RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10850
(173 letters)
>2idr_A Eukaryotic translation initiation factor 4E-1; eukaryotic
initiation factor 4E, EIF4E, translation regulator;
1.85A {Triticum aestivum} PDB: 2idv_A* 2wmc_A*
Length = 177
Score = 150 bits (380), Expect = 5e-47
Identities = 48/135 (35%), Positives = 76/135 (56%), Gaps = 2/135 (1%)
Query: 35 HKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSFIDL 94
H L+ + FW+ ++ + I F +VE FW +Y ++ P++ D
Sbjct: 2 HPLENAWTFWFDNPQGKSRQ--VAWGSTIHPIHTFSTVEDFWGLYNNIHNPSKLNVGADF 59
Query: 95 HLFKVGVKPMWEDEANRNGGKWLIRLRKGIASRCWENLILAMLGEQFMVGDEICGAVISV 154
H FK ++P WED NGGKW I +G + W + +LAM+GEQF GDEICGAV+SV
Sbjct: 60 HCFKNKIEPKWEDPICANGGKWTISCGRGKSDTFWLHTLLAMIGEQFDFGDEICGAVVSV 119
Query: 155 RFQEDHISVWNKTSS 169
R +++ +++W K ++
Sbjct: 120 RQKQERVAIWTKNAA 134
>2jgb_A Eukaryotic translation initiation factor 4E type 2;
phosphorylation, 4EHP, EIF4E, RNA- binding, acetylation,
CAP-binding; HET: MGT; 1.7A {Homo sapiens} PDB: 2jgc_A
Length = 195
Score = 149 bits (378), Expect = 2e-46
Identities = 100/138 (72%), Positives = 115/138 (83%)
Query: 32 PHHHKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSF 91
P H LQY Y FWYSRRTPG+ TS QSY+ N+K I F SVEQFW Y+H+VRP +
Sbjct: 12 PAEHPLQYNYTFWYSRRTPGRPTSSQSYEQNIKQIGTFASVEQFWRFYSHMVRPGDLTGH 71
Query: 92 IDLHLFKVGVKPMWEDEANRNGGKWLIRLRKGIASRCWENLILAMLGEQFMVGDEICGAV 151
D HLFK G+KPMWED+AN+NGGKW+IRLRKG+ASRCWENLILAMLGEQFMVG+EICGAV
Sbjct: 72 SDFHLFKEGIKPMWEDDANKNGGKWIIRLRKGLASRCWENLILAMLGEQFMVGEEICGAV 131
Query: 152 ISVRFQEDHISVWNKTSS 169
+SVRFQED IS+WNKT+S
Sbjct: 132 VSVRFQEDIISIWNKTAS 149
>3hxi_A Eukaryotic translation initiation 4E; protein-mRNA CAP complex,
acetylation, phosphoprotein, protein synthesis
inhibitor; HET: GTG; 1.80A {Schistosoma mansoni} PDB:
3hxg_A*
Length = 189
Score = 140 bits (355), Expect = 4e-43
Identities = 45/147 (30%), Positives = 73/147 (49%), Gaps = 9/147 (6%)
Query: 27 PLTIPPHHHKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPN 86
PL P H LQ + ++ + +D+ L+ + F ++E FW + TH VRP
Sbjct: 2 PLGSPEFPHPLQDSWSYYLFQFRKAL-----DWDECLEKVATFSTIEDFWSVLTHTVRPR 56
Query: 87 EFQSFIDLHLFKVGVKPMWEDEANRNGGKWLIRL-RKGIASRCWENLILAMLGEQFMV-- 143
E DL++FK + P WED N NGG+WLI + + W+ L++ ++G +
Sbjct: 57 EITYGKDLYMFKSDIMPKWEDPKNENGGRWLINVTARQDVDFLWDELLMLLIGSDWDTDE 116
Query: 144 -GDEICGAVISVRFQEDHISVWNKTSS 169
+ICGAV R + +SVW + +
Sbjct: 117 EDRQICGAVFQPRSRGSKLSVWLTSDN 143
>1ipb_A Eukaryotic translation initiation factor 4E; protein biosynthesis,
RNA binding protein; HET: GTA; 2.00A {Homo sapiens}
SCOP: d.86.1.1 PDB: 1ipc_A* 2gpq_A 2v8w_A* 2v8x_A*
2v8y_A* 2w97_A* 3smu_A 3tf2_A 3u7x_A 4dt6_A* 4dum_A*
2w97_B*
Length = 217
Score = 132 bits (333), Expect = 1e-39
