PSPMLSISNLTQEQVQDYV---------NKTNSHL-PAGKQVEISLVNGAKNLVV----- 379
Query: 104 AMFAGSIEAMLTPFERLQTLLQDSAYHTQLN--NTPHLVKHIYKEYGMKEYYRGLSPV-- 159
+G +++ L L+ + + L+ P + + K R L PV
Sbjct: 380 ---SGPPQSL----YGLNLTLRKAKAPSGLDQSRIPFSERKL------KFSNRFL-PVAS 425
Query: 160 -----LLRNGPSNVVFFIARDEVMI-----RFP---TESNKD-RMYKVFIKDFLIGAVI- 204
LL + + ++ V + P T D R+ I + ++ +I
Sbjct: 426 PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 205 ------GAINSS-----VFFPFNVIKIHMQSKLGGSYDSLWQDQGGQEEGSGLNVVTSTG 253
F P S LG L ++G+G+ V+
Sbjct: 486 LPVKWETTTQFKATHILDFGPGGA------SGLG----VLTHRN---KDGTGVRVIV--- 529
Query: 254 GGTHPGGGPFDDHLFG 269
GT P DD +G
Sbjct: 530 AGT-LDINPDDD--YG 542
Score = 36.2 bits (83), Expect = 0.012
Identities = 33/213 (15%), Positives = 64/213 (30%), Gaps = 80/213 (37%)
Query: 71 SISTSLMFG---MYDKSNLFL--LPY------LSDHPI-----LMKF-----------TS 103
+ T+ F + ++ F LP D P + KF
Sbjct: 21 LVPTASFFIASQLQEQ---FNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 104 AMFAGSIEAMLTPFERLQTLLQDSAYHT------QLNNTPHL-VKHIYKEY------GMK 150
F + LT FE L+ + H Q N+T + K + K Y +
Sbjct: 78 GQFDQVLNLCLTEFEN--CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKR 135
Query: 151 EYYRGLSPVLLRN---------------GPSNVVFFIARDEVMIRFPTESNKDRMYKVFI 195
+ + + L R G ++ F +E+ + T Y V +
Sbjct: 136 PFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF----EELRDLYQT-------YHVLV 184
Query: 196 KDFLIGA-------VIGAINSSVFFP--FNVIK 219
D + + + +++ F N+++
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILE 217
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.5 bits (86), Expect = 0.005
Identities = 28/147 (19%), Positives = 47/147 (31%), Gaps = 27/147 (18%)
Query: 140 VKHIYKEYGMKEYYRGLSPVLLRNGPSNVVFFIAR------DEVMIRFPTESN-KDRMYK 192
+ HI L LL V F+ +M TE M +
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110
Query: 193 VFI--KDFLIGAVIGAINSSVFFPFNVIKIHMQSKLGGSYDSLWQDQGGQE------EGS 244
++I +D L ++ VF +NV ++ KL +L + + + GS
Sbjct: 111 MYIEQRDRLYN------DNQVFAKYNVSRLQPYLKL---RQALLELRPAKNVLIDGVLGS 161
Query: 245 GLNVVTSTGGGTHPGGGPFDDHLFGVF 271
G V ++ D F +F
Sbjct: 162 GKTWVALDVCLSYKVQCKMD---FKIF 185
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome,
transcription, LSD1, alternative splicing, chromatin
regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens}
SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A*
3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A*
2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A
Length = 662
Score = 32.5 bits (73), Expect = 0.15
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 1/70 (1%)
Query: 86 LFLLPYLSDHPILMKFTSAMFAGSIEAMLTPFERLQTLLQDSAYHTQLNNTPHLVKHIYK 145
LFL L PIL+ + AG +E + + + L + P + +
Sbjct: 520 LFLFWNLYKAPILLALVAGEAAGIMENI-SDDVIVGRCLAILKGIFGSSAVPQPKETVVS 578
Query: 146 EYGMKEYYRG 155
+ + RG
Sbjct: 579 RWRADPWARG 588
>2v9d_A YAGE; dihydrodipicolinic acid synthase, N-acetyl neuraminate lyase,
NAL, lyase, DHDPS, prophage; 2.15A {Escherichia coli}
PDB: 2v8z_A 3nev_A* 3n2x_A*
Length = 343
Score = 31.4 bits (72), Expect = 0.35
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 89 LPYLSDHPILMKFTSAMFAGSIEAMLTPF 117
L + LM SA+F G I + T F
Sbjct: 16 LYFQGQQGDLMP-QSALFTGIIPPVSTIF 43
>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A
C-terminal alpha-helical segment, amino-acid
biosynthesis, cytoplasm; HET: MCL; 2.20A
