RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8521
(75 letters)
>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure,
leucine zipper, PIG, acetylation; NMR {Sus scrofa}
SCOP: h.1.12.1
Length = 78
Score = 70.6 bits (172), Expect = 3e-18
Identities = 31/52 (59%), Positives = 42/52 (80%)
Query: 19 DLVKSHLMFAVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLP 70
DLVK+HLM+AVREEVE+LKE+I EL+E+ +QLE EN++LK A+ E L +
Sbjct: 3 DLVKNHLMYAVREEVEILKEQIRELVEKNSQLERENTLLKTLASPEQLEKFQ 54
>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 2.40A {Homo
sapiens}
Length = 53
Score = 28.9 bits (64), Expect = 0.029
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 19 DLVKSHLMFAVRE--EVEVLKEKIAELMERINQLEMENSILKANATQ 63
D +K HL A E E+E+L+ ++AE+ E+ + EN LKA Q
Sbjct: 5 DFLKHHLGAATPENPEIELLRLELAEMKEKYEAIVEENKKLKAKLAQ 51
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 28.2 bits (63), Expect = 0.19
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 26 MFAVREEVEVLKEKIAEL---MERINQLEMENSILKA 59
+ E + LKE++ EL + L+ EN LK
Sbjct: 21 LKNTYTENQHLKERLEELAQLESEVADLKKENKDLKE 57
>2jov_A Hypothetical protein CPE0013; alpha + beta sandwich, structural
genomics, PSI-2, protein structure initiative; NMR
{Clostridium perfringens} SCOP: d.349.1.1
Length = 85
Score = 27.4 bits (61), Expect = 0.22
Identities = 5/35 (14%), Positives = 13/35 (37%)
Query: 22 KSHLMFAVREEVEVLKEKIAELMERINQLEMENSI 56
K + + V+ V K + +++L +
Sbjct: 16 KKYNVVPVKSNKPVEISKWIDFSNVLSRLYVGVPT 50
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 27.6 bits (62), Expect = 0.31
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKA--NATQETLGQLPHP 72
E V+ L K E+++RI +LE E LK + L + HP
Sbjct: 69 EPVDELLAKSREIVKRIGELENEVEELKKKIDYYLWRLPNITHP 112
>1hwt_C Protein (heme activator protein); transcription factor,
asymmetry, GAL4, complex activator/DNA, gene
regulation/DNA complex; HET: DNA; 2.50A {Saccharomyces
cerevisiae} SCOP: g.38.1.1 h.1.3.1 PDB: 2hap_C* 1qp9_A*
1pyc_A
Length = 81
Score = 26.4 bits (58), Expect = 0.43
Identities = 6/26 (23%), Positives = 14/26 (53%)
Query: 35 VLKEKIAELMERINQLEMENSILKAN 60
+ ++ +L ER+ LE S + ++
Sbjct: 55 LKDNELKKLRERVKSLEKTLSKVHSS 80
>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus
thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A*
1set_A* 1sry_A
Length = 421
Score = 27.1 bits (61), Expect = 0.51
Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKA--NATQETLGQLPHP 72
A EE E L + L E +LE +A A + P P
Sbjct: 61 APPEEKEALIARGKALGEEAKRLEEALREKEARLEALLLQVPLPPWP 107
>1flk_A TNF receptor associated factor 3; TNF signaling, TRAF3,
CD40-binding protein, apoptosis; 2.80A {Homo sapiens}
SCOP: b.8.1.1 h.1.2.1 PDB: 1fll_A
Length = 228
Score = 27.0 bits (59), Expect = 0.53
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKA 59
EE + +K + L R+ +LE +
Sbjct: 4 WEEADSMKSSVESLQNRVTELESVDKSAGQ 33
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 26.6 bits (59), Expect = 0.62
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 26 MFAVREEVEVLKEKIAELMERINQLEMENSILKA 59
+ ++ L+ KI +L +I++ E L
Sbjct: 916 VERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLE 949
