RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2575
(165 letters)
>3ecs_A Translation initiation factor EIF-2B subunit alpha; eukaryotic
translation initiation factor 2balpha (EIF2balpha);
2.65A {Homo sapiens}
Length = 315
Score = 129 bits (325), Expect = 3e-37
Identities = 29/112 (25%), Positives = 58/112 (51%), Gaps = 1/112 (0%)
Query: 44 QACEHIHSNEIILTLGYSKIVELFLKNAA-QHRKFQCIVMENSPENKGHELAVSLAKSKI 102
I ILT YS++V L+ A ++F V E+ P+ G ++A +L +
Sbjct: 114 LCHTFIKDGATILTHAYSRVVLRVLEAAVAAKKRFSVYVTESQPDLSGKKMAKALCHLNV 173
Query: 103 QTVLIPDSAMFGLISRVNKIIIGTHTVMANGGLRSVCGTHAVALAAQHYSIP 154
++ D+A+ ++ + + +I+G V+ NGG+ + GT+ +A+ A+ + P
Sbjct: 174 PVTVVLDAAVGYIMEKADLVIVGAEGVVENGGIINKIGTNQMAVCAKAQNKP 225
>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
SCOP: c.124.1.5
Length = 276
Score = 64.6 bits (158), Expect = 3e-13
Identities = 31/112 (27%), Positives = 56/112 (50%), Gaps = 7/112 (6%)
Query: 47 EHIHSNEIILTLGYSKIVELFLKNA-AQHRKFQCIVMENSPENKGHELAVSLAKSKIQTV 105
+ I ++I+T +S V ++ A + ++F+ I+ E+SP+ +G LA L S I+
Sbjct: 105 QLIDDGDVIITHSFSSTVLEIIRTAKERKKRFKVILTESSPDYEGLHLARELEFSGIEFE 164
Query: 106 LIPDSAMFGLISRVNKIIIGTHTVMANGGLRSVC---GTHAVALAAQHYSIP 154
+I D+ M + I+G + +G V GT+ +ALA +IP
Sbjct: 165 VITDAQMGLFCREASIAIVGADMITKDGY---VVNKAGTYLLALACHENAIP 213
>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase,
hexamer, rossmann fold; 2.50A {Thermococcus
kodakaraensis} PDB: 3a9c_A* 3vm6_A*
Length = 338
Score = 55.0 bits (133), Expect = 9e-10
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 72 AQHRKFQCIVMENSPENKGHELAVSLAKSKIQTVLIPDSAMFGLISRVNKIIIGTHTVMA 131
Q + + IV E P+ +G A LA I + + DSA + +K+++G ++
Sbjct: 163 EQGKDIKVIVTETRPKWQGKITAKELASYGIPVIYVVDSAARHYMKMTDKVVMGADSITV 222
Query: 132 NGGLRSVC---GTHAVALAAQHYSIP 154
NG +V GT +AL A+ + +
Sbjct: 223 NG---AVINKIGTALIALTAKEHRVW 245
>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
genomics, translation initiation factor, AIF-2B subunit,
PSI; 2.60A {Thermotoga maritima} SCOP: c.124.1.5
Length = 347
Score = 46.9 bits (112), Expect = 5e-07
Identities = 21/89 (23%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 72 AQHRKFQCIVMENSPENKGHEL-AVSLAKSKIQTVLIPDSAMFGLISR--VNKIIIGTHT 128
++ + E P +G L A L K I+ +I D+ L+ R ++ +++G
Sbjct: 178 ESGKRIRVFADETRPYLQGARLTAWELMKDGIEVYVITDNMAGWLMKRGLIDAVVVGADR 237
Query: 129 VMANGGLRSVC---GTHAVALAAQHYSIP 154
+ NG GT+++A+ A+ +IP
Sbjct: 238 IALNG---DTANKIGTYSLAVLAKRNNIP 263
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
2yrf_A*
Length = 374
Score = 46.9 bits (112), Expect = 6e-07
Identities = 21/90 (23%), Positives = 35/90 (38%), Gaps = 9/90 (10%)
Query: 72 AQHRKFQCIVMENSPENKGHEL-AVSLAKSKIQTVLIPDSAMFGLISR--VNKIIIGTHT 128
+ E P +G L A L + I LI DS + ++ +I+G
Sbjct: 203 QKDLGLHIYACETRPVLQGSRLTAWELMQGGIDVTLITDSMAAHTMKEKQISAVIVGADR 262
Query: 129 VMANGGLRSVC---GTHAVALAAQHYSIPY 155
+ NG GT+ +A+ A + IP+
Sbjct: 263 IAKNG---DTANKIGTYGLAILANAFDIPF 289
>1t5o_A EIF2BD, translation initiation factor EIF2B, subunit DELT; subunit
delta, structural GEN PSI, protein structure initiative;
1.90A {Archaeoglobus fulgidus} SCOP: c.124.1.5
Length = 351