{Corynebacterium glutamicum}
Length = 304
Score = 30.0 bits (68), Expect = 0.85
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 96 PILMKFTSAMFAGSIEAMLTPF 117
+ K F AM+TPF
Sbjct: 7 GLTAKTGVEHFGTVGVAMVTPF 28
>3a5f_A Dihydrodipicolinate synthase; TIM barrel, enzyme, amino-acid
biosynthesis, cytoplasm, diaminopimelate biosynthesis,
lyase; HET: KPI; 1.19A {Clostridium botulinum A} PDB:
3bi8_A* 3ird_A*
Length = 291
Score = 30.0 bits (68), Expect = 0.87
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 104 AMFAGSIEAMLTPF 117
++F GS A++TPF
Sbjct: 1 SIFKGSGVAIITPF 14
>3daq_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis, amino-ACI
biosynthesis, diaminopimelate biosynthesis, lyase,
schiff B; 1.45A {Staphylococcus aureus} PDB: 3di1_A
3di0_A
Length = 292
Score = 29.8 bits (68), Expect = 1.1
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 103 SAMFAGSIEAMLTPFE 118
+ +F G A+ TPF
Sbjct: 1 THLFEGVGVALTTPFT 16
>3si9_A DHDPS, dihydrodipicolinate synthase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, TIM barrel; 2.10A {Bartonella henselae}
Length = 315
Score = 29.4 bits (67), Expect = 1.3
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 99 MKFTSAMFAGSIEAMLTPF 117
+ +M G++ A++TPF
Sbjct: 16 TQGPGSMLKGAVTALITPF 34
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 29.5 bits (67), Expect = 1.4
Identities = 11/46 (23%), Positives = 13/46 (28%), Gaps = 5/46 (10%)
Query: 230 YDSLWQDQGGQEEGSGLNVVTSTGGGTHPGGGPFDDHLFGVFGNTG 275
YD LWQ + G FDD +FG
Sbjct: 89 YDQLWQHRNDPGFGRQ-----RQTHEQSYSQQDFDDIFSSMFGQQA 129
>3qze_A DHDPS, dihydrodipicolinate synthase; alpha beta barrel,
cytoplasmic; 1.59A {Pseudomonas aeruginosa} PDB: 3puo_A*
3noe_A 3ps7_A* 3s8h_A
Length = 314
Score = 29.4 bits (67), Expect = 1.4
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 80 MYDKSNLFLLPYLSDHPILMKFTSAMFAGSIEAMLTPFER 119
M+ + L + + +M AGS+ A++TPF+
Sbjct: 1 MHHHHHHSSGVDLGTENLYFQ---SMIAGSMVALVTPFDA 37
>2hmc_A AGR_L_411P, dihydrodipicolinate synthase; alpha-beta barrel (TIM
barrel), structural genomics, PSI-2, structure
initiative; HET: MSE; 1.90A {Agrobacterium tumefaciens
str}
Length = 344
Score = 29.2 bits (66), Expect = 1.5
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 102 TSAMFAGSIEAMLTPF 117
T+++F+G I A++TP
Sbjct: 23 TASIFSGVIPALMTPC 38
>1o5k_A DHDPS, dihydrodipicolinate synthase; TM1521, structural genomics, J
protein structure initiative, joint center for
structural G lyase; HET: MCL; 1.80A {Thermotoga
maritima} SCOP: c.1.10.1 PDB: 3pb2_A 3pb0_A
Length = 306
Score = 29.2 bits (66), Expect = 1.6
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 105 MFAGSIEAMLTPFE 118
MF G A++TPF+
Sbjct: 13 MFRGVGTAIVTPFK 26
>2yxg_A DHDPS, dihydrodipicolinate synthase; MJ0244, TIM beta/alpha-barrel
fold, structural genomics, NPPSFA; 2.20A
{Methanocaldococcus jannaschii DSM2661}
Length = 289
Score = 29.0 bits (66), Expect = 1.6
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 105 MFAGSIEAMLTPFE 118
MF G A++TPF+
Sbjct: 1 MFKGVYPAIITPFK 14
>4aey_A D-erythro-7,8-dihydroneopterin triphosphate epime; isomerase,
pteridine biosynthesis; 3.00A {Pseudomonas aeruginosa}
Length = 156
Score = 28.5 bits (64), Expect = 1.6
Identities = 9/48 (18%), Positives = 16/48 (33%), Gaps = 3/48 (6%)
Query: 158 PVLLRNGPSNVVFFIARDEVMIRFPTESNKDRMYKVFIKDFLIGAVIG 205