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 26.1 bits (58), Expect = 1.0
Identities = 8/45 (17%), Positives = 17/45 (37%), Gaps = 5/45 (11%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLPHP 72
++R +++++ L + QLE + L HP
Sbjct: 120 SLRARGREIRKQLTLLYPKEAQLEEQ-----FYLRALRLPNQTHP 159
>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA,
protein-DNA complex, transcription factor, BZIP, C/EBP;
1.80A {Homo sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A
1h88_A 1h8a_A 1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B
1nwq_A
Length = 78
Score = 25.2 bits (55), Expect = 1.1
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQ 63
AVR+ + K + E ++ +L EN L+ Q
Sbjct: 26 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQ 61
>1j1d_B Troponin T, TNT; THIN filament, muscle regulation, Ca2+ binding
protein, EF- hand, coiled-coil, contractIle protein;
2.61A {Homo sapiens} SCOP: h.1.25.1 PDB: 1j1e_B
Length = 106
Score = 25.7 bits (56), Expect = 1.2
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 33 VEVLKEKIAELMERINQLEME 53
+ L+EK EL + I LE E
Sbjct: 44 EDQLREKAKELWQTIYNLEAE 64
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 26.0 bits (58), Expect = 1.3
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 22 KSHLMFAVREEVEVLKEKI-AELMERINQLEMENSILKA 59
+H + E +E + ++I EL ER+ E +L A
Sbjct: 241 ATH--YLSPEGLEEILKEIEKELWERVRYFEERGEVLYA 277
>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 = 25.8 bits (56), Expect = 1.3
Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 16/60 (26%)
Query: 28 AVREEVEVLKEKIAELMERIN------Q---------LEMENSILKANATQE-TLGQLPH 71
A++ VE + ++ L+E +N Q L+ ++L Q+ + +L
Sbjct: 1825 ALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQK 1884
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 25.0 bits (55), Expect = 1.4
Identities = 5/22 (22%), Positives = 13/22 (59%)
Query: 30 REEVEVLKEKIAELMERINQLE 51
E ++L+++ +L ++ QL
Sbjct: 65 ISEEDLLRKRREQLKHKLEQLG 86
Score = 23.1 bits (50), Expect = 8.6
Identities = 4/29 (13%), Positives = 11/29 (37%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKA 59
+ ++ + +L+ + L LK
Sbjct: 52 AYILSVQAEEQKLISEEDLLRKRREQLKH 80
>3ljc_A ATP-dependent protease LA; LON N-domain, allosteric enzyme,
ATP-binding, DNA-binding, H nucleotide-binding, serine
protease, stress respo; 2.60A {Escherichia coli}
Length = 252
Score = 25.5 bits (57), Expect = 1.5
Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 9/49 (18%)
Query: 17 LSDLVKSHLMFAVREEVEVLK--------EKIAELMER-INQLEMENSI 56
L+D + +H+ + ++ VL+ E + +ME I+ L++E I
Sbjct: 172 LADTIAAHMPLKLADKQSVLEMSDVNERLEYLMAMMESEIDLLQVEKRI 220
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA,
protein-DNA complex; HET: DNA; 3.0A {Homo sapiens}
SCOP: h.1.3.1
Length = 87
Score = 24.9 bits (54), Expect = 1.6
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQ 63
AVR+ + K + E ++ +L EN L+ Q
Sbjct: 26 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQ 61
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1
d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C
1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C*
1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C
1y77_C* ...
