RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5126
(123 letters)
>1ooe_A Dihydropteridine reductase; structural genomics, PSI, protein
structure initiative, southeast collaboratory for
structural genomics; HET: MES; 1.65A {Caenorhabditis
elegans} SCOP: c.2.1.2
Length = 236
Score = 85.0 bits (211), Expect = 9e-22
Identities = 62/112 (55%), Positives = 84/112 (75%)
Query: 1 WVGSIDLNPNDQADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVICVAGGWAGGNA 60
V +IDL+ NDQAD+NI+V+ + W EQE ++L + + L G ++D V CVAGGWAGG+A
Sbjct: 29 TVLNIDLSANDQADSNILVDGNKNWTEQEQSILEQTASSLQGSQVDGVFCVAGGWAGGSA 88
Query: 61 AAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGLVSLPGAKPALEGTPGM 112
++KDFVK+AD+M +QSVWSS +AA +A HLKPGGL+ L GA A+ TP M
Sbjct: 89 SSKDFVKNADLMIKQSVWSSAIAAKLATTHLKPGGLLQLTGAAAAMGPTPSM 140
>1dhr_A Dihydropteridine reductase; oxidoreductase(acting on NADH or
NADPH); HET: NAD; 2.30A {Rattus norvegicus} SCOP:
c.2.1.2 PDB: 1dir_A* 1hdr_A*
Length = 241
Score = 80.4 bits (199), Expect = 6e-20
Identities = 58/112 (51%), Positives = 83/112 (74%)
Query: 1 WVGSIDLNPNDQADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVICVAGGWAGGNA 60
WV SID+ N++A A++IV D++ EQ V AE+ +L K+DA++CVAGGWAGGNA
Sbjct: 33 WVASIDVVENEEASASVIVKMTDSFTEQADQVTAEVGKLLGDQKVDAILCVAGGWAGGNA 92
Query: 61 AAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGLVSLPGAKPALEGTPGM 112
+K K+ D+MW+QS+W+S +++ +A HLK GGL++L GAK AL+GTPGM
Sbjct: 93 KSKSLFKNCDLMWKQSIWTSTISSHLATKHLKEGGLLTLAGAKAALDGTPGM 144
>3orf_A Dihydropteridine reductase; alpha-beta-alpha sandwich, rossmann
fold, oxidoreductase (AC NADH), NADH binding,
oxidoreductase; HET: NAD; 2.16A {Dictyostelium
discoideum}
Length = 251
Score = 73.9 bits (182), Expect = 2e-17
Identities = 40/112 (35%), Positives = 61/112 (54%), Gaps = 4/112 (3%)
Query: 1 WVGSIDLNPNDQADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVICVAGGWAGGNA 60
SID N AD + + D+ E+ +V+ ++ + K+D +C AGGW+GGNA
Sbjct: 48 NTISIDFRENPNADHSFTI--KDSGEEEIKSVIEKINS--KSIKVDTFVCAAGGWSGGNA 103
Query: 61 AAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGLVSLPGAKPALEGTPGM 112
++ +F+KS M +++S+ +A I A L GGL L GA AL T GM
Sbjct: 104 SSDEFLKSVKGMIDMNLYSAFASAHIGAKLLNQGGLFVLTGASAALNRTSGM 155
>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.76A {Homo sapiens}
Length = 196
Score = 31.7 bits (73), Expect = 0.028
Identities = 14/98 (14%), Positives = 29/98 (29%), Gaps = 24/98 (24%)
Query: 4 SIDLNPNDQ-ADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVIC-----VAGGWAG 57
+DL A + D + T + +L G + D ++ G
Sbjct: 60 GVDLLHIFPLEGATFLCPAD--VTDPRT--SQRILEVLPGRRADVILSDMAPNATGFR-- 113
Query: 58 GNAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGG 95
D + + + ++ + L+PGG
Sbjct: 114 ----DLDHDRLISL--------CLTLLSVTPDILQPGG 139
>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock
