RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8637
(216 letters)
>3e0j_A DNA polymerase subunit delta-2; DNA polymerase delta, P66 subunit,
P50 subunit, human, DNA replication, DNA-directed DNA
polymerase; HET: DNA; 3.00A {Homo sapiens}
Length = 476
Score = 178 bits (453), Expect = 5e-54
Identities = 77/173 (44%), Positives = 105/173 (60%), Gaps = 2/173 (1%)
Query: 11 RPTADYKNLSQCFRLASKDYSKQFAHIYAVRLNKMRECLLARVSQKWGKSVSVLKLSDLN 70
P A Y N SQ FRL + +S+Q+AHIYA RL +MR L R Q WG V V KL +L
Sbjct: 34 VPVATYTNSSQPFRLGERSFSRQYAHIYATRLIQMRPFLENRAQQHWGSGVGVKKLCELQ 93
Query: 71 ETDTEECVIIGTLFKHQQLKPNILKEISEELKLVPQPQHTHFVSDSDELILEDELQRIPL 130
E+C ++GTLFK L+P+IL+E+SEE L+PQP + ++ DEL+LEDELQRI L
Sbjct: 94 PE--EKCCVVGTLFKAMPLQPSILREVSEEHNLLPQPPRSKYIHPDDELVLEDELQRIKL 151
Query: 131 HGNIDIHNQVTGVVVAIKGTPVGNGKFKVSDVCYATPVFKPRTTLSNNENKYV 183
G ID+ VTG V+A+ G+ +GKF V D C+A + + + +
Sbjct: 152 KGTIDVSKLVTGTVLAVFGSVRDDGKFLVEDYCFADLAPQKPAPPLDTDRFVL 204
>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 = 34.6 bits (79), Expect = 0.021
Identities = 18/125 (14%), Positives = 33/125 (26%), Gaps = 51/125 (40%)
Query: 85 KHQQLKPNILKE---ISEELKLVPQPQHTHFVSDSDELILEDELQRIPLHGNIDIHNQVT 141
+ K ++ P H+H + + +LI +D L + +
Sbjct: 408 PFSERKLKFSNRFLPVAS-------PFHSHLLVPASDLINKD-LVKNNV----------- 448
Query: 142 GVVVAIKGTPVGNGKFKVSDVCYATPVFKPRT-----TLSNNENKYVNHVDAFTDD--DF 194
F D+ PV+ LS + ++ VD
Sbjct: 449 --------------SFNAKDI--QIPVYDTFDGSDLRVLSGSISE--RIVDCIIRLPVK- 489
Query: 195 IRLWE 199
WE
Sbjct: 490 ---WE 491
Score = 28.1 bits (62), Expect = 3.1
Identities = 9/38 (23%), Positives = 13/38 (34%), Gaps = 7/38 (18%)
Query: 49 LLARVSQKWGKSVSVLKLSDLNETDTEECVIIGTLFKH 86
L R G V V+ L+ ++ G FK
Sbjct: 515 LTHRNKD--GTGVRVIVAGTLDINPDDD---YG--FKQ 545
>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 = 31.0 bits (69), Expect = 0.37
Identities = 35/268 (13%), Positives = 73/268 (27%), Gaps = 84/268 (31%)
Query: 3 NIECKSY--TRPT--ADYKNLSQCFRLASKDYSKQFAHIYAVRLNKMRECLLARVSQKWG 58
N+ CK TR D+ + + ++ +S L L K+
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-------LL----KYL 311
Query: 59 KSVSVLKLSDLNETDTEECVI-------IGTL----------FKH--------------Q 87
+ DL E I +KH
Sbjct: 312 D----CRPQDLPR---EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 88 QLKPNILKEISEELKLVPQ----PQHT------HFVSDSDELILEDELQRIPL------H 131
L+P +++ + L + P P + +++ ++L + L
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV-NKLHKYSLVEKQPKE 423
Query: 132 GNIDIHNQVTGVVVAIKGTPVGNGKF--KVSDVCYATP-VFKPRTTLSNNENKYV----- 183
I I + + +K + D Y P F + ++Y
Sbjct: 424 STISIP----SIYLELKVKLENEYALHRSIVD-HYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 184 NHVDAFTDDDFIRLWEGLFFSM-WMSDK 210
+H+ + + L+ +F ++ K
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQK 506
>2czc_A Glyceraldehyde-3-phosphate dehydrogenase; glycolysis, NAD,
oxidoreductase, structural genomics; HET: NAD; 2.00A
{Pyrococcus horikoshii} SCOP: c.2.1.3 d.81.1.1
Length = 334
Score = 27.8 bits (62), Expect = 3.1
Identities = 10/47 (21%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 110 THFVSDSDELILEDELQRIPLHGNIDIHNQVTGVVVAIKGTPVGNGK 156
+ S+E I E + + G ++ + + V + + TP G G
Sbjct: 49 IPVYAASEEFIPRFEKEGFEVAGTLN--DLLEKVDIIVDATPGGIGA 93
>1iv8_A Maltooligosyl trehalose synthase; beta alpha barrel, intramolecular