Identities = 53/162 (32%), Positives = 84/162 (51%), Gaps = 10/162 (6%)
Query: 13 ESDLKRDDISLEDLPLTIPPHHHKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSV 72
+ + S +++ H LQ ++ W+ + K ++ NL+LI KF +V
Sbjct: 15 PTTEEEKTESNQEVANPEHYIKHPLQNRWALWFFKNDKSK-----TWQANLRLISKFDTV 69
Query: 73 EQFWEIYTHLVRPNEFQSFIDLHLFKVGVKPMWEDEANRNGGKWLIRL----RKGIASRC 128
E FW +Y H+ + D LFK G++PMWEDE N+ GG+WLI L R+ R
Sbjct: 70 EDFWALYNHIQLSSNLMPGCDYSLFKDGIEPMWEDEKNKRGGRWLITLNKQQRRSDLDRF 129
Query: 129 WENLILAMLGEQFM-VGDEICGAVISVRFQEDHISVWNKTSS 169
W +L ++GE F D++CGAV++VR + D I++W
Sbjct: 130 WLETLLCLIGESFDDYSDDVCGAVVNVRAKGDKIAIWTTECE 171
>1l8b_A Eukaryotic translation initiation factor 4E; eukaryotic initiation
factor 4E, EIF4E, CAP, 7-METHYLGPPPG, RNA binding
protein; HET: MGP; 1.80A {Mus musculus} SCOP: d.86.1.1
PDB: 1ej4_A* 1ejh_A* 1ej1_A* 1wkw_A* 3am7_A*
Length = 190
Score = 130 bits (329), Expect = 4e-39
Identities = 52/141 (36%), Positives = 77/141 (54%), Gaps = 10/141 (7%)
Query: 34 HHKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSFID 93
H LQ ++ W+ + K ++ NL+LI KF +VE FW +Y H+ + D
Sbjct: 9 KHPLQNRWALWFFKNDKSK-----TWQANLRLISKFDTVEDFWALYNHIQLSSNLMPGCD 63
Query: 94 LHLFKVGVKPMWEDEANRNGGKWLIRLRK----GIASRCWENLILAMLGEQFM-VGDEIC 148
LFK G++PMWEDE N+ GG+WLI L K R W +L ++GE F D++C
Sbjct: 64 YSLFKDGIEPMWEDEKNKRGGRWLITLNKQQRRSDLDRFWLETLLCLIGESFDDYSDDVC 123
Query: 149 GAVISVRFQEDHISVWNKTSS 169
GAV++VR + D I++W
Sbjct: 124 GAVVNVRAKGDKIAIWTTECE 144
>1ap8_A Translation initiation factor EIF4E; RNA CAP; HET: M7G; NMR
{Saccharomyces cerevisiae} SCOP: d.86.1.1 PDB: 1rf8_A*
Length = 213
Score = 130 bits (328), Expect = 8e-39
Identities = 46/138 (33%), Positives = 73/138 (52%), Gaps = 6/138 (4%)
Query: 35 HKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSFIDL 94
H L ++ WY++ K +S+ D L+ + F +VE+FW I ++ P+E D
Sbjct: 37 HPLNTKWTLWYTKPAVDKS---ESWSDLLRPVTSFQTVEEFWAIIQNIPEPHELPLKSDY 93
Query: 95 HLFKVGVKPMWEDEANRNGGKWLIRLRKGIA--SRCWENLILAMLGEQFMV-GDEICGAV 151
H+F+ V+P WEDEAN GGKW +LR A W +LA++GE +I G V
Sbjct: 94 HVFRNDVRPEWEDEANAKGGKWSFQLRGKGADIDELWLRTLLAVIGETIDEDDSQINGVV 153
Query: 152 ISVRFQEDHISVWNKTSS 169
+S+R + ++W K+
Sbjct: 154 LSIRKGGNKFALWTKSED 171
>3m94_A Translation initiation factor 4E; EIF4E, berkeley structural
genomics center, BSGC; HET: M7M; 2.05A {Ascaris suum}
PDB: 3m93_A*
Length = 189
Score = 129 bits (325), Expect = 1e-38
Identities = 53/141 (37%), Positives = 79/141 (56%), Gaps = 10/141 (7%)
Query: 34 HHKLQYQYWFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSFID 93
H LQ + WY + K ++D LK + F +VE FW +Y H+ + D
Sbjct: 2 RHPLQCHWALWYLKADRSK-----DWEDCLKQVAVFDTVEDFWSLYNHIQAASGLTWGSD 56
Query: 94 LHLFKVGVKPMWEDEANRNGGKWLIRLRK----GIASRCWENLILAMLGEQFM-VGDEIC 148
