RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16096
(154 letters)
>2o8n_A APOA-I binding protein; rossmann fold, protein binding; 2.00A {Mus
musculus} PDB: 2dg2_A
Length = 265
Score = 182 bits (463), Expect = 1e-58
Identities = 75/158 (47%), Positives = 103/158 (65%), Gaps = 5/158 (3%)
Query: 1 MFGYEPEIYYPKPPSKELYVNLLHQCKSLDIPVSESLPAETSV----FHLIVDAIFGFSY 56
+FGY+P IYYPK P+K L+ L+ QC+ +DIP +P E + + L+VDAIFGFS+
Sbjct: 104 LFGYQPTIYYPKRPNKPLFTGLVTQCQKMDIPFLGEMPPEPMMVDELYELVVDAIFGFSF 163
Query: 57 KPPLRELFVPVINLFKSTKIPVVSIDIPSGWNVEHGPVEHKYQPHTLISLTAPKLCAHKF 116
K +RE F ++++ +P+ SIDIPSGW+VE G QP LISLTAPK A F
Sbjct: 164 KGDVREPFHSILSVLSGLTVPIASIDIPSGWDVEKGNPSG-IQPDLLISLTAPKKSATHF 222
Query: 117 EGKHHFLGGRFIPKQLEKEYDLNLPPYKGTDTYVKIDD 154
G++H+LGGRF+P LEK+Y LNLP Y T+ ++
Sbjct: 223 TGRYHYLGGRFVPPALEKKYQLNLPSYPDTECVYRLQH 260
>1jzt_A Hypothetical 27.5 kDa protein in SPX19-GCR2 inter region; yeast
hypothetical protein, structural genomics, selenomethi
PSI; 1.94A {Saccharomyces cerevisiae} SCOP: c.104.1.1
Length = 246
Score = 162 bits (412), Expect = 4e-51
Identities = 59/164 (35%), Positives = 88/164 (53%), Gaps = 12/164 (7%)
Query: 1 MFGYEPEIYYPKPPSK-ELYVNLLHQCKSLDIPVSESLPAET------SVFHLIVDAIFG 53
+FGY P ++YPK + E Y L+HQ +PV IVDAIFG
Sbjct: 83 LFGYNPVVFYPKRSERTEFYKQLVHQLNFFKVPVLSQDEGNWLEYLKPEKTLCIVDAIFG 142
Query: 54 FSYKPPLRELFVPVINLFKSTK--IPVVSIDIPSGWNVEHGPV-EHKYQPHTLISLTAPK 110
FS+KPP+RE F ++ + IP+VS+D+P+GW+V+ GP+ + P L+SLT PK
Sbjct: 143 FSFKPPMREPFKGIVEELCKVQNIIPIVSVDVPTGWDVDKGPISQPSINPAVLVSLTVPK 202
Query: 111 LCAHKF--EGKHHFLGGRFIPKQLEKEYDLNLPPYKGTDTYVKI 152
C+ H++GGRFIP+ ++ Y+ TD +K+
Sbjct: 203 PCSSHIRENQTTHYVGGRFIPRDFANKFGFEPFGYESTDQILKL 246
>3d3j_A Enhancer of mRNA-decapping protein 3; HEDC3, phosphoprotein,
protein binding; 2.80A {Homo sapiens}
Length = 306
Score = 91.5 bits (227), Expect = 4e-23
Identities = 24/156 (15%), Positives = 51/156 (32%), Gaps = 11/156 (7%)
Query: 2 FGYEPEIYYPKPP--SKELYVNLLHQCKSLDIPVSESLPAETSVFHLIVDAIFGFS-YKP 58
+ ++ P + + L K+ VS TS L+++ +
Sbjct: 158 HDVQVILFLPNFVKMLESITNELSLFSKTQGQQVSSLKDLPTSPVDLVINCLDCPENVFL 217
Query: 59 PLRELFVPVINLFKSTKIPVVSIDIPSGWNVEHGPVEHKYQPHTLISLTAPKLCAHKFEG 118
+ + + + PV+SID P + ++L P + G
Sbjct: 218 RDQPWYKAAVAWANQNRAPVLSIDPPVHEVEQG------IDAKWSLALGLPLPLG-EHAG 270
Query: 119 KHHFLGGRFIPKQLEKEYDLNLPPYKGTDTYVKIDD 154
+ + L IP+Q+ +E +N G + +
Sbjct: 271 RIY-LCDIGIPQQVFQEVGINYHSPFGCKFVIPLHS 305
>3d3k_A Enhancer of mRNA-decapping protein 3; HEDC3, phosphoprotein,
protein binding; 2.20A {Homo sapiens}
Length = 259
Score = 88.3 bits (219), Expect = 2e-22
Identities = 24/154 (15%), Positives = 51/154 (33%), Gaps = 11/154 (7%)
Query: 2 FGYEPEIYYPKPP--SKELYVNLLHQCKSLDIPVSESLPAETSVFHLIVDAIFGFS-YKP 58
+ ++ P + + L K+ VS TS L+++ +