proteins, 23S ribosomal RNA; HET: SAM; 1.50A
{Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*
Length = 180
Score = 29.7 bits (68), Expect = 0.17
Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 23/97 (23%)
Query: 4 SIDLNPNDQADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVIC-----VAGGWAGG 58
+ DL P D + D + ++ + L + K+ V+ ++G
Sbjct: 52 ACDLLPMDPIVGVDFLQGD--FRDELV--MKALLERVGDSKVQVVMSDMAPNMSGTP--- 104
Query: 59 NAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGG 95
A D ++ + LA + + L PGG
Sbjct: 105 ---AVDIPRAMYL--------VELALEMCRDVLAPGG 130
>3sr3_A Microcin immunity protein MCCF; csgid, structural genomics, MCCF
protein, center for structu genomics of infectious
diseases, immune system; 1.50A {Bacillus anthracis}
PDB: 3gjz_A 3t5m_A* 3u1b_A* 3tyx_A*
Length = 336
Score = 29.6 bits (67), Expect = 0.20
Identities = 4/23 (17%), Positives = 9/23 (39%)
Query: 33 LAELKTILAGDKIDAVICVAGGW 55
EL ++ + ++ GG
Sbjct: 68 AKELNALIRNPNVSCIMSTIGGM 90
>3tla_A MCCF; serine protease, hydrolase; 1.20A {Escherichia coli} PDB:
3tle_A* 3tlg_A 3tlb_A* 3tlc_A* 3tlz_A* 3tly_A
Length = 371
Score = 29.8 bits (67), Expect = 0.20
Identities = 4/23 (17%), Positives = 8/23 (34%)
Query: 33 LAELKTILAGDKIDAVICVAGGW 55
E ++ I ++ GG
Sbjct: 98 AQEFNELVYNPDITCIMSTIGGD 120
>4e5s_A MCCFLIKE protein (BA_5613); structural genomics, center for
structural genomi infectious diseases, csgid, serine
peptidase S66; 1.95A {Bacillus anthracis}
Length = 331
Score = 29.5 bits (67), Expect = 0.23
Identities = 4/23 (17%), Positives = 10/23 (43%)
Query: 33 LAELKTILAGDKIDAVICVAGGW 55
+ +L + A++ GG+
Sbjct: 67 VQDLHEAFRDPNVKAILTTLGGY 89
>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.70A {Plasmodium falciparum}
Length = 201
Score = 28.7 bits (65), Expect = 0.40
Identities = 20/110 (18%), Positives = 33/110 (30%), Gaps = 32/110 (29%)
Query: 4 SIDLNPND--------QAD-----ANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVIC 50
ID D Q + N I N + +V +LK IL KID ++
Sbjct: 53 GIDKKIMDPIPNVYFIQGEIGKDNMNNIKNINYIDNMNNNSVDYKLKEILQDKKIDIILS 112
Query: 51 -----VAGGWAGGNAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGG 95
G D + S ++ ++ ++ GG
Sbjct: 113 DAAVPCIGNK------IDDHLNSCEL--------TLSITHFMEQYINIGG 148
>1zl0_A Hypothetical protein PA5198; structural genomics, PSI, PROT
structure initiative, midwest center for structural
genomic unknown function; HET: TLA PEG; 1.10A
{Pseudomonas aeruginosa} SCOP: c.8.10.1 c.23.16.7 PDB:
1zrs_A 2aum_A 2aun_A
Length = 311
Score = 28.5 bits (64), Expect = 0.46
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 33 LAELKTILAGDKIDAVICVAGGW 55
L +L I AV C+ GG+
Sbjct: 69 LEDLHNAFDMPDITAVWCLRGGY 91
>3fxq_A LYSR type regulator of TSAMBCD; transcriptional regulator, LTTR,
TSAR, WHTH, DNA- transcription, transcription