transglucosylation, isomerase; HET: MLZ MLY; 1.90A
{Sulfolobus acidocaldarius} SCOP: b.71.1.1 c.1.8.1
Length = 720
Score = 27.6 bits (61), Expect = 3.3
Identities = 8/47 (17%), Positives = 18/47 (38%), Gaps = 9/47 (19%)
Query: 161 DVCYATPVFKPRTTLSNNENKY--VNH--VDA-F-TDDDFIRLWEGL 201
Y +PV + + Y ++H ++ + ++ RL E
Sbjct: 32 SHLYLSPVLMAS---PGSNHGYDVIDHSRINDELGGEKEYRRLIETA 75
>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 = 3.7
Identities = 13/64 (20%), Positives = 17/64 (26%), Gaps = 38/64 (59%)
Query: 87 QQLKPNILKEISEELKLVPQPQHTHFVSDSDELILEDELQRIPLHGNIDIHNQVTGVVVA 146
Q LK ++ LKL + DS P +A
Sbjct: 20 QALK-----KLQASLKL--------YADDS-----------AP--------------ALA 41
Query: 147 IKGT 150
IK T
Sbjct: 42 IKAT 45
>2gm2_A Conserved hypothetical protein; MTH938-like fold, structural
genomics, PSI, protein structure initiative; NMR
{Xanthomonas campestris PV}
Length = 132
Score = 26.7 bits (59), Expect = 4.3
Identities = 5/66 (7%), Positives = 16/66 (24%), Gaps = 6/66 (9%)
Query: 135 DIHNQVTGVVVAIKGTPVGNGKFKVSDVCYATPVF-KPRTTLSNNENKYVNHVDAFTDDD 193
++ + A++ KV++ P + + V +
Sbjct: 2 PLNQEHPDYTYALRA--ADGRHAKVNEQILQQSFILMPDELVEHWP---VPSLGQLQPAH 56
Query: 194 FIRLWE 199
+
Sbjct: 57 MDAVLA 62
>3flo_A DNA polymerase alpha subunit B; protein-protein complex,
phosphoesterase fold, OB fold, zinc-binding motif, DNA
replication; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Length = 460
Score = 27.0 bits (59), Expect = 5.2
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 10/68 (14%)
Query: 115 DSDELILEDEL-----QRIPLHGNIDIHNQVT---GVVVAIKGTPVGNGKFKVSDVCYAT 166
+ + L LE +R+ L ++ N+++ G +VA KG F V+ +
Sbjct: 67 NPESLSLETSRMGGVGRRVRL--DLSQVNELSFFLGQIVAFKGKNANGDYFTVNSILPLP 124
Query: 167 PVFKPRTT 174
P +T
Sbjct: 125 YPNSPVST 132
>3u7q_A Nitrogenase molybdenum-iron protein alpha chain; multiple rossmann
fold domains, reductase, nitrogen fixing,
oxidoreductase; HET: HCA ICS 1CL CLF; 1.00A {Azotobacter
vinelandii} PDB: 1g21_A* 1g20_A* 1fp4_A* 1m1n_A* 1l5h_A*
1m1y_A* 1m34_A* 1n2c_A* 2afh_A* 2afi_A* 2afk_A* 2min_A*
3min_A* 3k1a_A* 1h1l_A* 1qgu_A* 1qh1_A* 1qh8_A*
Length = 492
Score = 26.7 bits (59), Expect = 6.3
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 9/54 (16%)
Query: 76 ECVIIGTLFKHQQLKPNILKEISEELKLVPQPQHTHFVSDSDELILEDELQRIP 129
E V G F H +KE+ + T D E+ ++RI
Sbjct: 373 EVVGTGYEFAHNDDYDRTMKEMGDS---------TLLYDDVTGYEFEEFVKRIK 417
>2boo_A UDG, uracil-DNA glycosylase; base excision repair, radiation
resistance, DNA damage, DNA glycosidase, hydrolase;
1.80A {Deinococcus radiodurans}
Length = 247
Score = 26.0 bits (58), Expect = 9.4
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 92 NILKEISEELKLVPQPQH 109
NI KE++E++ P+H
Sbjct: 110 NIYKELTEDIPGFVAPKH 127
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
0.319 0.135 0.405
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,281,132
Number of extensions: 187479
Number of successful extensions: 383
Number of sequences better than 10.0: 1
Number of HSP's gapped: 382
Number of HSP's successfully gapped: 16
Length of query: 216
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 126
Effective length of database: 4,188,903
Effective search space: 527801778
Effective search space used: 527801778
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 (21.8 bits)
S2: 55 (24.8 bits)