RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2754
(367 letters)
>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 = 53.5 bits (128), Expect = 8e-08
Identities = 37/241 (15%), Positives = 69/241 (28%), Gaps = 91/241 (37%)
Query: 24 GQPDYRVYELNKRLQQRTEESDNLWWDAFATEFFEDDATLTLTFCLEDGPKRYTI----- 78
G Y+ + + + W+ A F+D ++ + + P TI
Sbjct: 1632 GMDLYKTSKAAQDV-----------WNR-ADNHFKDTYGFSILDIVINNPVNLTIHFGGE 1679
Query: 79 -GRTLIPRY----FRSIFDG---------GITE--LYYNLKHPKESFHNTSITLDCDQCT 122
G+ + Y F +I DG I E Y + K T T Q
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT----QPA 1735
Query: 123 MVTHHGKPMLTKVCTEGRLIL----------EFT----------FDDLMRIKSWHFAVRQ 162
+ K + ++G + E+ + L+ + V
Sbjct: 1736 LTL-MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEV------VFY 1788
Query: 163 HR-----ELVPRTIVGMQDPSM----------------LEQLTKNITRQGITNSTL---N 198
R VPR +G + M L+ + + + ++ T + N
Sbjct: 1789 -RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR--TGWLVEIVN 1845
Query: 199 Y 199
Y
Sbjct: 1846 Y 1846
Score = 52.7 bits (126), Expect = 1e-07
Identities = 86/419 (20%), Positives = 122/419 (29%), Gaps = 158/419 (37%)
Query: 23 F-GQPDYRVY--ELNKRLQQRTEESDNLWWDAFATEFFEDDATL--TLTFCLEDGPKRYT 77
F GQ + Y EL R +T + + A L D K +T
Sbjct: 160 FGGQGNTDDYFEEL--RDLYQTYHV-------LVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 78 IGRTLI---------P--RYFRS-------IFDGGITEL--YYNL-----KHPKESFHNT 112
G ++ P Y S I G+ +L Y P E
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCPLI---GVIQLAHYVVTAKLLGFTPGELRSYL 267
Query: 113 SITLDCDQCTMVTHHGKPMLTKVCTEG-----------RLILEFTFDDLMRIKSWHFAVR 161
T H + ++T V R + F VR
Sbjct: 268 K---------GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF---------FIGVR 309
Query: 162 QHRELVPRTIV---GMQD--------PS-ML-------EQLTKNITRQGITNSTL----- 197
+ E P T + ++D PS ML EQ+ + + TNS L
Sbjct: 310 CY-EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK---TNSHLPAGKQ 365
Query: 198 ------NYLRLCVILEPMQELMSRHKAYALSPRDCLKTTLFQKWQRMVAPPGKRESQRPA 251
N + V+ P Q L L TL ++ AP G +S+ P
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYG------------LNLTL----RKAKAPSGLDQSRIPF 409
Query: 252 NKRRKRKGSQSGGAANSAP-------PAPSK--KRSPGPNFSLASQDVMVVGEP--SLMG 300
++ RK K S ++P PA K N S ++D+ + P
Sbjct: 410 SE-RKLKFSNRFLPV-ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI---PVYDTFD 464
Query: 301 GE-----FGDEDERL---ITRL----ENTQYDAGANCLDHDPHFSDSPSWGGGAPDRGP 347
G G ER+ I RL E T + LD P GGA G
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGP---------GGASGLGV 514
>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1;
LIM-interaction-domain (LID), metal binding protein; NMR
{Mus musculus} SCOP: g.39.1.3 g.39.1.3
Length = 114
Score = 47.0 bits (111), Expect = 6e-07
Identities = 33/42 (78%), Positives = 37/42 (88%), Gaps = 1/42 (2%)
Query: 288 QDVMVVGEPSLMGGEFGDEDERLITRLENTQYDAGANCLDHD 329
DVMVVGEP+LMGGEFGDEDERLITRLENTQ+DA N +D +
Sbjct: 74 GDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAA-NGIDDE 114
>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the
N-terminal LIM domain of LMO4...; fusion protein, LMO
proteins, metal binding protein; NMR {Mus musculus}
SCOP: g.39.1.3 g.39.1.3
Length = 122
Score = 43.8 bits (103), Expect = 7e-06
Identities = 32/40 (80%), Positives = 36/40 (90%), Gaps = 1/40 (2%)
