RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy434
(307 letters)
>2x6u_A T-box transcription factor TBX5; developmental protein,
DNA-binding, HOLT-ORAM-syndrome, IG-fold, nuclear
protein, repressor; HET: PE4; 1.90A {Homo sapiens} PDB:
2x6v_A*
Length = 203
Score = 163 bits (412), Expect = 1e-49
Identities = 78/136 (57%), Positives = 96/136 (70%), Gaps = 2/136 (1%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMH 190
+ W V GKA+P P R++VHPDSPA+GA W +Q+VSF KLKLTNN LD GHIILNSMH
Sbjct: 70 DNKWSVTGKAEPAMPGRLYVHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMH 129
Query: 191 KYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGFR 250
KYQPR H+V + S + F T +FPET F AVT+YQNH+ITQLKI +NPFAKGFR
Sbjct: 130 KYQPRLHIVKADENNGFGSKNTAFCTHVFPETAFIAVTSYQNHKITQLKIENNPFAKGFR 189
Query: 251 ECEPDDCSAETLNQMQ 266
+ + ++MQ
Sbjct: 190 GSDDMELHRM--SRMQ 203
>1h6f_A T-box transcription factor TBX3; transcription factor, TBX3, T-box
transcription factor; 1.7A {Homo sapiens} SCOP: b.2.5.4
Length = 193
Score = 154 bits (390), Expect = 1e-46
Identities = 76/121 (62%), Positives = 92/121 (76%), Gaps = 2/121 (1%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMH 190
+S W+VAGKADP P R+++HPDSPA+G QW +VV+F KLKLTNN D +G ILNSMH
Sbjct: 69 NSRWMVAGKADPEMPKRMYIHPDSPATGEQWMSKVVTFHKLKLTNNISDKHGFTILNSMH 128
Query: 191 KYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGFR 250
KYQPRFH+V + S F+T+LFPET F AVTAYQN +ITQLKI +NPFAKGFR
Sbjct: 129 KYQPRFHIVRANDILKLPY--STFRTYLFPETEFIAVTAYQNDKITQLKIDNNPFAKGFR 186
Query: 251 E 251
+
Sbjct: 187 D 187
>4a04_A T-box transcription factor TBX1; transcription, T-box proteins;
HET: DNA; 2.58A {Homo sapiens}
Length = 203
Score = 150 bits (380), Expect = 7e-45
Identities = 93/122 (76%), Positives = 103/122 (84%), Gaps = 1/122 (0%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMH 190
SSSW+VAGKADP +P R+H HPDSPA GAQW KQ+VSFDKLKLTNN LDDNGHIILNSMH
Sbjct: 82 SSSWLVAGKADPATPGRVHYHPDSPAKGAQWMKQIVSFDKLKLTNNLLDDNGHIILNSMH 141
Query: 191 KYQPRFHVV-LLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGF 249
+YQPRFHVV + + + A FKTF+F ET FTAVTAYQNHRITQLKIASNPFAKGF
Sbjct: 142 RYQPRFHVVYVDPRKDSEKYAEENFKTFVFEETRFTAVTAYQNHRITQLKIASNPFAKGF 201
Query: 250 RE 251
R+
Sbjct: 202 RD 203
>1xbr_A Protein (T protein); complex (transcription factor/DNA),
transcription factor, DNA-binding protein,
transcription/DNA complex; HET: DNA; 2.50A {Xenopus
laevis} SCOP: b.2.5.4
Length = 184
Score = 144 bits (363), Expect = 1e-42
Identities = 58/125 (46%), Positives = 74/125 (59%), Gaps = 7/125 (5%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMH 190
+ WV GK +P +P +++HPDSP GA W K VSF K+KLTN + G I+LNS+H
Sbjct: 66 NGEWVPGGKPEPQAPSCVYIHPDSPNFGAHWMKDPVSFSKVKLTNKM-NGGGQIMLNSLH 124
Query: 191 KYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGFR 250
KY+PR H+V + + FPET F AVTAYQN IT LKI NPFAK F
Sbjct: 125 KYEPRIHIVRVGGTQR------MITSHSFPETQFIAVTAYQNEEITALKIKHNPFAKAFL 178
Query: 251 ECEPD 255
+ +
Sbjct: 179 DAKER 183
>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 = 45.2 bits (106), Expect = 2e-05
Identities = 55/333 (16%), Positives = 103/333 (30%), Gaps = 90/333 (27%)
Query: 4 AERMATESRRLDPLGAPSTGGSCSSNLSLSTDHSSSSVLP---LPLHQQIPATRFAWSGF 60
+ TE R P L ++ + V + Q R A
