RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2203
(74 letters)
>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding
protein, RNA splicing, structural GENO joint center for
structural genomics, JCSG; HET: MSE; 1.80A {Mus
musculus} PDB: 1o0p_A 1opi_A
Length = 105
Score = 76.4 bits (188), Expect = 2e-20
Identities = 36/58 (62%), Positives = 52/58 (89%)
Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL 73
VLCL+NMV P+EL D++EYE+I ED+++EC+KYG+V+S+EIPRP++ V+VPGCGK +
Sbjct: 7 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFV 64
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics,
joint center for struc genomics, JCSG, protein
structure initiative, PSI-biology; HET: MSE CIT; 0.95A
{Mus musculus} PDB: 2lq5_A
Length = 114
Score = 73.9 bits (182), Expect = 3e-19
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDV 65
V PL L NM P ++ +I +D+ EECNK+G V + + + +V
Sbjct: 2 VQPLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNV 58
>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif,
RRM, RNA binding domain, ST genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.23A {Homo
sapiens} PDB: 3us5_A 2dny_A
Length = 118
Score = 65.5 bits (160), Expect = 6e-16
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGK 70
V+ L NMV P ++ D D+ ++ EEC K+G V + I + + D K
Sbjct: 22 VMVLRNMVDPKDIDD-----DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVK 73
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 64.3 bits (157), Expect = 2e-15
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 16 VLCLLNMVTPDELKDEDE-YEDICEDIKEECNKYGIVRSLEIPRPIENVDV 65
V+ + NM P + +D+ +I ED++ EC+K+G +R L + +
Sbjct: 17 VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVA 67
>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens}
PDB: 2peh_A
Length = 105
Score = 56.8 bits (137), Expect = 1e-12
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 6/58 (10%)
Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL 73
V+ L NMV E+ + D+ + KEEC KYG V I + L
Sbjct: 10 VVLLRNMVGAGEVDE-----DLEVETKEECEKYGKVGKCVIFEI-PGAPDDEAVRIFL 61
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 38.7 bits (90), Expect = 1e-05
Identities = 10/46 (21%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 18 CLLNMVTPDELKDEDEYEDICEDI-KEECNKYGIVRSLEIPRPIEN 62
L + V+ E+ ++ Y++ E++ E KYG V + + + +
Sbjct: 22 GLRSAVSDVEM--QEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD 65
>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 = 36.8 bits (84), Expect = 2e-04
Identities = 15/81 (18%), Positives = 22/81 (27%), Gaps = 36/81 (44%)
Query: 30 DEDEYEDICEDIKEECN------------------------KYGIVR---------SLEI 56
Y+ + IK E KY + R +L
Sbjct: 87 LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146
Query: 57 PRPIENVDV---PGCGKATLV 74
RP +NV + G GK +
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVA 167
Score = 28.3 bits (62), Expect = 0.19
Identities = 8/48 (16%), Positives = 16/48 (33%), Gaps = 12/48 (25%)
Query: 4 PWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
P +P +L L+ + D + + +KY +V
Sbjct: 382 PPSAHIPT---ILLSLI--------WFDVIKSD-VMVVVNKLHKYSLV 417
>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, alternative
splicing, FBP interacting repressor, RRM, electron
transport; 2.20A {Escherichia coli O157}
Length = 222
Score = 36.0 bits (83), Expect = 3e-04
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEI 56
+V+ L NMV P ++ D+ E ++ EEC K+G V + I
Sbjct: 125 TVMVLRNMVDPKDIDDDLE-----GEVTEECGKFGAVNRVII 161
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 26.6 bits (59), Expect = 0.31
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 30 DEDEYEDICEDIKEECNKYGIVRSLEIPR 58
D E + I + +K+G + + P
Sbjct: 13 GPDRLEKLKNVIHKIFSKFGKITNDFYPE 41
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 27.0 bits (60), Expect = 0.38
Identities = 6/30 (20%), Positives = 12/30 (40%)
Query: 30 DEDEYEDICEDIKEECNKYGIVRSLEIPRP 59
D E + I + +K+G + + P
Sbjct: 27 GPDRLEKLKNVIHKIFSKFGKITNDFYPEE 56
>1wxq_A GTP-binding protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 2.60A
{Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2
Length = 397
Score = 27.2 bits (61), Expect = 0.41
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 38 CEDIKEECN-KYGIVRSLEIPRPIENVDVPG 67
C+++ N + R+ P++ VDV G
Sbjct: 50 CKELGCSPNPQNYEYRNGLALIPVKMVDVAG 80
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 26.8 bits (59), Expect = 0.63
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 19 LLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
LL L + +E+ + KE + G++
Sbjct: 1727 LLAGGEVPGLFEGEEFTALMHACKETAQRNGLI 1759
>1to3_A Putative aldolase YIHT; beta-alpha barrel, structural genomics,
PSI, protein structure initiative; 2.70A {Salmonella