Query: 290 VMVVGEPSLMGGEFGDEDERLITRLENTQYDAGANCLDHD 329
VMVVGEP+LMGGEFGDEDERLITRLENTQ+D AN +D +
Sbjct: 84 VMVVGEPTLMGGEFGDEDERLITRLENTQFD-AANGIDDE 122
>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3;
intramolecular (fusion) protein-protein complex, protein
binding/transcription complex; NMR {Mus musculus}
Length = 182
Score = 44.9 bits (106), Expect = 8e-06
Identities = 32/42 (76%), Positives = 34/42 (80%)
Query: 289 DVMVVGEPSLMGGEFGDEDERLITRLENTQYDAGANCLDHDP 330
DVMVVGEP+LMGGEFGDEDERLITRLENTQ+DA D
Sbjct: 6 DVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANGIDDEGG 47
>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding
protein 1; B-tandem zipper, protein binding; 1.30A {Mus
musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB:
2dfy_X 2xjz_I 2xjy_B
Length = 188
Score = 40.4 bits (94), Expect = 3e-04
Identities = 34/58 (58%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 272 APSKKRSPGPNFSLASQDVMVVGEPSLMGGEFGDEDERLITRLENTQYDAGANCLDHD 329
+ DVMVVGEP+LMGGEFGDEDERLITRLENTQ+DA AN +D +
Sbjct: 132 NGHLNSGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDA-ANGIDDE 188
>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 = 36.4 bits (83), Expect = 0.017
Identities = 44/224 (19%), Positives = 82/224 (36%), Gaps = 50/224 (22%)
Query: 47 LWWDAFATEFFEDDATLTLTFCLEDGPKRYTIGRTLIP-RYF-------------RSIFD 92
+W+D ++ L +E PK TI IP Y RSI D
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS---IPSIYLELKVKLENEYALHRSIVD 451
Query: 93 GGITELYYNLKHPKESFHNTSITLDC-DQ--CTMVTHHGKPM-LTKVCTEGRLI-LEFTF 147
+YN+ ++F + + DQ + + HH K + + T R++ L+F F
Sbjct: 452 ------HYNI---PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502
Query: 148 DDLMRIKSWHFAVRQHRELVPRTIVGMQDPSMLEQLTKNITRQGITNSTLNYLRLCVILE 207
+ K +R H + + L+QL + I ++ Y RL +
Sbjct: 503 ---LEQK-----IR-HDSTAWNASGSILN--TLQQLKF--YKPYICDNDPKYERL---VN 546
Query: 208 PMQELMSRHKAYAL-SP-RDCLKTTLFQKWQRMVAPPGKRESQR 249
+ + + + + + S D L+ L + + ++ QR
Sbjct: 547 AILDFLPKIEENLICSKYTDLLRIALMAE-DEAIFEEAHKQVQR 589
Score = 35.6 bits (81), Expect = 0.025
Identities = 30/225 (13%), Positives = 65/225 (28%), Gaps = 62/225 (27%)
Query: 25 QPDYRVYELNKRLQQRTEES----DNLWWDAFATEFFEDDATLTLTFCLEDGPKRYTIGR 80
+ D++++ LN + E L + D + + + R
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL---R 235
Query: 81 TLI--PRYFRS--IFDGGITELYYNLKHPK--ESFHNTSITLDCDQC-TMVTHHGKPMLT 133
L+ Y + N+++ K +F+ C ++T
Sbjct: 236 RLLKSKPYENCLLVLL--------NVQNAKAWNAFNL--------SCKILLT-------- 271
Query: 134 KVCTEGRLILEFTFDDLMRIKSWHFAVRQHRELVPRTIVGMQDPSMLEQLTKNITRQGIT 193
T + + D L + H ++ H + + L K +
Sbjct: 272 ---TRFKQV----TDFLSAATTTHISLDHHSM-------TLTPDEVKSLLLKYL---DCR 314
Query: 194 NSTL-------NYLRLCVILEPMQELMSRHKAYALSPRDCLKTTL 231
L N RL +I E +++ ++ + D L T +
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359
>3ahq_A ERO1-like protein alpha; disulfide bond, PDI, redox, hyperactive
human ERO1, oxidored; HET: FAD; 2.35A {Homo sapiens}
PDB: 3ahr_A*
Length = 465
Score = 29.4 bits (65), Expect = 2.2
Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 1/81 (1%)
Query: 88 RSIFDGGITELYYNLKHPKESFHNTSITLDCDQCTMVTHHGKPMLTKVCTEGRLILEFTF 147
S F G E + + + F N S +DC C GK + T +++
Sbjct: 358 NSFFAGDKKEAHKLKEDFRLHFRNISRIMDCVGCFKCRLWGKLQTQGLGTALKILFSEKL 417
Query: 148 DDLMRIKSWHFAVRQHR-ELV 167