Length = 318
Score = 25.7 bits (55), Expect = 1.6
Identities = 5/36 (13%), Positives = 17/36 (47%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQ 63
V ++ L++K+A ++ + Q++ + +
Sbjct: 243 VVVRGIDTLQKKVASILLALTQMDQDKVNFASGDNN 278
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 25.5 bits (56), Expect = 1.6
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKA--NATQETLGQLPHP 72
+V +K+ + E I + + E L+A +G L HP
Sbjct: 98 LKVSQIKKVRLLIDEAILKCDAERIKLEAERFENLREIGNLLHP 141
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural
genomics, NPPSFA, nationa on protein structural and
functional analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 25.2 bits (56), Expect = 2.3
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 28 AVREEVEVLKEKIAELMERINQLEME 53
++ V+ LKE+I L E + ++E E
Sbjct: 72 EIQNRVKELKEEIDRLEEELRKVEEE 97
>2wd5_A Structural maintenance of chromosomes protein 1A; DNA damage, cell
cycle, cell division; 2.70A {Mus musculus}
Length = 233
Score = 25.0 bits (55), Expect = 2.3
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 21 VKSHLMFAVREEVEVLKEKIAELMERINQLEME 53
+K+ + V+ LKEK L E + +
Sbjct: 199 LKAKARRWDEKAVDKLKEKKGRLTEELLEHHHH 231
>2vz4_A Tipal, HTH-type transcriptional activator TIPA; transcription,
resistance, antibiotic; 2.90A {Streptomyces lividans}
Length = 108
Score = 24.9 bits (55), Expect = 2.4
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 11 RLADLGLS-DLVKSHLMFAVREEVEVLKEKIAELMERINQLE 51
+LG D V + L + L+ + L RI +L+
Sbjct: 53 FYRELGFPLDEVAALLDDPAADPRAHLRRQHELLSARIGKLQ 94
>1zme_C Proline utilization transcription activator; complex
(transcription regulation/DNA), PUT3, Zn2Cys6,
binuclear cluster; HET: DNA 5IU; 2.50A {Saccharomyces
cerevisiae} SCOP: g.38.1.1 h.1.3.1 PDB: 1ajy_A
Length = 70
Score = 24.3 bits (53), Expect = 2.4
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 35 VLKEKIAELMERINQLEMENSILKA 59
V + + +L + +N EN+ LKA
Sbjct: 41 VSTKYLQQLQKDLNDKTEENNRLKA 65
>1gk7_A Vimentin; intermediate filament, heptad repeat; 1.4A {Homo
sapiens} SCOP: h.1.20.1 PDB: 3g1e_A
Length = 39
Score = 23.5 bits (51), Expect = 2.5
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKA 59
+ E++ L ++ A ++++ LE +N IL A
Sbjct: 5 KVELQELNDRFANYIDKVRFLEQQNKILLA 34
>1ytz_T Troponin T; muscle, THIN filament, actin binding, calcium,
contractIle protein; HET: DR6; 3.00A {Gallus gallus}
SCOP: h.1.25.1 PDB: 1yv0_T 2w49_1 2w4u_1
Length = 107
Score = 24.9 bits (54), Expect = 2.5
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 33 VEVLKEKIAELMERINQLEME 53
+ L++K EL + + QL+ E
Sbjct: 44 EDKLRDKAKELWDWLYQLQTE 64
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 24.9 bits (55), Expect = 3.0
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 39 KIAELMERINQLEMENSILKANATQE 64
+ L ERI LE L+A + Q
Sbjct: 349 NLPRLEERIAALEKLVQKLEALSEQH 374
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 23.9 bits (52), Expect = 3.5
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILK 58
A+ E + L++K L ER + L E LK
Sbjct: 27 ALTGECKELEKKNEALKERADSLAKEIQYLK 57
>2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural
genomics, PSI-2, protein structure initiative; NMR
{Shigella flexneri}
Length = 108
Score = 24.3 bits (52), Expect = 3.7
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 38 EKIAELMERINQLEMENSILK 58
+++ E +L N IL+
Sbjct: 71 QRLKEPERENRELRRSNDILR 91
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex,
transcription/DNA complex; 2.20A {Homo sapiens} SCOP:
h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 23.5 bits (51), Expect = 4.3
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 37 KEKIAELMERINQLEMENSILKANATQ 63
E+IA L E++ L+ +NS L + A
Sbjct: 21 LERIARLEEKVKTLKAQNSELASTANM 47
>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA),
exonuclease, transferase, transferase/DNA complex; HET:
US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1
PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A*
2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A*
Length = 605
Score = 24.4 bits (54), Expect = 4.3
Identities = 9/27 (33%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 25 LMFAVRE-EVEVLKEKIAELMERINQL 50
L+F V + +V+ + ++I +LME +L
Sbjct: 561 LVFEVHKDDVDAVAKQIHQLMENCTRL 587
>1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex,
MERR-family transcription activator, MU binding protein;
HET: P4P; 2.40A {Bacillus subtilis} SCOP: a.6.1.3
d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3q5p_A* 3d71_A*
3q3d_A* 3q1m_A* 3q2y_A* 3q5r_A* 3q5s_A* 3d70_A 3d6z_A*
3d6y_A* 1bow_A 2bow_A*
Length = 278
Score = 24.4 bits (53), Expect = 4.5
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 11 RLADLGLS-DLVKSHLMFAVREEVEVLKEKIAELMERINQLE-MENSI 56
L +G + +K + E E+ ++ E+++ L +E +I
Sbjct: 58 SLKYIGTPLEEMKKAQDLEMEELFAFYTEQERQIREKLDFLSALEQTI 105
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus}
Length = 171
Score = 24.1 bits (53), Expect = 4.6
Identities = 6/34 (17%), Positives = 9/34 (26%)
Query: 36 LKEKIAELMERINQLEMENSILKANATQETLGQL 69
L + + E E LK+ L
Sbjct: 30 LPKTVERFFEEWKDQRKEIERLKSVIADLWADIL 63
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 24.3 bits (52), Expect = 4.9
Identities = 6/40 (15%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 29 VREEVEVLKEKIAELMERINQLEMENSI----LKANATQE 64
+ +E E +++ E +R+ +L+ + + + A ++
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKD 119
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding
motif, platform for RNA polymer assembly, transferase;
1.76A {Sulfolobus solfataricus} PDB: 2pmz_D 3hkz_D
2waq_D 2wb1_D 2y0s_D
Length = 265
Score = 24.1 bits (51), Expect = 4.9
Identities = 5/23 (21%), Positives = 13/23 (56%)
Query: 28 AVREEVEVLKEKIAELMERINQL 50
+ E + + KI EL +++ ++
Sbjct: 241 ILLEAGKSIIRKIEELEKKLVEV 263
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 24.3 bits (53), Expect = 5.4
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 5/45 (11%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLPHP 72
+ + VE L+ ++ +L + + + A + P P
Sbjct: 177 DMLKRVEPLRNELQKLEDDAKDNQQK-----LEALLLQVPLPPWP 216
>4adz_A CSOR; transcription, copper sensor; 1.70A {Streptomyces lividans}
Length = 136
Score = 23.8 bits (51), Expect = 5.6
Identities = 7/41 (17%), Positives = 16/41 (39%)
Query: 10 DRLADLGLSDLVKSHLMFAVREEVEVLKEKIAELMERINQL 50
A L + ++ + A + + K+ E + I +L
Sbjct: 93 QSFALQLLEEHLRHCVADAALKGGTEIDAKVEEATKAIGRL 133
>1w6t_A Enolase; bacterial infection, surface protein, moonlighting
protein, glycolysis, phosphopyruvate hydratase, lyase;
HET: 2PE; 2.10A {Streptococcus pneumoniae} SCOP:
c.1.11.1 d.54.1.1 PDB: 1iyx_A
Length = 444
Score = 24.0 bits (53), Expect = 5.7
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 5 SLSRSDRLA 13
SLSR+DR+A
Sbjct: 407 SLSRTDRIA 415
>2fym_A Enolase; RNA degradosome, enolase, lyase; 1.60A {Escherichia coli}
SCOP: c.1.11.1 d.54.1.1 PDB: 1e9i_A 3h8a_A
Length = 431
Score = 24.0 bits (53), Expect = 5.8
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 5 SLSRSDRLA 13
S+SRSDR+A
Sbjct: 395 SMSRSDRVA 403
>3msx_B RHO GTPase-activating protein 20; protein-proten complex,
transition state, protein BI; HET: GDP; 1.65A {Homo
sapiens}
Length = 201
Score = 23.7 bits (52), Expect = 6.0
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 47 INQLEMENSILKANATQETLGQLPHPN 73
++ ++ N K N Q L QLP N
Sbjct: 105 VSVMDQGNDEEKINTVQRLLDQLPRAN 131
>3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex,
thymine-adenine, CLOS conformation; HET: DNA 2DT D3T;
1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A*
3px6_A* 3thv_A* 3ti0_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A*
3hp6_A* 2hhw_A* 3ez5_A* 2hvh_A* 2hvi_A* 3eyz_A* 1nk4_A*
1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* ...