P L S + + F + M ++ +KD + IG
Sbjct: 12 PNPLLGLDSTENLYFQGIDP---FTMPRLEPGMARIRVKDLRLRTFIG 56
>2rfg_A Dihydrodipicolinate synthase; beta barrel, amino-acid biosynthesis,
diaminopimelate biosyn lyase, lysine biosynthesis,
schiff base; 1.50A {Hahella chejuensis}
Length = 297
Score = 29.0 bits (66), Expect = 1.7
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 105 MFAGSIEAMLTPFE 118
MF GS+ AM+TPF
Sbjct: 1 MFRGSLIAMITPFI 14
>3flu_A DHDPS, dihydrodipicolinate synthase; TIM barrel, beta-alpha-barrel,
amino-acid biosynthesis, diaminopimelate biosynthesis;
2.00A {Neisseria meningitidis serogroup B}
Length = 297
Score = 28.6 bits (65), Expect = 1.9
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 104 AMFAGSIEAMLTPFER 119
M GS+ A++TP +
Sbjct: 6 TMLQGSLVALITPMNQ 21
>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid, amino-acid
biosynthesis, diaminopimelate biosynthesis, lyase,
lysine biosynthesis; HET: MSE; 1.80A {Campylobacter
jejuni} PDB: 3ler_A*
Length = 301
Score = 28.6 bits (65), Expect = 2.1
Identities = 5/17 (29%), Positives = 11/17 (64%)
Query: 102 TSAMFAGSIEAMLTPFE 118
+ G++ A++TPF+
Sbjct: 5 DKNIIIGAMTALITPFK 21
>2r8w_A AGR_C_1641P; APC7498, dihydrodipicolinate synthase, agrobacterium
tumefac C58, structural genomics, PSI-2; HET: MSE; 1.80A
{Agrobacterium tumefaciens str}
Length = 332
Score = 28.7 bits (65), Expect = 2.1
Identities = 4/15 (26%), Positives = 6/15 (40%)
Query: 103 SAMFAGSIEAMLTPF 117
+ F G +TP
Sbjct: 32 ATRFKGLSAFPITPA 46
>3l21_A DHDPS, dihydrodipicolinate synthase; DAPA, dimer, RV2753C, lysine
biosynthesis, amino-acid biosynthesis, diaminopimelate
biosynthesis; HET: KPI CME; 2.10A {Mycobacterium
tuberculosis} PDB: 1xxx_A
Length = 304
Score = 28.5 bits (64), Expect = 2.3
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 102 TSAMFAGSIEAMLTPF 117
+A + AM+TPF
Sbjct: 12 VAARLGTLLTAMVTPF 27
>2ojp_A DHDPS, dihydrodipicolinate synthase; dimer, lysine biosynthe lyase;
HET: KGC GOL; 1.70A {Escherichia coli} PDB: 1yxc_A
1dhp_A 1yxd_A* 2ats_A* 3du0_A* 3c0j_A* 3ubs_A* 4eou_A*
3i7q_A* 3i7r_A* 3i7s_A* 2pur_A* 1s5v_A 1s5w_A 1s5t_A
3den_A* 2a6l_A 2a6n_A 3g0s_A
Length = 292
Score = 28.4 bits (64), Expect = 2.8
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 105 MFAGSIEAMLTPF 117
MF GSI A++TP
Sbjct: 1 MFTGSIVAIVTPM 13
>3fkr_A L-2-keto-3-deoxyarabonate dehydratase; DHDPS/NAL family, complex,
pyruvate, lyase; HET: KPI; 1.80A {Azospirillum
brasilense} PDB: 3fkk_A
Length = 309
Score = 28.2 bits (63), Expect = 3.1
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 99 MKFTSAMFAGSIEAMLTPF 117
++ G + T F
Sbjct: 2 TSSSTPRHRGIFPVVPTTF 20
>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; 1.90A {Aquifex aeolicus}
Length = 294
Score = 28.2 bits (64), Expect = 3.1
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 105 MFAGSIEAMLTPF 117
MF GSI A++TPF
Sbjct: 1 MFQGSIVALITPF 13
>1eyh_A Epsin; superhelix of helices, cell cycle; 1.56A {Rattus norvegicus}
SCOP: a.118.9.1 PDB: 1h0a_A* 1edu_A
Length = 144
Score = 27.6 bits (61), Expect = 3.2
Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 130 HTQLNNTPHLVKHIYKEYGMKEYYRGLSPVLLRNGPSNVVFFIARDEVMIR 180
+LN+ +H+YK + EY L++ G V + ++
Sbjct: 47 WKRLNDHGKNWRHVYKAMTLMEY-------LIKTGSERVSQQCKENMYAVQ 90
>2vc6_A MOSA, dihydrodipicolinate synthase; DHDPS, TIM barrel, schiff base,
