RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15550
(125 letters)
>2iu1_A EIF5, eukaryotic translation initiation factor 5; MFC, GTP-binding,
phosphorylation, protein biosynthesis, translation
inititation; 1.8A {Homo sapiens}
Length = 208
Score = 100 bits (249), Expect = 1e-27
Identities = 61/97 (62%), Positives = 79/97 (81%)
Query: 6 RFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKK 65
RF H + KAQRYLL+G+E V+A+H+ +L+S +P ILK YD D+LEE+V++ W+EK SKK
Sbjct: 71 RFCHNNKKAQRYLLHGLECVVAMHQAQLISKIPHILKEMYDADLLEEEVIISWSEKASKK 130
Query: 66 YVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESDDD 102
YVSKEL+ EIR +AEPFIKWL+EAEEE S EE D+D
Sbjct: 131 YVSKELAKEIRVKAEPFIKWLKEAEEESSGGEEEDED 167
>2ful_A EIF-5, eukaryotic translation initiation factor 5; atypical heat
motif; 1.50A {Saccharomyces cerevisiae}
Length = 177
Score = 95.5 bits (237), Expect = 3e-26
Identities = 30/93 (32%), Positives = 57/93 (61%)
Query: 10 EDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVSK 69
+ ++ + GIE+ + L + L+ ++P IL Y+ DI+ E+ ++ + K+SKK+V K
Sbjct: 81 VTPEYEKNFMGGIERFLGLEHKDLIPLLPKILVQLYNNDIISEEEIMRFGTKSSKKFVPK 140
Query: 70 ELSAEIRSRAEPFIKWLREAEEEDSDSEESDDD 102
E+S ++R A+PFI WL AE +D + ++ +
Sbjct: 141 EVSKKVRRAAKPFITWLETAESDDDEEDDELER 173
>1paq_A Translation initiation factor EIF-2B epsilon subunit; heat repeat,
AA motif; 2.30A {Saccharomyces cerevisiae} SCOP:
a.118.1.14
Length = 189
Score = 78.1 bits (192), Expect = 2e-19
Identities = 22/93 (23%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 6 RFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKK 65
R ++ + + +E+++ +K ++ L YD DI+EE V+ +W + S
Sbjct: 101 RQAFDEEEYIDLMNIIMEKIVEQSFDKPDLILFSALVSLYDNDIIEEDVIYKWWDNVST- 159
Query: 66 YVSKELSAEIRSRAEPFIKWLREAEEEDSDSEE 98
E++ +++WL+ A+EE S EE
Sbjct: 160 ---DPRYDEVKKLTVKWVEWLQNADEESSSEEE 189
>3jui_A Translation initiation factor EIF-2B subunit EPSI; heat repeat,
guanine nucleotide exchange factor, disease mutation,
leukodystrophy; 2.00A {Homo sapiens}
Length = 182
Score = 76.6 bits (188), Expect = 8e-19
Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 3/88 (3%)
Query: 10 EDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVSK 69
+ L IE L E L + +L FY +IL + +L W + K
Sbjct: 98 KRAADHLEALAAIEDFF-LEHEALGISMAKVLMAFYQLEILAGETILSWFS--QRDTTDK 154
Query: 70 ELSAEIRSRAEPFIKWLREAEEEDSDSE 97
+ + FI+WL+EAEEE S+ +
Sbjct: 155 GQQLRKNQQLQRFIQWLKEAEEESSEDD 182
>3d3m_A Eukaryotic translation initiation factor 4 gamma 2; heat repeat
domain, structural genomics, PSI, protein structure
initiative; 1.90A {Homo sapiens}
Length = 168
Score = 63.2 bits (153), Expect = 9e-14
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 6 RFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKK 65
+F H+ + Q L ++ + M+ FYD +I+EE+ L W E +++
Sbjct: 89 KFLHDHVDLQVSALYALQVHCY-NSNFPKGMLLRFFVHFYDMEIIEEEAFLAWKEDITQE 147
Query: 66 YVSKELSAEIRSRAEPFIKWLREA 89
+ K + + ++ WL A
Sbjct: 148 FPGKGKA---LFQVNQWLTWLETA 168
>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal
region, MA2 domain, W2 domain, EIF4G2, EIF family
translation; HET: MES PG4; 2.00A {Homo sapiens}
Length = 364
Score = 55.0 bits (131), Expect = 4e-10
Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 4/84 (4%)
Query: 6 RFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKK 65
+F H+ + Q L + QV + M+ FYD +I+EE+ L W E +++
Sbjct: 285 KFLHDHVDLQVSALYAL-QVHCYNSNFPKGMLLRFFVHFYDMEIIEEEAFLAWKEDITQE 343
Query: 66 YVSKELSAEIRSRAEPFIKWLREA 89
+ K + + ++ WL A
Sbjct: 344 FPGKGKALF---QVNQWLTWLETA 364
>2bc4_B HLA class II histocompatibility antigen, DM beta chain; MHC class
II, immune system; HET: NDG BMA; 2.27A {Homo sapiens}
PDB: 1hdm_B 1k8i_B*
Length = 211
Score = 30.0 bits (68), Expect = 0.13
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 1/36 (2%)
