RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2296
(208 letters)
>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 = 55.2 bits (132), Expect = 3e-09
Identities = 41/271 (15%), Positives = 80/271 (29%), Gaps = 85/271 (31%)
Query: 2 SKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEK--------GIISQSVKE- 52
+ +S++ L E + L + L P+E II++S+++
Sbjct: 284 ATTTHISLDHHSMTLTP--DEVKSLLLKYLDCRPQDL-PREVLTTNPRRLSIIAESIRDG 340
Query: 53 -----------------ILQSLVDDGLVESEKIGTSTYFWS---FPN--KASDRVDCKL- 89
I++S ++ L +E F FP + +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNV-LEPAE---YRKMFDRLSVFPPSAHIPTILLSLIW 396
Query: 90 -EKITAEIEDVTKELAQNNEALEKSMVGRGDSKNRE----D-FLQEVGNISKELELINKE 143
+ I +++ V +L + S+V + K +L+ + E L
Sbjct: 397 FDVIKSDVMVVVNKLHK------YSLVEK-QPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 144 LEKY---KNNDPDTLKLIEN-------------TAQRAKEAANRWTDNLFSLK----SWC 183
++ Y K D D L + + LF + +
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER------MTLFRMVFLDFRFL 503
Query: 184 KNKFGLEETALNKHFSIPEEM-------DYI 207
+ K + TA N SI + YI
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Score = 42.1 bits (98), Expect = 8e-05
Identities = 30/228 (13%), Positives = 64/228 (28%), Gaps = 75/228 (32%)
Query: 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66
L + + L L K ++ L++ + + V++
Sbjct: 225 LRIHSIQAELRRLLKSKP--YENCLLV------------------------LLN--VQNA 256
Query: 67 KIGTSTYFWSFPNKASDRVDCKLEKIT--AEIEDVTKELAQNNEALEKSMVGRGDSKNRE 124
K W A + + CK+ T ++ D + +L+ + + +
Sbjct: 257 KA------W----NAFN-LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 125 DFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCK 184
L+ + ++L + +P L +I A+ ++ W DN +
Sbjct: 306 LLLKYLDCRPQDLP------REVLTTNPRRLSII---AESIRDGLATW-DNWKHVNCDKL 355
Query: 185 NKF------GLEETALNKHFS----------IPE--------EMDYID 208
LE K F IP ++ D
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Score = 36.4 bits (83), Expect = 0.006
Identities = 22/117 (18%), Positives = 47/117 (40%), Gaps = 14/117 (11%)
Query: 93 TAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDP 152
T E + K++ E + V D K+ +D + + +SKE E+ + K+
Sbjct: 11 TGEHQYQYKDILSVFE---DAFVDNFDCKDVQDMPKSI--LSKE-EI--DHIIMSKDAVS 62
Query: 153 DTLKLIENTAQRAKEAANRWTDNLFSLK-SWCKNKFGLEETALNKHFSIPEEMDYID 208
TL+L + +E ++ + + + + + E + S+ M YI+
Sbjct: 63 GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE----QRQPSMMTRM-YIE 114
>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 = 32.7 bits (74), Expect = 0.096
Identities = 36/170 (21%), Positives = 56/170 (32%), Gaps = 53/170 (31%)
Query: 54 LQSLV-DDGLVE-SEKIGTSTYFWSFPNKASDRVDCKL-EKITAEIEDVTKELAQNNE-- 108
+ L G +E + T+++F AS +L E+ + + T+ A ++E
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFF-----IAS-----QLQEQFNKILPEPTEGFAADDEPT 55
Query: 109 -ALEKSMVGRGDSKNREDFL---------QEVGNISKELELINKELE-KY-KNNDPDTLK 156
E +VG+ FL +VG + L L E E Y + ND L
Sbjct: 56 TPAE--LVGK--------FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL- 104
Query: 157 LIENTAQRAKEAANRWTDN---LFSLKSWCKNKFGLEETALNKHFSIPEE 203
AA +N L K KN A + F
Sbjct: 105 -----------AAKLLQENDTTLVKTKELIKNYITARIMA-KRPFDKKSN 142
>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A
{Bacillus phage SPP1}
Length = 315
Score = 31.0 bits (71), Expect = 0.22
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 114 MVGRGDSKNREDFLQEVGNISKELELINKELE 145
+ + +R ++ IS++L+ + +EL+
Sbjct: 193 LEPAKANDSRT---NQISQISRDLKKMARELD 221
>2xs1_A Programmed cell death 6-interacting protein; protein
transport-viral protein complex, cell cycle; 2.30A {Homo
sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A
2ojq_A
Length = 704
Score = 31.1 bits (69), Expect = 0.28