typhimurium} SCOP: c.1.10.1
Length = 304
Score = 26.7 bits (58), Expect = 0.72
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGIVRSLE-IPRPIENVD 64
DE D + ++ ++ E C+ G++ +E + RP D
Sbjct: 133 SDE--DAQQRLNMVKEFNELCHSNGLLSIIEPVVRPPRCGD 171
>3iv3_A Tagatose 1,6-diphosphate aldolase 2; TIM barrel, phosphate binding,
tagatose-bisphosphate aldolas tagatose-1,6-bisphosphate
aldolase; HET: MSE; 1.80A {Streptococcus mutans} PDB:
3mhf_A 3mhg_A 3jrk_A 3kao_A* 3myp_A 3myo_A
Length = 332
Score = 26.4 bits (57), Expect = 0.95
Identities = 10/50 (20%), Positives = 16/50 (32%), Gaps = 1/50 (2%)
Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLE-IPRPIENVD 64
V LL + + + + E I EC I LE + +
Sbjct: 127 VKFLLYYDVDGDPQVNVQKQAYIERIGSECQAEDIPFFLEILTYDETISN 176
>3mcq_A Thiamine-monophosphate kinase; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE PGE PG4 1PE; 1.91A {Methylobacillus
flagellatus}
Length = 319
Score = 26.0 bits (58), Expect = 1.1
Identities = 6/33 (18%), Positives = 10/33 (30%), Gaps = 2/33 (6%)
Query: 18 CLLNMVTPDELKDEDEYEDICEDIKEECNKYGI 50
L + P+ DED ++ I
Sbjct: 83 ATLTIALPE--ADEDWISKFAAGFFACAAQFDI 113
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 25.8 bits (57), Expect = 1.1
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 39 EDIKEECNKYGIVRSLEIPR 58
+K+ C KYG V +EI
Sbjct: 21 TFLKDMCRKYGEVEEVEILL 40
>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 = 6/48 (12%), Positives = 16/48 (33%), Gaps = 12/48 (25%)
Query: 23 VTPDELK---DEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPG 67
+ P + ++ + + E + + +E I N +V
Sbjct: 1812 INPGRVAASFSQEALQYVVERVGKRTGWL-----VE----IVNYNVEN 1850
Score = 25.4 bits (55), Expect = 2.0
Identities = 12/40 (30%), Positives = 15/40 (37%), Gaps = 12/40 (30%)
Query: 3 PPWDRL--VP---PL-------RFSVLCLLNMVTPDELKD 30
P D L +P PL + V L TP EL+
Sbjct: 226 PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS 265
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 25.1 bits (55), Expect = 1.6
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 39 EDIKEECNKYGIVRSLEIPR 58
+DIKE G V ++++ R
Sbjct: 26 DDIKEWLEDKGQVLNIQMRR 45
>2p82_A Cysteine protease ATG4A; autophagy, hydrolase, protein transport,
thiol Pro transport, UBL conjugation pathway, structural
genomics; 2.10A {Homo sapiens} SCOP: d.3.1.22
Length = 355
Score = 25.6 bits (55), Expect = 1.8
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 10/44 (22%)
Query: 4 PWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNK 47
L P + C K+E ++++ C +++E K
Sbjct: 306 NILNLDPSVALGFFC----------KEEKDFDNWCSLVQKEILK 339
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 107
Score = 25.0 bits (55), Expect = 1.9
Identities = 4/20 (20%), Positives = 14/20 (70%)
Query: 39 EDIKEECNKYGIVRSLEIPR 58
+I+E + +G ++++ +P+
Sbjct: 30 REIRELFSTFGELKTVRLPK 49
>1tdp_A Carnobacteriocin B2 immunity protein; four-helix bundle,
antimicrobial protein; NMR {Carnobacterium
maltaromaticum} SCOP: a.29.8.1
Length = 111
Score = 24.8 bits (53), Expect = 2.3
Identities = 5/38 (13%), Positives = 13/38 (34%)
Query: 26 DELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV 63
E+ Y ++ + + Y + IP + +
Sbjct: 39 TASNSENSYIEVISLLSRGISSYYLSHKRIIPSSMLTI 76
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 24.3 bits (53), Expect = 2.7
Identities = 5/29 (17%), Positives = 12/29 (41%)
Query: 30 DEDEYEDICEDIKEECNKYGIVRSLEIPR 58
+ + + + +K G V ++E P
Sbjct: 18 PSAKVPVLKKALTSLFSKAGKVVNMEFPI 46
>2yxz_A Thiamin-monophosphate kinase; alpha/beta structure, transferase;
1.90A {Thermus thermophilus}
Length = 311
Score = 24.8 bits (55), Expect = 2.8
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 18 CLLNMVTPDELKDEDEYEDICEDIKEECNKYGI-------VRSLEI 56
L + P++L +E ++ E + G R +E+
Sbjct: 86 FTLGLFLPEDL-EEGFVLELVRGAAEAAKRLGAFLLGGDTNRGVEV 130
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 24.8 bits (54), Expect = 3.2
Identities = 6/34 (17%), Positives = 16/34 (47%)
Query: 18 CLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
LL +L +EY+ + +++ + G++
Sbjct: 1689 TLLANADIPDLFQGEEYDKLLNNLRNKTRSLGLL 1722
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition
motif, RRM, RNA binding domain, RBD, RNP, structural
genomics; NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 24.1 bits (53), Expect = 3.3
Identities = 3/20 (15%), Positives = 12/20 (60%)
Query: 39 EDIKEECNKYGIVRSLEIPR 58
+ E +++G +R+++ +
Sbjct: 32 AALAREFDRFGSIRTIDHVK 51
>1dar_A EF-G, elongation factor G; ribosomal translocase, translational
GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A
2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A*
1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A*
3izp_E 1zn0_B 1jqs_C 2bcw_C ...