Length = 592
Score = 24.1 bits (53), Expect = 6.1
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 25 LMFAVRE-EVEVLKEKIAELMERINQL 50
L+ + E+E L + E+ME+ L
Sbjct: 548 LILEAPKEEMERLCRLVPEVMEQAVTL 574
>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 = 24.0 bits (51), Expect = 6.2
Identities = 7/56 (12%), Positives = 18/56 (32%), Gaps = 1/56 (1%)
Query: 19 DLVKSHLMFAVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLPHPNS 74
D + ++ + V ++ + + + +M SIL + S
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS-KDAVS 62
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure,
structural genomics, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: a.4.1.19
Length = 97
Score = 23.5 bits (51), Expect = 6.3
Identities = 3/32 (9%), Positives = 6/32 (18%)
Query: 27 FAVREEVEVLKEKIAELMERINQLEMENSILK 58
E+I +L +
Sbjct: 55 GTTPSAAVSEAEQIRQLKKENALQRARTRHPA 86
>3tqp_A Enolase; energy metabolism, lyase; 2.20A {Coxiella burnetii}
Length = 428
Score = 23.6 bits (52), Expect = 6.7
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 5 SLSRSDRLA 13
SL RSDR+A
Sbjct: 391 SLCRSDRVA 399
>4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA
complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus}
PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A*
3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3t3f_A* 4df4_A*
4df8_A* 4dfj_A* 3rrh_A* 4dfm_A* 4dfp_A* 1ktq_A* 5ktq_A*
...
Length = 540
Score = 23.7 bits (52), Expect = 6.8
Identities = 6/27 (22%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 25 LMFAVRE-EVEVLKEKIAELMERINQL 50
L+ + E + E+ME + L
Sbjct: 495 LVLEAPKERAEAVARLAKEVMEGVYPL 521
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA,
BHLHZ, heterodimer, transcription/DNA complex; 1.80A
{Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A
1nlw_B
Length = 83
Score = 23.1 bits (50), Expect = 7.0
Identities = 5/22 (22%), Positives = 14/22 (63%)
Query: 30 REEVEVLKEKIAELMERINQLE 51
+++++ LK + A L +++ L
Sbjct: 60 QQDIDDLKRQNALLEQQVRALG 81
>3uj2_A Enolase 1; enzyme function initiative, EFI, lyase; 2.00A
{Anaerostipes caccae}
Length = 449
Score = 23.7 bits (52), Expect = 7.2
Identities = 5/9 (55%), Positives = 8/9 (88%)
Query: 5 SLSRSDRLA 13
+ SRS+R+A
Sbjct: 417 APSRSERVA 425
>1ddz_A Carbonic anhydrase; alpha-beta-alpha, lyase; 2.20A {Porphyridium
purpureum} SCOP: c.53.2.1 c.53.2.1
Length = 496
Score = 23.7 bits (51), Expect = 8.3
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMEN 54
VR + +I + + +N+L N
Sbjct: 411 DVRRHNQAELSRITDPKDSLNRLIEIN 437
>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Mus musculus} SCOP: a.7.14.1
Length = 93
Score = 23.3 bits (50), Expect = 8.3
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 24 HLMFAVREEV-----EVLKEKIAELMERINQL 50
L+ ++ VL+ KI+ M+R +
Sbjct: 44 MLLQVLKGTKESSKRCVLRTKISGYMDRAENI 75
>2pa6_A Enolase; glycolysis, lyase, magnesium, metal-binding, structural
GENO NPPSFA; 1.85A {Methanocaldococcus jannaschii}
Length = 427
Score = 23.6 bits (52), Expect = 8.4
Identities = 3/9 (33%), Positives = 6/9 (66%)
Query: 5 SLSRSDRLA 13
+ +R +R A
Sbjct: 393 APARGERTA 401
>3qn3_A Enolase; structural genomics, center for structural genomics of
infec diseases, csgid, glycolysis, lyase; 2.13A
{Campylobacter jejuni}
Length = 417
Score = 23.6 bits (52), Expect = 8.5
Identities = 4/9 (44%), Positives = 7/9 (77%)
Query: 5 SLSRSDRLA 13
+L+R +R A