regulation; 1.85A {Comamonas testosteroni} PDB: 3fxr_A*
3fxu_A* 3fzj_A 3n6t_A 3n6u_A*
Length = 305
Score = 28.4 bits (64), Expect = 0.50
Identities = 6/39 (15%), Positives = 12/39 (30%)
Query: 74 RQSVWSSVLAATIAANHLKPGGLVSLPGAKPALEGTPGM 112
S + + T+ + L S+P T +
Sbjct: 234 AHSDLLTTMPRTLYERNAFKDQLCSIPLQDALPNPTIYV 272
>4eys_A MCCC family protein; MCCF like, serine peptidase, csgid, structural
genomics, NIA national institute of allergy and
infectious diseases; HET: AMP; 1.58A {Streptococcus
pneumoniae} PDB: 4e94_A*
Length = 346
Score = 27.6 bits (61), Expect = 1.1
Identities = 13/72 (18%), Positives = 26/72 (36%), Gaps = 5/72 (6%)
Query: 33 LAELKTILAGDKIDAVICVAGGWAGGNAAAKDFVKSAD---IMWRQSVWSSVLAATIAAN 89
+L + D ID ++C GG ++ D + +Q ++ T+
Sbjct: 62 AEDLIHAFSDDSIDMILCAIGGD--DTYRLLPYLFENDQLQKVIKQKIFLGFSDTTMNHL 119
Query: 90 HLKPGGLVSLPG 101
L G+ + G
Sbjct: 120 MLHKLGIKTFYG 131
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 1.1
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 11/33 (33%)
Query: 74 RQSVWSSVLAATIAANHLKPGGLVSLPGAKPAL 106
+Q++ L A+ LK L + + PAL
Sbjct: 19 KQAL--KKLQAS-----LK---LYA-DDSAPAL 40
>3thr_A Glycine N-methyltransferase; GNMT, folate, methyltransferase
binding, liver cytosol, transferase-transferase
inhibitor C; HET: C2F TAM; 2.00A {Rattus norvegicus}
PDB: 3ths_A* 1xva_A* 1d2c_A 1kia_A* 1nbh_A* 1bhj_A*
2idj_A 2idk_A* 1d2g_A 1d2h_A* 1nbi_A* 1r8x_A 1r8y_A
1r74_A* 2azt_A*
Length = 293
Score = 27.3 bits (60), Expect = 1.5
Identities = 28/101 (27%), Positives = 39/101 (38%), Gaps = 18/101 (17%)
Query: 2 VGSIDLNPN------DQADANIIVNKDDAWLEQETTVLAELKTILAGDKIDAVICVAGGW 55
V S+D + + D W+ +E L K + AGD DAVIC+
Sbjct: 82 VTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICL---- 137
Query: 56 AGGNAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGL 96
GN+ F D QS L A+ ++PGGL
Sbjct: 138 --GNS----FAHLPDSKGDQSEHRLALKN--IASMVRPGGL 170
>3g23_A Peptidase U61, LD-carboxypeptidase A; flavodoxin-like fold,
catalytic triad, merops S66 unassigned peptidases
family; HET: MSE; 1.89A {Novosphingobium
aromaticivorans}
Length = 274
Score = 26.8 bits (59), Expect = 1.9
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 33 LAELKTILAGDKIDAVICVAGGW 55
L+ D +AV V GG+
Sbjct: 57 LSAFLECANDDAFEAVWFVRGGY 79
>3d7l_A LIN1944 protein; APC89317, structural genomics, PS protein
structure initiative, midwest center for structural
genomics, MCSG; 2.06A {Listeria innocua}
Length = 202
Score = 26.5 bits (59), Expect = 2.4
Identities = 7/69 (10%), Positives = 18/69 (26%), Gaps = 1/69 (1%)
Query: 44 KIDAVICVAGGWAGGNAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGLVSLPGAK 103
K+DA++ G + + + + + + L G +L
Sbjct: 58 KVDAIVSATGSATFSPLTELT-PEKNAVTISSKLGGQINLVLLGIDSLNDKGSFTLTTGI 116
Query: 104 PALEGTPGM 112
+
Sbjct: 117 MMEDPIVQG 125