Length = 691
Score = 24.4 bits (54), Expect = 3.9
Identities = 6/33 (18%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 19 LLNM---VTPDELKDEDEYEDICEDIKEECNKY 48
+L M ++L + I E+ ++ +Y
Sbjct: 180 VLRMKAYTYGNDLGTDIREIPIPEEYLDQAREY 212
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 24.4 bits (54), Expect = 4.0
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 26 DELKDEDEYEDICEDIKEECNKY 48
++L E E +I ED + +
Sbjct: 188 NDLGTEIEEIEIPEDHLDRAEEA 210
>1o60_A 2-dehydro-3-deoxyphosphooctonate aldolase; structural genomics,
transferase; 1.80A {Haemophilus influenzae} SCOP:
c.1.10.4 PDB: 3e9a_A
Length = 292
Score = 24.5 bits (54), Expect = 4.0
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGI 50
+ L+ D +CE + K G+
Sbjct: 25 MNVLESRDMAMQVCEAYVKVTEKLGV 50
>3fs2_A 2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid, bruciellla
melitensis, DAHP synthetase I, cytoplasm,
lipopolysaccharide biosynthesis; HET: PG4; 1.85A
{Brucella melitensis}
Length = 298
Score = 24.1 bits (53), Expect = 4.3
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGI 50
P +++ D ++ +KE +K GI
Sbjct: 48 PCQMETRDHAFEMAGRLKEMTDKLGI 73
>3tml_A 2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid, structural
genomics, seattle structural genomics CEN infectious
disease; 1.90A {Burkholderia cenocepacia} PDB: 3t4c_A
Length = 288
Score = 24.1 bits (53), Expect = 4.6
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGI 50
++ E D +KE C K +
Sbjct: 24 TCVVESEQMTIDTAGRLKEICEKLNV 49
>2qkf_A 3-deoxy-D-manno-octulosonic acid 8- phosphate SYN;
manno-octulosonate, synthase, lipopolysaccharide, KDOP,
KDO8 KDO8PS; 1.75A {Neisseria meningitidis serogroup B}
PDB: 3stf_A 3qpy_A 3ste_A 3qpz_A 3qq0_A 3fyo_A* 3qq1_A
3fyp_A* 3stc_A 3stg_A 1phw_A 1g7v_A* 1gg0_A 1phq_A*
1d9e_A 1pl9_A* 1q3n_A* 1x6u_A* 1x8f_A 1g7u_A*
Length = 280
Score = 24.1 bits (53), Expect = 4.8
Identities = 7/26 (26%), Positives = 9/26 (34%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGI 50
+ L+ D C E K GI
Sbjct: 22 INVLESLDSTLQTCAHYVEVTRKLGI 47
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B
2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Length = 1131
Score = 24.4 bits (53), Expect = 4.9
Identities = 6/23 (26%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 15 SVLCLLNMVTPDEL--KDEDEYE 35
S + ++ T D+L ED +
Sbjct: 128 SAIDPISQYTLDKLIEIGEDPKD 150
>2rb9_A HYPE protein; hydrogenase maturation, dimer, enzyme, X- RAY
crystallography, structural genomics, BSGI; 2.00A
{Escherichia coli O157} PDB: 2i6r_A
Length = 334
Score = 24.2 bits (53), Expect = 5.2
Identities = 4/32 (12%), Positives = 10/32 (31%), Gaps = 1/32 (3%)
Query: 19 LLNMVTPDELKDEDEYEDICEDIKEECNKYGI 50
+ + L + + + + E GI
Sbjct: 93 SCGFILEEGL-PMETLKAVVTSMAETARTAGI 123
>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase;
1.90A {Homo sapiens} SCOP: d.3.1.22 PDB: 2d1i_A 2zzp_A
2z0d_A 2z0e_A
Length = 396
Score = 24.1 bits (51), Expect = 5.4
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 28 LKDEDEYEDICEDIKEECNKYGIVRSLEI 56
K ED++ D C+ +K+ G + E+