Identities = 17/141 (12%), Positives = 52/141 (36%), Gaps = 5/141 (3%)
Query: 30 KLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKL 89
++ E E L K + + L +L DG++ E + + ++ + K+
Sbjct: 567 EVKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEAL-----SVTELDRVYGGLTTKV 621
Query: 90 EKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149
++ + E + K + +++ K ++ RE+ L+ + + L++
Sbjct: 622 QESLKKQEGLLKNIQVSHQEFSKMKQSNNEANLREEVLKNLATAYDNFVELVANLKEGTK 681
Query: 150 NDPDTLKLIENTAQRAKEAAN 170
+ +++ + +
Sbjct: 682 FYNELTEILVRFQNKCSDIVF 702
>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA
replication, ATPase; HET: FLC; 2.50A {Helicobacter
pylori}
Length = 338
Score = 30.8 bits (70), Expect = 0.31
Identities = 11/32 (34%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 114 MVGRGDSKNREDFLQEVGNISKELELINKELE 145
M G +K R +++ IS+EL+ + +ELE
Sbjct: 168 MSGSKATKERH---EQIAEISRELKTLARELE 196
>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A
{Bacillus phage SPP1}
Length = 444
Score = 30.6 bits (70), Expect = 0.40
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 114 MVGRGDSKNREDFLQEVGNISKELELINKELE 145
+ + +R ++ IS++L+ + +EL+
Sbjct: 322 LEPAKANDSRT---NQISQISRDLKKMARELD 350
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 30.2 bits (68), Expect = 0.50
Identities = 12/58 (20%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 22 EKEEFFQLKLIIELEKLAPKEKGII----SQSVKEILQSLVDDGLVESEKIGTSTYFW 75
K+ + L ++ + K+ K ++ ++ V++ILQ V+ L+ + G S ++
Sbjct: 379 IKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYY 436
>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 = 29.1 bits (64), Expect = 0.61
Identities = 14/59 (23%), Positives = 19/59 (32%), Gaps = 32/59 (54%)
Query: 42 EKGIISQSVKEILQSL---VDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIE 97
EK Q++K++ SL DD S P A I A +E
Sbjct: 18 EK----QALKKLQASLKLYADD---------------SAPALA----------IKATME 47
>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT
protein structure initiative, midwest center for
structural genomics; 1.55A {Archaeoglobus fulgidus}
SCOP: a.4.5.50
Length = 109
Score = 28.0 bits (62), Expect = 1.0
Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 1/68 (1%)
Query: 41 KEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSF-PNKASDRVDCKLEKITAEIEDV 99
+E + ++ V++ L+ L+ G V E + + + K + I EIE +
Sbjct: 42 RELDLSARFVRDRLKVLLKRGFVRREIVEKGWVGYIYSAEKPEKVLKEFKSSILGEIERI 101
Query: 100 TKELAQNN 107
K +
Sbjct: 102 EKMFTDGS 109
>3qph_A TRMB, A global transcription regulator; transcriptional regulator;
HET: SUC; 2.99A {Pyrococcus furiosus}
Length = 342
Score = 29.0 bits (64), Expect = 1.2
Identities = 19/100 (19%), Positives = 36/100 (36%), Gaps = 1/100 (1%)
Query: 41 KEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVT 100
+ GI V + + SL G V + Y P A R +LE I ++E
Sbjct: 40 TKSGIPYNRVYDTISSLKLRGFVTEIEGTPKVYAAYSPRIAFFRFKKELEDIMKKLEIEL 99
Query: 101 KELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELI 140
+ + + R + E F + + + E+ ++
Sbjct: 100 NNVKKEEQR-PAIWRSRSFDEAIEMFRESLYSAKNEVIVV 138
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus
aquaticus}
Length = 444
Score = 28.6 bits (65), Expect = 1.6
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 114 MVGRGDSKNREDFLQEVGNISKELELINKELE 145
M G G K+ E+ QE+ IS+ L+ + +EL
Sbjct: 322 MSGPGSGKSGENRQQEIAAISRGLKALARELG 353
>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase
110 kDa subunit...; thiocarbamate crosslink, covalent
inhibitor, gylcosyltransfe inhibitor, O-GLCNAC
transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A*
3pe4_A*
Length = 723
Score = 28.6 bits (63), Expect = 1.8
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 14/60 (23%)