Sbjct: 95 MSPIKTEQR--QPSMMTRMYIEQRDRL-----YNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 61 YPQRIMFVLGM-GC---FLDLSSYSSL-------YQTFWGGGLS-KPCDVHTKLYCTNKI 108
P + + + G+ G ++ L S ++ FW L+ K C+ +
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW---LNLKNCN------SPETV 198
Query: 109 VQINYKLQNYKLPDIYFLLFLFSSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSF 168
+++ LQ LL+ +W ++D S ++ +H ++
Sbjct: 199 LEM---LQK--------LLYQIDPNWTS--RSDHSSNIKLRIH--------SIQAELRRL 237
Query: 169 DKLKLTNNQLDDNGHIILNSMHKYQPRFHVVLLSPESNSASATSPF----KTFLFPETMF 224
K K N L ++L +V +A A + F K L T F
Sbjct: 238 LKSKPYENCL-----LVLL---------NV-------QNAKAWNAFNLSCKILL--TTRF 274
Query: 225 TAVTAYQNHRITQLKIASNPFAKGFRECEPDDCSAETLNQMQLSSPSDSQPLSP----TI 280
VT + + T I+ + + E + L+ P + +P I
Sbjct: 275 KQVTDFLSAATTT-HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 281 KRNINNNCP-----QYVNKEDLSKSRGK-LQNL 307
+I + ++VN + L+ L L
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Score = 37.5 bits (86), Expect = 0.006
Identities = 35/229 (15%), Positives = 61/229 (26%), Gaps = 71/229 (31%)
Query: 73 CFLDLSSY-------SSLYQTFWGGGLSKPCDVHTKLYCTNKIVQINYKLQNYKLPDIYF 125
F LS + + L W + V +V+ K +P IY
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 126 LLFLFSSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHII 185
L K + +H + +V + T D+ +I
Sbjct: 434 EL-----------KVKLENEYALH-------------RSIVDHYNIPKT----FDSDDLI 465
Query: 186 LNSMHKYQPRF---HVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIAS 242
+ +Y H L + + LF + + R + KI
Sbjct: 466 PPYLDQYFYSHIGHH---LKNIEHPE------RMTLFRMV-------FLDFRFLEQKIRH 509
Query: 243 NPFAKGFRECEPDDCSAETLNQMQLSSPSDSQPLSPTIKRNINNNCPQY 291
+ A + TL Q++ K I +N P+Y
Sbjct: 510 DSTAWNASGSILN-----TLQQLKF------------YKPYICDNDPKY 541
>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 = 38.5 bits (89), Expect = 0.003
Identities = 53/316 (16%), Positives = 83/316 (26%), Gaps = 146/316 (46%)
Query: 70 GMGCFLDLSSYSSLYQTF------WGGGLSKPCDVHTKLYCTNKIVQINYKLQNYKLPDI 123
GMG +DL Y+T W D H K Y
Sbjct: 1630 GMG--MDL------YKTSKAAQDVW-----NRADNHFK--------------DTYG---- 1658
Query: 124 YFLLFLFSSSWVVAGKADPISPPRIHVHP-----------------DSPASGAQWSKQV- 165
FS +V +P + +H ++ G ++++
Sbjct: 1659 ------FSILDIVIN-----NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF 1707
Query: 166 ---------VSF----DKLKLTNN-Q-------------LDDNGHIILNSMHKYQPRF-- 196
+F L T Q L G I ++ F
Sbjct: 1708 KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADAT------FAG 1761
Query: 197 HVVLLSPES---NSA-SATS---PFKTF---LFP--ETMFTAVTAYQNHRITQLKIASNP 244
H S +A ++ + ++ +F TM AV + R IA NP
Sbjct: 1762 H-------SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP 1814
Query: 245 --FAKGFRECEPDDCSAETLNQM-QLSSPSDSQPLSPTIKRNINNNCP--QYV---NKED 296
A F S E L + + + +N N QYV +
Sbjct: 1815 GRVAASF--------SQEALQYVVERVGKRTGWLVEI-----VNYNVENQQYVAAGDLRA 1861
Query: 297 LSK-----SRGKLQNL 307
L + KLQ +
Sbjct: 1862 LDTVTNVLNFIKLQKI 1877
Score = 33.9 bits (77), Expect = 0.084
Identities = 31/210 (14%), Positives = 65/210 (30%), Gaps = 79/210 (37%)
Query: 125 FLLFLFSSSWV-VAG-KADPISPPRIHVHPDSPASGAQW----------SKQVVSFDKLK 172
+ LF ++ V +A P + + DS + +++ V D +
Sbjct: 299 AITVLF---FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV-QDYVN 354