Query: 83 IKWLREAEEEDSDSEESDDDLPNLGALTFGKVVHAE 118
I W + + S PN G T+ + H
Sbjct: 129 ITWRKNGKLVMPHSSAHKTAQPN-GDWTYQTLSHLA 163
>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 = 29.8 bits (66), Expect = 0.25
Identities = 18/98 (18%), Positives = 32/98 (32%), Gaps = 24/98 (24%)
Query: 17 YLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLE---WAEKTS---------- 63
+ L IE + L +F D+ LE+K+ + W S
Sbjct: 479 HHLKNIEHP---ERMTLFR------MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
Query: 64 -KKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESD 100
K Y+ + + +L + EE S+ +D
Sbjct: 530 YKPYICDN-DPKYERLVNAILDFLPKIEENLICSKYTD 566
>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 = 29.2 bits (65), Expect = 0.32
Identities = 21/93 (22%), Positives = 42/93 (45%), Gaps = 18/93 (19%)
Query: 41 LKLFYD-Y-DILEEKVLLEWAEKTSKKYVSKELSAE-IRSRAEPFIKWLREAEEEDSDSE 97
L+ Y Y ++ + L++++ +T + + L AE + ++ ++WL E+ +
Sbjct: 173 LRDLYQTYHVLVGD--LIKFSAETLSELIRTTLDAEKVFTQGLNILEWL-----ENPSNT 225
Query: 98 ESDDDL-------PNLGALTFGK-VVHAELLDF 122
D L P +G + VV A+LL F
Sbjct: 226 PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF 258
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 0.50
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 20/70 (28%)
Query: 51 EEKVLLEWAEKTSKKY-----VSKELSAEIRSRAEPFI-KWL--------------REAE 90
E + + +W E+ K+ SK + E R +A+ + +W R A+
Sbjct: 83 EPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD 142
Query: 91 EEDSDSEESD 100
+ ++D
Sbjct: 143 KAFYQQPDAD 152
>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat
repeat, translation; 2.24A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14
Length = 339
Score = 27.9 bits (61), Expect = 0.81
Identities = 9/50 (18%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 11 DIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAE 60
D + + L + Q + + E+ +++ YD D+++E W
Sbjct: 285 DEQKELQALYAL-QALVVTLEQPPNLLRMFFDALYDEDVVKEDAFYSWES 333
>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal
nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO
MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G*
3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F*
Length = 288
Score = 26.9 bits (60), Expect = 1.6
Identities = 8/52 (15%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 51 EEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESDDD 102
+ ++ + W + + K + ++ + I + ++ D D +E D D
Sbjct: 211 DFELEISWCSLSETNGLHKFVKGDLL---QEAIDFAQKEINGDDDEDEDDSD 259
>3b43_A Titin; I-SET IG fold, extended poly-IG filament, elastic FIL
structural protein; 3.30A {Oryctolagus cuniculus}
Length = 570
Score = 26.7 bits (59), Expect = 2.1
Identities = 11/48 (22%), Positives = 18/48 (37%)
Query: 70 ELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLPNLGALTFGKVVHA 117
L ++ E I W +E + S N+ +L KV H+
Sbjct: 24 TLQCKVDGTPEIRIAWYKEHTKLRSAPAYKMQFKNNVASLVINKVDHS 71
>3brc_A Conserved protein of unknown function; methanobacterium
thermoautotrophicum, STR genomics, MCSG, PSI-2; 1.60A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 156
Score = 26.1 bits (57), Expect = 3.3
Identities = 16/75 (21%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 10 EDIKA-QRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVS 68
E+++A ++Y+ + V+ + + + +L+ F + + WA+ T V+
Sbjct: 24 EEVEAIRKYIRSARRTVVPNWNAEKVDAINDVLRSFNLREAEHLQFNTNWADLTRMPAVT 83
Query: 69 KELSAEIRSRAEPFI 83
K L A S A+ I
Sbjct: 84 KALMALDISGADLVI 98
>3c5j_A HLA class II histocompatibility antigen, DR alpha; HLA, MHC class
II, glycoprotein, immune response, membrane,
transmembrane, GTP-binding, methylation; HET: NAG; 1.80A
{Homo sapiens} PDB: 1d5x_A* 1d5z_A* 1d6e_A* 1d5m_A
1fyt_A* 1hqr_A 1j8h_A* 1r5i_A 1seb_A 1zgl_A 2seb_A*
1fv1_A* 2ipk_A* 3pdo_A 3pgc_A 3pgd_A 1ymm_A* 1aqd_A
2g9h_A* 1h15_A ...