Score = 46.5 bits (111), Expect = 7e-07
Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 10/89 (11%)
Query: 72 AQHRKFQCIVMENSPENKGHEL-AVSLAKSKIQTVLIPDSAMFGLISR--VNKIIIGTHT 128
Q ++ + I E P N+G L L + I LI DS + ++ + V+K+I+G
Sbjct: 176 EQGKEIRVIACETRPLNQGSRLTCWELMEDGIDVTLITDSMVGIVMQKGMVDKVIVGADR 235
Query: 129 VMANGGLRSVC---GTHAVALAAQHYSIP 154
++ + V GT+ V++ A+H++IP
Sbjct: 236 IVRDA----VFNKIGTYTVSVVAKHHNIP 260
>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
structure initiative eukaryotic initiation factor; 2.10A
{Leishmania major} SCOP: c.124.1.5
Length = 383
Score = 42.6 bits (101), Expect = 2e-05
Identities = 13/63 (20%), Positives = 28/63 (44%), Gaps = 8/63 (12%)
Query: 97 LAKSKIQTVLIPDSAMFGLISR--VNKIIIGTHTVMANGGLRSVC---GTHAVALAAQHY 151
+ I LI D A L+ ++ +++G + NG GT+ +A++A+ +
Sbjct: 233 CVQEDIPCTLICDGAASSLMLNRKIDAVVVGADRICQNG---DTANKIGTYNLAVSAKFH 289
Query: 152 SIP 154
+
Sbjct: 290 GVK 292
>1w2w_B 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 191
Score = 40.3 bits (95), Expect = 7e-05
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 10/65 (15%)
Query: 97 LAKSKIQTVLIPDSAMFGLISR----VNKIIIGTHTVMANGGLRSVC---GTHAVALAAQ 149
L KI + LI DS++ I + +G ++ NG GT +A+ +
Sbjct: 26 LVYDKIPSTLITDSSIAYRIRTSPIPIKAAFVGADRIVRNG---DTANKIGTLQLAVICK 82
Query: 150 HYSIP 154
+ I
Sbjct: 83 QFGIK 87
>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 = 38.7 bits (89), Expect = 5e-04
Identities = 16/84 (19%), Positives = 31/84 (36%), Gaps = 16/84 (19%)
Query: 22 LVVSSDDEATDFANPTSDTAPSQACEHIHSNEIILTLGYSKIVELFLKNAAQHRKFQCIV 81
L+ + + TDF + + T HI + +TL ++ L LK + Q +
Sbjct: 269 LLTTRFKQVTDFLSAATTT-------HISLDHHSMTLTPDEVKSLLLKYL--DCRPQDL- 318
Query: 82 MENSPE--NKGHELAVSLAKSKIQ 103
P + +S+ I+
Sbjct: 319 ----PREVLTTNPRRLSIIAESIR 338
>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 = 31.1 bits (69), Expect = 0.10
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 11/32 (34%)
Query: 16 QESLHKLVVSSDDEAT--DFANPTSDTAPSQA 45
+++L KL +A+ +A D+AP+ A
Sbjct: 19 KQALKKL------QASLKLYA-D--DSAPALA 41
Score = 25.7 bits (55), Expect = 5.7
Identities = 6/14 (42%), Positives = 7/14 (50%), Gaps = 3/14 (21%)
Query: 101 KIQTVL---IPDSA 111
K+Q L DSA
Sbjct: 24 KLQASLKLYADDSA 37
>3m9j_A Thioredoxin; oxidoreductase; 1.10A {Homo sapiens} PDB: 3m9k_A
2hsh_A 1erv_A 2ifq_A 2ifq_B 1auc_A 1eru_A 1ert_A 3kd0_A
1aiu_A 3trx_A 4trx_A 1trs_A 1tru_A 1trv_A 1trw_A
3e3e_A* 1cqg_A 1cqh_A 1mdi_A ...
Length = 105
Score = 24.9 bits (55), Expect = 7.3
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 1 MPKEIKSKSQEDDNYQESLHKLVV 24
M K+I+SK+ + + KLVV
Sbjct: 1 MVKQIESKTAFQEALDAAGDKLVV 24
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 0.131 0.373
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,323,803
Number of extensions: 123797
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 260
Number of HSP's successfully gapped: 16
Length of query: 165
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 79
Effective length of database: 4,300,587
Effective search space: 339746373
Effective search space used: 339746373
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: 53 (24.2 bits)