Sbjct: 389 ALARGERTA 397
>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation;
HET: PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A
{Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1
d.67.2.1 PDB: 1bs2_A* 1f7v_A*
Length = 607
Score = 23.4 bits (51), Expect = 8.7
Identities = 5/46 (10%), Positives = 21/46 (45%)
Query: 9 SDRLADLGLSDLVKSHLMFAVREEVEVLKEKIAELMERINQLEMEN 54
+L L +++ + V++++ I++ + +I+ ++
Sbjct: 8 ISQLKKLSIAEPAVAKDSHPDVNIVDLMRNYISQELSKISGVDSSL 53
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition,
helix-coil dynamics, inhibitor design, complex
(polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP:
a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A*
1taq_A*
Length = 832
Score = 23.7 bits (52), Expect = 8.8
Identities = 6/27 (22%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 25 LMFAVRE-EVEVLKEKIAELMERINQL 50
L+ + E + E+ME + L
Sbjct: 787 LVLEAPKERAEAVARLAKEVMEGVYPL 813
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 23.5 bits (51), Expect = 8.9
Identities = 8/54 (14%), Positives = 18/54 (33%)
Query: 17 LSDLVKSHLMFAVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLP 70
++ +VK LM +R+ K + + S A + + +
Sbjct: 224 IAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIE 277
>1bb1_A Designed, thermostable heterotrimeric coiled coil; de novo
protein design; 1.80A {Synthetic construct} SCOP:
k.7.1.1 PDB: 1bb1_C 1u0i_B
Length = 36
Score = 22.4 bits (47), Expect = 8.9
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 28 AVREEVEVLKEKIAELMERI 47
A++EE+ +K+KIA + E I
Sbjct: 13 AIKEEIAAIKDKIAAIKEYI 32
>1r8d_A Transcription activator MTAN; protein-DNA complex,
transcription/DNA complex; 2.70A {Bacillus subtilis}
SCOP: a.6.1.3 PDB: 1jbg_A
Length = 109
Score = 23.3 bits (51), Expect = 8.9
Identities = 7/42 (16%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 11 RLADLGLS-DLVKSHLMFAVREEVEVLKEKIAELMERINQLE 51
++G D +K L + L+ + LM++ +++
Sbjct: 54 FFKEIGFRLDEIKEMLDHPNFDRKAALQSQKEILMKKKQRMD 95
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 23.7 bits (52), Expect = 9.0
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 22 KSHLMFAVREEVEVLKEKI-AELMERINQLEMENSILKA 59
SH + E++E + I EL E++ + +L+A
Sbjct: 246 ASHFV-TRAEKMEKAIQNIEKELEEQLKVMHENGKLLEA 283
>3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; 2.60A {Bacillus subtilis}
Length = 209
Score = 23.2 bits (51), Expect = 9.6
Identities = 11/46 (23%), Positives = 28/46 (60%), Gaps = 6/46 (13%)
Query: 17 LSDLVKSHLMFAVREEVEVLKEKIAELMERIN----QLEMENSILK 58
++D+V SHL ++++ ++L + A++ +R+N + E +L+
Sbjct: 163 MADIVASHLPLKLKDKQDIL--ETADVKDRLNKVIDFINNEKEVLE 206
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 23.1 bits (50), Expect = 9.8
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 34 EVLKEKIAELMERINQLE 51
EK+AE+ I +L+
Sbjct: 82 RRTLEKVAEIERHIEELQ 99
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
0.312 0.126 0.334
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,062,902
Number of extensions: 51631
Number of successful extensions: 314
Number of sequences better than 10.0: 1
Number of HSP's gapped: 311
Number of HSP's successfully gapped: 95
Length of query: 75
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 31
Effective length of database: 5,473,269
Effective search space: 169671339
Effective search space used: 169671339
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.3 bits)