Sbjct: 326 CKTEDDFNDWCQQVKKLSLLGGALPMFEL 354
>3sz8_A 2-dehydro-3-deoxyphosphooctonate aldolase 2; ssgcid, structural
genomics, seattle structural genomics CEN infectious
disease; 2.05A {Burkholderia pseudomallei} PDB: 3tmq_A*
3und_A*
Length = 285
Score = 24.1 bits (53), Expect = 5.4
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 25 PDELKDEDEYEDICEDIKEECNKYGI 50
+ L+ D D+C + K GI
Sbjct: 27 INVLESLDFTLDVCGEYVAVTRKLGI 52
>2o28_A Glucosamine 6-phosphate N-acetyltransferase; structural genomics,
structural genomics consortium, SGC; HET: 16G COA;
1.80A {Homo sapiens} PDB: 2huz_A* 3cxq_A* 3cxs_A 3cxp_A
Length = 184
Score = 23.8 bits (51), Expect = 5.7
Identities = 7/40 (17%), Positives = 16/40 (40%)
Query: 12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
L +L +T + +++ E +K+ + Y V
Sbjct: 49 LNRGFFKVLGQLTETGVVSPEQFMKSFEHMKKSGDYYVTV 88
>3klr_A Glycine cleavage system H protein; antiparallel beta sheet, beta
sandwich, oxidoreductase; HET: GOL; 0.88A {Bos taurus}
PDB: 2edg_A
Length = 125
Score = 23.7 bits (52), Expect = 6.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 26 DELKDEDEYEDICEDIKE 43
DEL E+ YE + I+E
Sbjct: 108 DELMSEEAYEKYIKSIEE 125
>3vti_C Hydrogenase maturation factor; transferase, carbamoyltransfer,
maturation of [NIFE]-hydroge nitrIle synthesis, iron;
2.56A {Thermoanaerobacter tengcongensis}
Length = 314
Score = 23.7 bits (52), Expect = 6.6
Identities = 3/21 (14%), Positives = 10/21 (47%)
Query: 30 DEDEYEDICEDIKEECNKYGI 50
++ + I + + E + G+
Sbjct: 82 PVEDLKKIVKSMAEAAKEAGV 102
>1hpc_A H protein of the glycine cleavage system; transit peptide; HET:
LPA; 2.00A {Pisum sativum} SCOP: b.84.1.1 PDB: 1dxm_A*
1htp_A*
Length = 131
Score = 23.3 bits (51), Expect = 8.1
Identities = 5/19 (26%), Positives = 7/19 (36%)
Query: 26 DELKDEDEYEDICEDIKEE 44
+ L EY CE+
Sbjct: 112 ESLLGAKEYTKFCEEEDAA 130
>3exm_A Phosphatase SC4828; nucleoside diphosphatase, GDP/UDP'ASE, non-HYD
GDP analogue, lipocalcin fold, metalloprotein,
hydrolase; HET: GP2; 1.65A {Streptomyces coelicolor A3}
PDB: 3cbt_A* 3bxt_A
Length = 237
Score = 23.5 bits (50), Expect = 8.2
Identities = 7/18 (38%), Positives = 9/18 (50%), Gaps = 3/18 (16%)
Query: 22 MVTPD---ELKDEDEYED 36
V PD +DEDE+
Sbjct: 156 SVHPDRTWHWRDEDEFAQ 173
>3v9o_A Dihydroneopterin aldolase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; HET: GUN; 1.45A {Burkholderia thailandensis}
Length = 143
Score = 23.5 bits (51), Expect = 8.4
Identities = 4/49 (8%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 4 PWDRLVP-PLRFSVLCLLNMVTP----DELKDEDEYEDICEDIKEECNK 47
++ + +V + + D+L++ +Y+ + + + + +
Sbjct: 40 EHEKRGEQRVVINVDLFVPLALTTPVEDKLREVVDYDLMKQSVAQCVAR 88
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
0.320 0.144 0.459
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,249,107
Number of extensions: 62885
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 418
Number of HSP's successfully gapped: 56
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
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 (21.7 bits)
S2: 51 (23.7 bits)