lyase; HET: MCL; 1.95A {Sinorhizobium meliloti}
Length = 292
Score = 28.0 bits (63), Expect = 3.2
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 105 MFAGSIEAMLTPFE 118
MF GSI A++TPF
Sbjct: 1 MFEGSITALVTPFA 14
>3d2f_A Heat shock protein homolog SSE1; nucleotide exchange factor,
protein folding, ATP-binding, Ca binding, chaperone,
nucleotide-binding, phosphoprotein; HET: ATP; 2.30A
{Saccharomyces cerevisiae} PDB: 3d2e_A* 3c7n_A* 2qxl_A*
Length = 675
Score = 27.7 bits (62), Expect = 4.9
Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 11/50 (22%)
Query: 227 GGSYD-SLWQDQGGQEEGSGLNVVTSTGGGTHPGGGPFD----DHLFGVF 271
SY S+ + GQ + V T H GG FD +H F
Sbjct: 206 HSSYTCSIMAFKKGQLK------VLGTACDKHFGGRDFDLAITEHFADEF 249
>2wkj_A N-acetylneuraminate lyase; directed evolution, sialic acid
mimetics, aldolase, S base, carbohydrate metabolism,
N-acetylneuraminic acid LYAS; HET: KPI PYR; 1.45A
{Escherichia coli} PDB: 2wnq_A 2xfw_A* 2wpb_A* 2wnz_A*
2ygy_A* 2wo5_A* 2wnn_A* 3lbm_A 3lbc_A 3lcf_A 3lcl_A
3lcg_A 3lch_A 3lci_A 1hl2_A 1fdy_A 1fdz_A 1nal_1 3lcx_A
3lcw_A
Length = 303
Score = 27.4 bits (61), Expect = 6.0
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 102 TSAMFAGSIEAMLTPFER 119
+ G + A+LTPF++
Sbjct: 8 HATNLRGVMAALLTPFDQ 25
>3na8_A Putative dihydrodipicolinate synthetase; lyase; HET: MSE; 1.85A
{Pseudomonas aeruginosa}
Length = 315
Score = 27.1 bits (61), Expect = 6.4
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 103 SAMFAGSIEAMLTPF 117
SA G I +TPF
Sbjct: 22 SASIHGIIGYTITPF 36
>1b37_A Protein (polyamine oxidase); flavin-dependent amine oxidase,
oxidoreductase; HET: NAG FCA MAN FAD; 1.90A {Zea mays}
SCOP: c.3.1.2 d.16.1.5 PDB: 1b5q_A* 1h81_A* 1h82_A*
1h83_A* 1h84_A* 1h86_A* 3kpf_A* 3ku9_A* 3l1r_A*
Length = 472
Score = 27.2 bits (60), Expect = 6.9
Identities = 8/63 (12%), Positives = 21/63 (33%), Gaps = 1/63 (1%)
Query: 93 SDHPILMKFTSAMFAGSIEAMLTPFERLQTLLQDSAYHTQLNNTPHLVKHIYKEYGMKEY 152
D +L+ + + IE + + ++Q + P + + +
Sbjct: 340 PDANVLLVTVTDEESRRIEQ-QSDEQTKAEIMQVLRKMFPGKDVPDATDILVPRWWSDRF 398
Query: 153 YRG 155
Y+G
Sbjct: 399 YKG 401
>3o1k_A Dihydroneopterin aldolase FOLB, putative; structural genomics,
center for structural genomics of infec diseases, csgid;
1.95A {Vibrio cholerae o1 biovar el tor}
Length = 132
Score = 26.4 bits (59), Expect = 7.4
Identities = 9/28 (32%), Positives = 12/28 (42%)
Query: 178 MIRFPTESNKDRMYKVFIKDFLIGAVIG 205
M P + M KVFI+ + IG
Sbjct: 4 MGIRPVNRKRLSMDKVFIEQLEVITTIG 31
>1xky_A Dihydrodipicolinate synthase; TIM barrel, , lysine
biosynthesis;spine, lyase; 1.94A {Bacillus anthracis}
SCOP: c.1.10.1 PDB: 1xl9_A 3hij_A*
Length = 301
Score = 27.1 bits (61), Expect = 7.8
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 104 AMFAGSIEAMLTPF 117
F AM+TPF
Sbjct: 11 IDFGTIATAMVTPF 24
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.139 0.415
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,553,526
Number of extensions: 276138
Number of successful extensions: 676
Number of sequences better than 10.0: 1
Number of HSP's gapped: 661
Number of HSP's successfully gapped: 52
Length of query: 293
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 200
Effective length of database: 4,105,140
Effective search space: 821028000
Effective search space used: 821028000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)