Length = 181
Score = 25.4 bits (56), Expect = 4.9
Identities = 8/36 (22%), Positives = 13/36 (36%), Gaps = 2/36 (5%)
Query: 83 IKWLREAEEEDSDSEESDDDLPNLGALTFGKVVHAE 118
+ WLR + + E+ LP F K +
Sbjct: 119 VTWLRNGKPVTTGVSET-VFLPR-EDHLFRKFHYLP 152
>3laf_A Deleted in colorectal cancer; netrin-1 receptor, immunoglobulin
superfamily, horseshoe, AP; HET: NAG BMA; 2.40A {Rattus
norvegicus}
Length = 403
Score = 25.6 bits (56), Expect = 5.4
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 80 EPFIKWLREAEEEDSDSEESDDDLPNLGALTFGKVVHAE 118
P IKW ++ ++ LPN G+L ++H+
Sbjct: 51 VPVIKWKKDGLILALGMDDRKQQLPN-GSLLIQNILHSR 88
>2vr9_A Roundabout 1, ROBO; immunoglobulin-like domain, AXON guidance, cell
adhesion, immunoglobulin domain; 3.2A {Drosophila
melanogaster} PDB: 2vra_A*
Length = 217
Score = 25.2 bits (55), Expect = 6.2
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 57 EWAEKTSKKYVSKELSAEIRSRAE----PFIKWLREAEEEDSDSEESDDDLPNLGALTFG 112
E + V K A + + E P I+W ++ E ++ ++S GAL F
Sbjct: 11 RIIEHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFFY 70
Query: 113 KVVH 116
+ +
Sbjct: 71 RTMQ 74
>2rik_A Titin; I-SET IG fold, poly-IG linear array, structural protein;
1.60A {Oryctolagus cuniculus} PDB: 2rjm_A
Length = 284
Score = 25.5 bits (56), Expect = 6.4
Identities = 9/45 (20%), Positives = 13/45 (28%)
Query: 70 ELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLPNLGALTFGKV 114
+ A I W ++ E + N LT KV
Sbjct: 24 TFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKV 68
>4aen_A HLA class II histocompatibility antigen, DR alpha; immune system,
SELF antigen, invariant chain, CLIP; 2.20A {Homo
sapiens}
Length = 207
Score = 25.1 bits (55), Expect = 7.7
Identities = 8/36 (22%), Positives = 13/36 (36%), Gaps = 2/36 (5%)
Query: 83 IKWLREAEEEDSDSEESDDDLPNLGALTFGKVVHAE 118
+ WLR + + E+ LP F K +
Sbjct: 134 VTWLRNGKPVTTGVSET-VFLPR-EDHLFRKFHYLP 167
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
0.316 0.135 0.387
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,963,104
Number of extensions: 108380
Number of successful extensions: 382
Number of sequences better than 10.0: 1
Number of HSP's gapped: 370
Number of HSP's successfully gapped: 51
Length of query: 125
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 43
Effective length of database: 4,412,271
Effective search space: 189727653
Effective search space used: 189727653
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 (21.6 bits)
S2: 51 (23.6 bits)