Query: 173 LTNNQLDDNGHI---ILNSMHKYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTA 229
TN+ L + ++N + VV + P P++++
Sbjct: 355 KTNSHLPAGKQVEISLVNG-----AKNLVV-----------SGP------PQSLYGLNLT 392
Query: 230 YQN---------HRI--TQLKIA--------SNPF---------AKGFRECEPDDCSAET 261
+ RI ++ K+ ++PF ++ ++ S
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS--- 449
Query: 262 LNQMQLSSP-------SDSQPLSPTIKRNI 284
N + P SD + LS +I I
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVLSGSISERI 479
>3ldh_A Lactate dehydrogenase; oxidoreductase, CHOH donor, NAD acceptor;
HET: NAD; 3.00A {Squalus acanthias} SCOP: i.12.1.1
Length = 330
Score = 31.1 bits (71), Expect = 0.40
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
+ W SG R ++G GC LD S+ ++ + + VH+
Sbjct: 145 NKQDWKLSGLPMHR---IIGSGCNLD----SARFRYL----MGERLGVHSC 184
>4aj2_A L-lactate dehydrogenase A chain; oxidoreductase-inhibitor complex,
fragment-based LEAD genera inhibitors; HET: 52C; 1.75A
{Rattus norvegicus} PDB: 4aj1_A* 4aje_A* 4ajh_A* 4aji_A*
4ajj_A* 4ajk_A* 4ajl_A* 4ajn_A* 4ajo_A* 4al4_A* 4aj4_A*
4ajp_A* 1i10_A* 3h3f_A* 9ldt_A* 9ldb_A* 1t2f_A* 1i0z_A*
5ldh_A* 1ldm_A* ...
Length = 331
Score = 30.9 bits (71), Expect = 0.51
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T AW SGF R V+G GC LD S+ ++ + + VH
Sbjct: 143 TYVAWKISGFPKNR---VIGSGCNLD----SARFRYL----MGERLGVHPL 182
>2i6t_A Ubiquitin-conjugating enzyme E2-like isoform A; L-lactate
dehydrogenase, oxidoreductase, ubiquitin-protein L
unknown function; 2.10A {Homo sapiens} PDB: 3dl2_A
Length = 303
Score = 30.6 bits (70), Expect = 0.56
Identities = 14/51 (27%), Positives = 18/51 (35%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T W S F R V+G+GC LD S Q ++ T
Sbjct: 132 TYVTWKLSTFPANR---VIGIGCNLD----SQRLQYI----ITNVLKAQTS 171
>2xxj_A L-LDH, L-lactate dehydrogenase; oxidoreductase, hyperthermophIle;
HET: NAD; 1.964A {Thermus thermophilus} PDB: 2xxb_A*
3zzn_A* 2v7p_A* 2e37_A* 2v6m_A* 2xxe_A 4a73_A
Length = 310
Score = 30.2 bits (69), Expect = 0.71
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T+ A+ SG P R V+G G LD ++ ++ L++ V +
Sbjct: 123 TQVAYALSGLPPGR---VVGSGTILD----TARFRAL----LAEYLRVAPQ 162
>1hyh_A L-hicdh, L-2-hydroxyisocaproate dehydrogenase;
L-2-hydroxycarboxylate dehydrogenase, L-lactate
dehydrogenas oxidoreductase (CHOH(D)-NAD+(A)); HET: NAD;
2.20A {Weissella confusa} SCOP: c.2.1.5 d.162.1.1
Length = 309
Score = 29.8 bits (68), Expect = 0.93
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T +GF + V+G G LD ++ Q + + D+ +
Sbjct: 129 TALFQHVTGFPAHK---VIGTGTLLD----TARMQRA----VGEAFDLDPR 168
>2zqz_A L-LDH, L-lactate dehydrogenase; oxidoreductase, rossmann fold,
cytoplasm, glycolysis, NAD, phosphoprotein; 2.50A
{Lactobacillus casei} PDB: 2zqy_A 3vkv_A* 1llc_A*
Length = 326
Score = 29.8 bits (68), Expect = 1.0
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T W SGF R V+G G LD ++ ++ +++ +V +
Sbjct: 132 TYATWKLSGFPKNR---VVGSGTSLD----TARFRQS----IAEMVNVDAR 171
>3pqe_A L-LDH, L-lactate dehydrogenase; FBP, oxidoreductase; 2.20A
{Bacillus subtilis} PDB: 3pqf_A* 3pqd_A*
Length = 326
Score = 29.8 bits (68), Expect = 1.1
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T W SG +R V+G G LD S+ ++ LS+ +
Sbjct: 129 TYATWKFSGLPKER---VIGSGTTLD----SARFRFM----LSEYFGAAPQ 168
>1lld_A L-lactate dehydrogenase; oxidoreductase(CHOH (D)-NAD (A)); HET:
NAD; 2.00A {Bifidobacterium longum subsp} SCOP: c.2.1.5
d.162.1.1 PDB: 1lth_T*
Length = 319
Score = 29.8 bits (68), Expect = 1.1
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T A +G + + G G LD S+ + +++ V+ K
Sbjct: 131 THVAQKLTGLPENQ---IFGSGTNLD----SARLRFL----IAQQTGVNVK 170
>3d0o_A L-LDH 1, L-lactate dehydrogenase 1; cytoplasm, glycolysis, NAD,
oxidoreductase, phosphoprotein; 1.80A {Staphylococcus
aureus} PDB: 3d4p_A* 3h3j_A*
Length = 317
Score = 29.8 bits (68), Expect = 1.1
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
W SG +R V+G G LD S+ ++ LS+ DV +
Sbjct: 130 AYATWKFSGLPKER---VIGSGTILD----SARFRLL----LSEAFDVAPR 169
>1a5z_A L-lactate dehydrogenase; oxidoreductase, glycolysis,
hyperthermophiles, thermotoga MA protein stability; HET:
FBP NAD; 2.10A {Thermotoga maritima} SCOP: c.2.1.5
d.162.1.1
Length = 319
Score = 29.4 bits (67), Expect = 1.2
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T F SG P++ V G G LD ++ +T +++ C +
Sbjct: 123 TYFFLKESGMDPRK---VFGSGTVLD----TARLRTL----IAQHCGFSPR 162
>1ez4_A Lactate dehydrogenase; rossmann fold, oxidoreductase; HET: NAD;
2.30A {Lactobacillus pentosus} SCOP: c.2.1.5 d.162.1.1
Length = 318
Score = 29.4 bits (67), Expect = 1.3
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T W SGF +R V+G G LD SS + L K +V +
Sbjct: 128 TYATWKFSGFPKER---VIGSGTSLD----SSRLRVA----LGKQFNVDPR 167
>1ldn_A L-lactate dehydrogenase; oxidoreductase(CHOH(D)-NAD(A)); HET: FBP
NAD; 2.50A {Geobacillus stearothermophilus} SCOP:
c.2.1.5 d.162.1.1 PDB: 1ldb_A 2ldb_A*
Length = 316
Score = 29.4 bits (67), Expect = 1.3
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T W SG +R V+G G LD ++ ++ L + V +
Sbjct: 130 TYATWKFSGLPHER---VIGSGTILD----TARFRFL----LGEYFSVAPQ 169
>1o6z_A MDH, malate dehydrogenase; halophilic, ION-binding, protein-solvent
interaction, oxidoreductase; HET: NAD; 1.95A {Haloarcula
marismortui} SCOP: c.2.1.5 d.162.1.1 PDB: 1gt2_A*
2x0r_A* 2j5k_A 2j5q_A 2j5r_A 1d3a_A 1hlp_A* 2hlp_A
Length = 303
Score = 29.4 bits (67), Expect = 1.6
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
R + ++ V+G G LD S+ ++ LS+ D +
Sbjct: 126 NRHLYEAGDRSREQ---VIGFGGRLD----SARFRYV----LSEEFDAPVQ 165
>1y6j_A L-lactate dehydrogenase; southeast collaboratory for structural
genomics, secsg, protein struc initiative, PSI,
oxidoreductase; 3.01A {Clostridium thermocellum} SCOP:
c.2.1.5 d.162.1.1
Length = 318
Score = 29.0 bits (66), Expect = 2.0
Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 13/51 (25%)
Query: 53 TRFAW--SGFYPQRIMFVLGMGCFLDLSSYSSLYQTFWGGGLSKPCDVHTK 101
T SG + V+G G LD S ++ LS+ V K
Sbjct: 130 TYMIQKWSGLPVGK---VIGSGTVLD----SIRFRYL----LSEKLGVDVK 169
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
0.318 0.131 0.401
Gapped
Lambda K H
0.267 0.0826 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,419,460
Number of extensions: 236668
Number of successful extensions: 498
Number of sequences better than 10.0: 1
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 24
Length of query: 307
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 214
Effective length of database: 4,105,140
Effective search space: 878499960
Effective search space used: 878499960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.6 bits)