Sbjct: 111 HDVQVILFLPNFVKMLESITNELSLFSKTQGQQVSSLKDLPTSPVDLVINCLDCPENVFL 170
Query: 59 PLRELFVPVINLFKSTKIPVVSIDIPSGWNVEHGPVEHKYQPHTLISLTAPKLCAHKFEG 118
+ + + + PV+SID P + ++L P + G
Sbjct: 171 RDQPWYKAAVAWANQNRAPVLSIDPPVHEVEQG------IDAKWSLALGLPLPLG-EHAG 223
Query: 119 KHHFLGGRFIPKQLEKEYDLNLPPYKGTDTYVKI 152
+ + L IP+Q+ +E +N G + +
Sbjct: 224 RIY-LCDIGIPQQVFQEVGINYHSPFGCKFVIPL 256
>3rss_A Putative uncharacterized protein; unknown function,
ADP/ATP-dependent NAD(P)H-hydrate dehydrat lyase; HET:
NAP; 1.95A {Thermotoga maritima} PDB: 3rrb_A* 2ax3_A*
3rre_A* 3rrj_A* 3rs8_A* 3rs9_A* 3rsf_A* 3rsg_A* 3rrf_A*
3rsq_A* 3rt7_A* 3rt9_A* 3rta_A* 3rtb_A* 3rtc_A* 3rtd_A*
3rte_A* 3rtg_A* 3ru2_A* 3ru3_A*
Length = 502
Score = 68.7 bits (169), Expect = 1e-14
Identities = 28/125 (22%), Positives = 48/125 (38%), Gaps = 10/125 (8%)
Query: 3 GYEPEIYYPKPPSKELYVNLLHQCKSLDIPVSESL-PAETSVFHLIVDAIFGFSYKPPLR 61
+ + + K V E P+ + F ++VDAIFG + +
Sbjct: 79 VKDVLVVFLGKKKTPDCEYNYGLYKKFGGKVVEQFEPSILNEFDVVVDAIFGTGLRGEIT 138
Query: 62 ELFVPVINLFKSTKIPVVSIDIPSGWNVEHGPVEHKYQP-----HTLISLTAPKLCAHKF 116
+ +INL + VVS+D+PSG + G V + T ++ PK+ F
Sbjct: 139 GEYAEIINLVNKSGKVVVSVDVPSGIDSNTGKV---LRTAVKADLT-VTFGVPKIGHILF 194
Query: 117 EGKHH 121
G+
Sbjct: 195 PGRDL 199
>3k5w_A Carbohydrate kinase; 11206B,helicobacter pylori,PSI-II, NYSGXRC, ,
structural genomics, protein structure initiative; 2.60A
{Helicobacter pylori}
Length = 475
Score = 56.0 bits (136), Expect = 4e-10
Identities = 18/122 (14%), Positives = 41/122 (33%), Gaps = 5/122 (4%)
Query: 3 GYEPEIYYPKPPSKELYVNLLHQCKSLDIPV---SESLPAETSVFHLIVDAIFGFSYKPP 59
+ ++ K + + K + + E+ + +++D + G +K
Sbjct: 72 RFRVLVFEMKLTKSPMCQLQKERAKKAGVVIKTYEENALNQNLECDVLIDCVIGSHFKGK 131
Query: 60 LRELFVPVINLFKSTKIPVVSIDIPSGWNVEHGPVEHKYQPHTLISLTAPKLCAHKFEGK 119
L ++ DIPSG + + + ++ IS+ A K C K
Sbjct: 132 LEPFLN--FESLSQKARFKIACDIPSGIDSKGRVDKRAFKADLTISMGAIKSCLLSDRAK 189
Query: 120 HH 121
+
Sbjct: 190 DY 191
>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 = 33.7 bits (76), Expect = 0.022
Identities = 32/188 (17%), Positives = 50/188 (26%), Gaps = 65/188 (34%)
Query: 12 KPPSKELYVNLLHQCKSLDIPVSESLPAETSVFHLIVDAIFGFSYKP-PLR--------- 61
K L + K LD + LP E + +I S +
Sbjct: 300 PDEVKSLLL------KYLDCRPQD-LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 62 -------ELFVPVIN------LFKSTKIPVVSIDIPSG-----WN--------------- 88
E + V+ +F + S IP+ W
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 89 ----VEHGPVEHKYQPHTLISLTAPKLCAHKFEGKHHFLGGRFIPK-QLEKEYDLN--LP 141
VE P E ++ KL + E H + + K +D + +P
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKL---ENEYALH---RSIVDHYNIPKTFDSDDLIP 466
Query: 142 PYKGTDTY 149
PY D Y
Sbjct: 467 PY--LDQY 472
>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 = 30.0 bits (67), Expect = 0.33