>2xtc_A F-box-like/WD repeat-containing protein TBL1X; transcription;
2.22A {Homo sapiens} PDB: 2xte_A 2xtd_A
Length = 90
Score = 25.1 bits (55), Expect = 4.0
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 79 SSVLAATIAANHLKPGGLVSL 99
S + + I + P L+S+
Sbjct: 32 SHISQSNINGTLVPPAALISI 52
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA
complex; HET: FOU; 2.05A {Escherichia coli}
Length = 217
Score = 24.8 bits (55), Expect = 7.6
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 92 KPGGLVSLPGAKP 104
KP GL+S+PG
Sbjct: 26 KPSGLLSVPGRLE 38
>3mti_A RRNA methylase; SAM-dependent, PSI, MCSG, structural genomics,
midwest cente structural genomics, protein structure
initiative; 1.95A {Streptococcus thermophilus} PDB:
3lby_A*
Length = 185
Score = 24.8 bits (54), Expect = 8.3
Identities = 17/101 (16%), Positives = 34/101 (33%), Gaps = 15/101 (14%)
Query: 1 WVGSIDLNPNDQADANIIVNKDDAWLEQETTVLAELKTI--LAGDKIDAVICVAGGWAGG 58
V + D+ QA D +E +L + + + I A I
Sbjct: 46 KVYAFDVQE--QALGKTSQRLSDLGIENTELILDGHENLDHYVREPIRAAIFNL------ 97
Query: 59 NAAAKDFVKSADIMWRQSVWSSVLAATIAANHLKPGGLVSL 99
++ SAD +++ A + L+ GG +++
Sbjct: 98 -----GYLPSADKSVITKPHTTLEAIEKILDRLEVGGRLAI 133
>1o0l_A Apoptosis regulator BCL-W; helical bundle, binding groove, BH3; NMR
{Homo sapiens} SCOP: f.1.4.1
Length = 188
Score = 24.7 bits (53), Expect = 8.5
Identities = 11/36 (30%), Positives = 13/36 (36%)
Query: 53 GGWAGGNAAAKDFVKSADIMWRQSVWSSVLAATIAA 88
GGWA A D R+ W+SV A
Sbjct: 147 GGWAEFTALYGDGALEEARRLREGNWASVRTVLTGA 182
>3zux_A Transporter, ASBTNM; transport protein, membrane protein; HET: TCH
LDA PTY; 2.20A {Neisseria meningitidis} PDB: 3zuy_A*
Length = 332
Score = 25.1 bits (55), Expect = 8.8
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 79 SSVLAATIAANHLKPGGLVSLPGA 102
+S LAA +AA H +V++PGA
Sbjct: 270 NSGLAAALAAAHFAAAPVVAVPGA 293
>4fzr_A SSFS6; structural genomics, PSI-biology, protein structure initiati
enzyme discovery for natural product biosynthesis,
natPro; 2.40A {Streptomyces SP} PDB: 4g2t_A*
Length = 398
Score = 24.7 bits (54), Expect = 9.2
Identities = 15/90 (16%), Positives = 28/90 (31%), Gaps = 2/90 (2%)
Query: 23 DAWLEQETTVLAELKTILAGDKIDAVICVAGGWAGGNAAAKDFVKSADIMWRQSVWSSVL 82
+ + E + K D V+ G AA + + R + +
Sbjct: 102 RGYGRLVLRMRDEALALAERWKPDLVLTETYSLTGPLVAATLGIPWIEQSIRLASPELIK 161
Query: 83 AATIA--ANHLKPGGLVSLPGAKPALEGTP 110
+A + A L GL P +++ P
Sbjct: 162 SAGVGELAPELAELGLTDFPDPLLSIDVCP 191
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
0.317 0.133 0.415
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,942,453
Number of extensions: 106922
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 323
Number of HSP's successfully gapped: 41
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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: 51 (23.5 bits)