RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13880
(256 letters)
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 135 bits (341), Expect = 2e-36
Identities = 36/185 (19%), Positives = 69/185 (37%), Gaps = 6/185 (3%)
Query: 68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
P + A E + + + +G + N+ + A L + FHLG+ VN F
Sbjct: 969 PNWMSAVEILDDDNFLGA---ENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF 1025
Query: 128 FKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 187
+ + ++ + +++G +G L E Y LL +QN + G
Sbjct: 1026 CHGSLVMQNLGETSTP-TQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1084
Query: 188 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELY 247
+ +R++ P+ G IDG L+ FL +S + E+ + +
Sbjct: 1085 KIEHSFWRSF--HTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1142
Query: 248 DIEAL 252
+ L
Sbjct: 1143 TADDL 1147
>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 = 36.2 bits (83), Expect = 0.009
Identities = 30/175 (17%), Positives = 49/175 (28%), Gaps = 69/175 (39%)
Query: 83 MGFMISDKDKNVVLFMYQ--PEARESNGGHRLIKKTDFHLGQHVNTFFKIR--CKPSPIS 138
MG D +Y+ A++ + + D H F I +P++
Sbjct: 1631 MG-----MD------LYKTSKAAQD------VWNRADNHFKDTYG--FSILDIVINNPVN 1671
Query: 139 DA---PGARSR-------FLTWYASLDGALGFFLPLPEKNYR-RLLML--QNVMVTHTSH 185
G + + + + +DG L E N + +++ T
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
Query: 186 TGGLNPR-------AFRTYKGKG------YYAGNPSRGIIDGSLVWKFLQLSLGE 227
T P AF K KG +AG SLGE
Sbjct: 1732 T---QPALTLMEKAAFEDLKSKGLIPADATFAG-----------------HSLGE 1766
Score = 29.6 bits (66), Expect = 1.4
Identities = 30/164 (18%), Positives = 54/164 (32%), Gaps = 51/164 (31%)
Query: 96 LF-MYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSR---FLTWY 151
L+ Y + LIK + L + + DA ++ L W
Sbjct: 176 LYQTYHVLVGD------LIKFSAETLSELI----------RTTLDAEKVFTQGLNILEW- 218
Query: 152 ASLDGALGFFLPLPEKNYRR----------LLMLQNVMVTHTSHTGGLNPRAFRTY-KGK 200
L+ P+K+Y ++ L + +VT G P R+Y KG
Sbjct: 219 --LENPS----NTPDKDYLLSIPISCPLIGVIQLAHYVVTA--KLLGFTPGELRSYLKG- 269
Query: 201 GYYAGNPSRGIIDGSLV-----WK-FLQLSLGERLEICKKIGSK 238
A S+G++ + W+ F + + + IG +
Sbjct: 270 ---ATGHSQGLVTAVAIAETDSWESFFVSVR-KAITVLFFIGVR 309
Score = 29.2 bits (65), Expect = 1.5
Identities = 49/282 (17%), Positives = 82/282 (29%), Gaps = 115/282 (40%)
Query: 3 IVQE---LLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKL-----KVLFV 54
IV LT+ G + + R + +I++ K + FK++ F
Sbjct: 1664 IVINNPVNLTIHFGGEKGKRI---RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 55 SDR---SKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHR 111
S++ S QP L ++E F E +S G
Sbjct: 1721 SEKGLLSATQFTQPAL--------TLME--------------KAAF----EDLKSKG--- 1751
Query: 112 LIKKTDF---H-LGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEK 167
LI H LG+ YA+L +L + +
Sbjct: 1752 LIPADATFAGHSLGE----------------------------YAAL-ASLADVMSIESL 1782
Query: 168 ----NYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQL 223
YR + M Q + PR G A NP R S
Sbjct: 1783 VEVVFYRGMTM-QVAV-----------PRDELGRSNYGMIAINPGRVAASFSQ------- 1823
Query: 224 SLGERLE-ICKKIGSKHNDIL--------DELY----DIEAL 252
E L+ + +++G + ++ ++ Y D+ AL
Sbjct: 1824 ---EALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL 1862
>3ajv_A Putative uncharacterized protein; ENDA, archaea crenarch hydrolase;
1.70A {Aeropyrum pernix} PDB: 3p1z_A
Length = 190
Score = 26.9 bits (59), Expect = 4.7
Identities = 22/73 (30%), Positives = 30/73 (41%), Gaps = 8/73 (10%)
Query: 182 HTSHTGGLNPRAFRTYKGKGYYAGNPS--RGIIDGSLVWKFLQLSLGERLEICKKIGSKH 239
H H+ GL PR KG+G AG + R ++G V + S LE +IG
Sbjct: 7 HHHHSSGLVPRGSHMGKGEGEVAGCKAAARLGVEGVFVEECFDGSYCRNLE---RIGYLR 63
Query: 240 NDILDELYDIEAL 252
L +EA
Sbjct: 64 K---GRLEPLEAA 73
>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 = 26.8 bits (58), Expect = 5.4
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 19/47 (40%)
Query: 33 QAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIE 79
QA + + +LK L+ D + P L A + +E
Sbjct: 20 QALKKLQASLK--------LYADDSA------PAL-----AIKATME 47
>2j0w_A Lysine-sensitive aspartokinase 3; feedback inhibition, allosteric
regulation, ACT domain, transferase, amino acid
biosynthesis; HET: ADP; 2.5A {Escherichia coli} SCOP:
c.73.1.3 d.58.18.10 d.58.18.10 PDB: 2j0x_A*
Length = 449
Score = 27.2 bits (61), Expect = 6.1
Identities = 8/31 (25%), Positives = 11/31 (35%)
Query: 226 GERLEICKKIGSKHNDILDELYDIEALSSHF 256
GER E I + IL+ L +
Sbjct: 58 GERFEKLDAIRNIQFAILERLRYPNVIREEI 88
>3top_A Maltase-glucoamylase, intestinal; membrane, hydrolase-hydrolase
inhibitor complex; HET: ACR; 2.88A {Homo sapiens} PDB:
3ton_A*
Length = 908
Score = 26.8 bits (59), Expect = 8.8
Identities = 7/60 (11%), Positives = 20/60 (33%), Gaps = 5/60 (8%)
Query: 75 EFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTD-----FHLGQHVNTFFK 129
+ +I+ + G I K +++ Q + I + G+ + ++
Sbjct: 133 DVLIKKNPFGIEIRRKSTGTIIWDSQLLGFTFSDMFIRISTRLPSKYLYGFGETEHRSYR 192
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
0.323 0.140 0.422
Gapped
Lambda K H
0.267 0.0596 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,904,194
Number of extensions: 225949
Number of successful extensions: 387
Number of sequences better than 10.0: 1
Number of HSP's gapped: 386
Number of HSP's successfully gapped: 9
Length of query: 256
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 165
Effective length of database: 4,160,982
Effective search space: 686562030
Effective search space used: 686562030
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: 56 (25.6 bits)