Identities = 28/161 (17%), Positives = 45/161 (27%), Gaps = 51/161 (31%)
Query: 11 PKPPSKELYVNLLHQCKSLDIPVSESLP------AETSVFHLIVDAIFG--------F-- 54
+KEL N + P + L+ AIFG F
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV--AIFGGQGNTDDYFEE 172
Query: 55 ------SYKPPLRELFVPVINLFKS-TKIPVVS-------IDIPSGW--NVEHGPVEHKY 98
+Y + +L + + + ++I W N + P + Y
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-WLENPSNTP-DKDY 230
Query: 99 -------QPHTLISLTAPKLCAHKFEGKHHFLGGRFIPKQL 132
P LI + AH + LG F P +L
Sbjct: 231 LLSIPISCP--LIGVIQ---LAH-YVVTAKLLG--FTPGEL 263
Score = 25.8 bits (56), Expect = 9.0
Identities = 20/71 (28%), Positives = 24/71 (33%), Gaps = 26/71 (36%)
Query: 27 KSLDIPV-----SESL-PAETSVFHLIVDAIFGFSYKPPLRELFVPV----INLFKSTKI 76
K + IPV L S+ IVD I R PV FK+T I
Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGSISERIVDCII--------RL---PVKWETTTQFKATHI 501
Query: 77 PVVSIDI-PSG 86
+D P G
Sbjct: 502 ----LDFGPGG 508
>3frk_A QDTB; aminotransferase, sugar-modification, natural porduct; HET:
TQP; 2.15A {Thermoanaerobacteriumthermosaccharolyticum}
Length = 373
Score = 28.2 bits (64), Expect = 1.0
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 8 IYYPKPPSK-ELYVNLLHQCKSLDIPVSESLPAE 40
I+YP P + Y +L K+ + P++E + E
Sbjct: 308 IHYPIPIHLQQAYKDLGF--KTGNFPIAEKIANE 339
>3uwc_A Nucleotide-sugar aminotransferase; lipopolysaccharide biosynthesis;
HET: MSE PMP; 1.80A {Coxiella burnetii}
Length = 374
Score = 27.9 bits (63), Expect = 1.2
Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 7 EIYYPKPPSK-ELYVNLLHQCKSLDIPVSESLPAE 40
+I+YP +L + + D P++E
Sbjct: 310 KIHYPIAMHLQPAAKSLGY--QQGDFPMAEKHGEA 342
>2oga_A Transaminase; PLP-dependent enzyme, desosamine, deoxysugars,
antibiotics, hydrolase; HET: PGU; 2.05A {Streptomyces
venezuelae} PDB: 2oge_A*
Length = 399
Score = 27.9 bits (63), Expect = 1.3
Identities = 7/35 (20%), Positives = 11/35 (31%), Gaps = 3/35 (8%)
Query: 7 EIYYPKPPSK-ELYVNLLHQCKSLDIPVSESLPAE 40
+YP P Y +P +ES +
Sbjct: 335 LTHYPVPVHLSPAYAGEAP--PEGSLPRAESFARQ 367
>3lyd_A Uncharacterized protein; PSI-2, MCSG, GEBA, genomic encyclopae
bacteria and archaea, structural genomics, protein
structur initiative; HET: MSE; 1.45A {Jonesia
denitrificans}
Length = 161
Score = 25.3 bits (54), Expect = 9.1
Identities = 3/18 (16%), Positives = 7/18 (38%)
Query: 76 IPVVSIDIPSGWNVEHGP 93
+ ++ IP W +
Sbjct: 17 LTGFTVPIPETWQPDPTM 34
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 0.142 0.444
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,486,649
Number of extensions: 135211
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 17
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
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: 53 (24.0 bits)