M + R E+V
Sbjct: 418 IANMPESGPSYEFHLTRQEIV 438
>3nq4_A 6,7-dimethyl-8-ribityllumazine synthase; 30MER, icosahedral,
flavodoxin like fold, transferase, DMRL riboflavin
biosynthesis, drug targe; 3.50A {Salmonella
typhimurium} PDB: 3mk3_A
Length = 156
Score = 28.3 bits (64), Expect = 2.4
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A++ LG V +R T +F +Y
Sbjct: 75 AVVALGTV-IRGGTAHF---EY 92
>1c2y_A Protein (lumazine synthase); riboflavin biosynthesis,
transferase; HET: LMZ; 3.30A {Spinacia oleracea} SCOP:
c.16.1.1
Length = 156
Score = 28.3 bits (64), Expect = 2.7
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A++CLG V V+ T ++ D
Sbjct: 74 AIVCLGAV-VKGDTSHY---DA 91
>1hqk_A 6,7-dimethyl-8-ribityllumazine synthase; analysi stability,
vitamin biosynthesis, transferase; 1.60A {Aquifex
aeolicus} SCOP: c.16.1.1 PDB: 1nqu_A* 1nqv_A* 1nqw_A*
1nqx_A*
Length = 154
Score = 28.3 bits (64), Expect = 2.7
Identities = 9/22 (40%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A+I +G + +R TP+F DY
Sbjct: 74 AVIAIGVL-IRGATPHF---DY 91
>1rvv_A Riboflavin synthase; transferase, flavoprotein; HET: INI; 2.40A
{Bacillus subtilis} SCOP: c.16.1.1 PDB: 1zis_A* 1vsw_A
1vsx_A 3jv8_A
Length = 154
Score = 28.3 bits (64), Expect = 2.8
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A+I LG V +R T ++ DY
Sbjct: 74 AIITLGTV-IRGATTHY---DY 91
>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 = 28.0 bits (61), Expect = 3.0
Identities = 7/27 (25%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 207 EPMQELMSRHKAYA--LSPRDCLKTTL 231
+ +++L + K YA +P +K T+
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATM 46
>2c92_A 6,7-dimethyl-8-ribityllumazine synthase; transferase, riboflavin
biosynthesis, inhibitor binding; HET: TP6; 1.6A
{Mycobacterium tuberculosis} PDB: 1w29_A* 1w19_A*
2c94_A* 2c97_A* 2c9b_A* 2c9d_A* 2vi5_A*
Length = 160
Score = 27.9 bits (63), Expect = 3.1
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A++ LG V +R TP+F DY
Sbjct: 75 AVVALGVV-IRGQTPHF---DY 92
>1kz1_A 6,7-dimethyl-8-ribityllumazine synthase; riboflavin biosynthesis,
ligand binding, transferase; 2.00A {Schizosaccharomyces
pombe} SCOP: c.16.1.1 PDB: 2a59_A* 2a58_A* 2a57_A*
1kyv_A* 1kyx_A* 1kyy_A* 1kz9_A 1kz4_A 1kz6_A
Length = 159
Score = 27.9 bits (63), Expect = 3.6
Identities = 6/22 (27%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
A+I +G + ++ T +F +Y
Sbjct: 80 AVIGIGVL-IKGSTMHF---EY 97
>1q25_A CI, cation-independent mannose 6-phosphate receptor, MAN-6-P
receptor, CI-MPR; P-lectin, protein transport,S binding
protein; HET: MAN BMA NAG; 1.80A {Bos taurus} SCOP:
b.64.1.1 b.64.1.1 b.64.1.1 PDB: 1syo_A* 1sz0_A*
Length = 432
Score = 28.3 bits (62), Expect = 4.8
Identities = 11/57 (19%), Positives = 19/57 (33%), Gaps = 7/57 (12%)
Query: 68 CLEDGPKRYTIGRTLIPRYFRSIFDGGITELYYNLKHPKESFHN-----TSITLDCD 119
CL G + + +GR S + + Y + F + +IT C
Sbjct: 197 CLVRGDRAFDVGRPQEGLKLVS--NDRLVLSYVKEGAGQPDFCDGHSPAVTITFVCP 251
>4esu_A Ryanodine receptor 1; phosphorylation, skeletal, metal transport;
1.59A {Oryctolagus cuniculus} PDB: 4ert_A 4ett_A 4etu_A
3rqr_A
Length = 210
Score = 27.8 bits (61), Expect = 4.8
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 1/69 (1%)
Query: 206 LEPMQELMSRHKAYALSP-RDCLKTTLFQKWQRMVAPPGKRESQRPANKRRKRKGSQSGG 264