+LFK G+KPMWEDE N GG+WL+ + K + W L++A++GEQF G+ IC
Sbjct: 57 YYLFKEGIKPMWEDENNVKGGRWLVVVDKQKRAQLLDHYWLELLMAIIGEQFEDNGEYIC 116
Query: 149 GAVISVRFQEDHISVWNKTSS 169
GAV++VR + D +S+W + S
Sbjct: 117 GAVVNVRQKGDKVSLWTRDSL 137
>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 = 36.6 bits (84), Expect = 0.003
Identities = 27/144 (18%), Positives = 47/144 (32%), Gaps = 38/144 (26%)
Query: 5 VLKNV--EFKESDLKRDDI-----SLEDLPLTIPPHHHKLQYQYWFWY-----SRRTPGK 52
VL EF+ L+ +DI L T +L Y ++R K
Sbjct: 83 VLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY---ITARIMAKRPFDK 139
Query: 53 ------VTSVQSYDDNLKLIQKF---GSVEQFWE-------IYTHLVRPNEFQSFIDLHL 96
+V + N +L+ F G+ + ++E Y LV F L
Sbjct: 140 KSNSALFRAVG--EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD--LIKFSAETL 195
Query: 97 FKVGVKPMWEDEANRNG---GKWL 117
++ + ++ G +WL
Sbjct: 196 SELIRTTLDAEKVFTQGLNILEWL 219
Score = 28.5 bits (63), Expect = 1.2
Identities = 11/83 (13%), Positives = 28/83 (33%), Gaps = 24/83 (28%)
Query: 9 VEFKESDLKRDDISLEDLPLTIPPHHHKLQYQYWFWYSRRTP-GKVTSVQSYDDNL--KL 65
+ DL ++++S + IP + T G ++ ++ ++
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYD--------------TFDGSD--LRVLSGSISERI 479
Query: 66 IQKFGSVEQFWEI-----YTHLV 83
+ + WE TH++
Sbjct: 480 VDCIIRLPVKWETTTQFKATHIL 502
>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 = 29.1 bits (64), Expect = 0.83
Identities = 13/112 (11%), Positives = 31/112 (27%), Gaps = 50/112 (44%)
Query: 12 KESDLKRDD----ISLEDLPLTIPPH-------HHKL--QYQ-----------------Y 41
K S +++ IS+ + L + H + Y Y
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 42 WFWYSRRTPGKVTSVQSYDDNLKLIQKFGSVEQFWEIYTHLVRPNEFQSFID 93
++ + + +LK I+ + F ++ F++
Sbjct: 473 FYSHI-----------GH--HLKNIEHPERMTLFRMVFLDF-------RFLE 504
>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 = 26.4 bits (59), Expect = 6.3
Identities = 6/20 (30%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 63 LKLIQKFGSVEQFWEIYTHL 82
KL++++GS+E + +L
Sbjct: 205 RKLLEEWGSLE---ALLKNL 221
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage
T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Length = 290
Score = 26.1 bits (58), Expect = 7.3
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 63 LKLIQKFGSVEQFWEIYTHL 82
+I++FG+V +I L
Sbjct: 217 YNIIREFGNVL---DIIDQL 233
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
0.322 0.137 0.438
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,766,019
Number of extensions: 155132
Number of successful extensions: 356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 15
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
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 (21.9 bits)
S2: 54 (24.7 bits)