L P + + K P ++ LK + +W A G+ E R+ + +Q+
Sbjct: 61 LRPYKTFSEKDKEIYRWPIKESLKAMIAWEWTIEKAREGEEERTEKKKTRKISQTAQTYD 120
Query: 265 AANSAPPAP 273
P P
Sbjct: 121 PREGYNPQP 129
>2obx_A DMRL synthase 1, 6,7-dimethyl-8-ribityllumazine synthase 1,
riboflavin S; alpha-beta, transferase; HET: INI; 2.53A
{Mesorhizobium loti}
Length = 157
Score = 27.6 bits (62), Expect = 4.9
Identities = 3/23 (13%), Positives = 7/23 (30%), Gaps = 4/23 (17%)
Query: 6 AALICLGCVGVRRHTPYFGQPDY 28
A++ V V ++
Sbjct: 72 GAVLGTAFV-VNGGIYRH---EF 90
>1di0_A Lumazine synthase; transferase; 2.70A {Brucella abortus} SCOP:
c.16.1.1 PDB: 1t13_A* 1xn1_A
Length = 158
Score = 27.5 bits (62), Expect = 4.9
Identities = 4/23 (17%), Positives = 8/23 (34%), Gaps = 4/23 (17%)
Query: 6 AALICLGCVGVRRHTPYFGQPDY 28
AA++ V + D+
Sbjct: 71 AAIVGAAFV-IDGGIYDH---DF 89
>1c41_A Lumazine synthase; riboflavin biosynthesis, transferase; HET: LMZ;
3.10A {Magnaporthe grisea} SCOP: c.16.1.1
Length = 200
Score = 27.5 bits (61), Expect = 5.8
Identities = 7/22 (31%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
ALI +G + ++ T +F +Y
Sbjct: 113 ALIAIGVL-IKGETMHF---EY 130
>1ejb_A Lumazine synthase; analysis, inhibitor complex, vitamin
biosynthesis transferase; HET: INJ; 1.85A {Saccharomyces
cerevisiae} SCOP: c.16.1.1 PDB: 2jfb_A
Length = 168
Score = 27.2 bits (61), Expect = 6.0
Identities = 5/22 (22%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 7 ALICLGCVGVRRHTPYFGQPDY 28
+I +G + ++ T +F +Y
Sbjct: 83 VVIPIGVL-IKGSTMHF---EY 100
>3s6p_A Capsid protein; coat protein, beta barrel, IG-like domain, IC
virus; 2.50A {Helicoverpa armigera stunt virus}
Length = 575
Score = 27.7 bits (60), Expect = 7.5
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 247 SQRPANKRRKRKGSQSGGAANSAPPAPSKKR-----SPGPNFSLASQDV 290
SQRP N+R R S ++R SP NF+ A+QD+
Sbjct: 8 SQRPHNRRGTRNVRVSANTVTVNGRRNQRRRTGRQVSPPDNFTAAAQDL 56
>1z94_A Conserved hypothetical protein; NESG, CV1439, structural genomics,
PSI structure initiative; 2.10A {Chromobacterium
violaceum} SCOP: d.129.3.5
Length = 147
Score = 26.7 bits (59), Expect = 7.8
Identities = 10/56 (17%), Positives = 15/56 (26%), Gaps = 1/56 (1%)
Query: 48 WWDAFATEFFEDDATLTLTFCLEDGPKRYTIGRTLIP-RYFRSIFDGGITELYYNL 102
+ D F D T+T +I + IP G + L
Sbjct: 82 YTDRFDDAGLPGDMITTITLAPLSCGADLSIVQEGIPDAIPPENCYLGWQQSLKQL 137
>1wny_A Isoleucyl-tRNA synthetase; ligase, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; 1.60A {Thermus thermophilus} PDB: 1wnz_A*
1wk8_A* 1udz_A 1ue0_A
Length = 186
Score = 26.7 bits (60), Expect = 9.5
Identities = 7/20 (35%), Positives = 7/20 (35%), Gaps = 5/20 (25%)
Query: 12 GCVGVRRHT-PYFGQPDYRV 30
G V H P FG D
Sbjct: 117 GIV----HQAPAFGAEDLET 132
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
0.319 0.135 0.423
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,678,833
Number of extensions: 331021
Number of successful extensions: 716
Number of sequences better than 10.0: 1
Number of HSP's gapped: 712
Number of HSP's successfully gapped: 30
Length of query: 367
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 272
Effective length of database: 4,049,298
Effective search space: 1101409056
Effective search space used: 1101409056
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: 58 (26.6 bits)