Query: 138 ELINKELEKYKN------NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEE 191
ELI K ++Y++ D + LK + R K R + LF+ K + LE
Sbjct: 649 ELIAKNRQEYEDIAVKLGTDLEYLKKV-----RGKVWKQRISSPLFNTKQYTME---LER 700
>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein,
structural genomics, PSI- 2, protein structure
initiative; 3.00A {Corynebacterium diphtheriae}
Length = 583
Score = 28.4 bits (63), Expect = 1.9
Identities = 8/81 (9%), Positives = 25/81 (30%)
Query: 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKEL 103
++ + L++ + + I W N + + + + ++ +
Sbjct: 455 QSGKEAARNALEAARQTTVAGAPLIIAHDGVWLLGNACREILRKVEPSPFSPVRYLSTDQ 514
Query: 104 AQNNEALEKSMVGRGDSKNRE 124
A+ A + GD +
Sbjct: 515 AELTNAAMLWLSEVGDLATSD 535
>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm,
transcription regulation, binding, transcription
regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB:
3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A
Length = 151
Score = 27.5 bits (61), Expect = 2.4
Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 18/106 (16%)
Query: 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKEL 103
G+ +V ++ L++ LV+ EK + R+ K+ K++ + + KE
Sbjct: 62 GVNKAAVSRRVKKLLNAELVKLEKP---------DSNTDQRL--KIIKLSNKGKKYIKER 110
Query: 104 AQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149
+ M DSK E Q LE+I+ ++ Y +
Sbjct: 111 KAIMSHIASDMTSDFDSKEIEKVRQ-------VLEIIDYRIQSYTS 149
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A
{Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A
2r6e_A 2vyf_A 2vye_A
Length = 454
Score = 27.5 bits (62), Expect = 3.2
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 114 MVGRGDSK-NREDFLQEVGNISKELELINKELE 145
+ G G SK NR+ QEV IS+ L+ + +ELE
Sbjct: 325 IQGSGRSKENRQ---QEVSEISRSLKALARELE 354
>3ujh_A Glucose-6-phosphate isomerase; ssgcid, structural genomics, seattle
structural genomics CEN infectious disease; HET: G6Q;
2.10A {Toxoplasma gondii}
Length = 567
Score = 26.9 bits (60), Expect = 5.5
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 175 NLFSLKSWCKNKFGLEETALNKHF 198
N S++ W + + +E AL HF
Sbjct: 228 NARSVRDWYLHHYKGDERALGAHF 251
>2nsm_A Carboxypeptidase N catalytic chain; caroxypeptidase, zinc
peptidase, transthyretin-like domain, processing,
peptide modification, hydrolase; HET: NAG; 2.10A {Homo
sapiens}
Length = 439
Score = 26.9 bits (59), Expect = 5.8
Identities = 8/31 (25%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 133 ISKE--LELINKELEKYKNNDPDTLKLIENT 161
+ +E L+L E+++N + ++LI++T
Sbjct: 72 LGRELMLQLSEFLCEEFRNRNQRIVQLIQDT 102
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 26.7 bits (60), Expect = 6.9
Identities = 13/63 (20%), Positives = 28/63 (44%), Gaps = 10/63 (15%)
Query: 88 KLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147
+L+ I AEI +T+E+A+ E + L+++ L+ + +E+E
Sbjct: 431 RLKAIEAEIAKLTEEIAKLRAEWE----------REREILRKLREAQHRLDEVRREIELA 480
Query: 148 KNN 150
+
Sbjct: 481 ERQ 483
>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET:
DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11
PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*
Length = 296
Score = 26.5 bits (59), Expect = 7.4
Identities = 4/32 (12%), Positives = 11/32 (34%), Gaps = 3/32 (9%)
Query: 114 MVGRGDSKNREDFLQEVGNISKELELINKELE 145
+V + + + N+ +L+ K
Sbjct: 159 VVSASGESDER---KMIDNLMTKLKGFAKSTG 187
>2pi2_A Replication protein A 32 kDa subunit; FULL-length RPA14/32, ssDNA
binding protein, OB-fold, dioxan replication, DNA
binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3
PDB: 2z6k_A 1dpu_A 1z1d_A
Length = 270
Score = 26.3 bits (57), Expect = 8.3
Identities = 6/31 (19%), Positives = 16/31 (51%)
Query: 33 IELEKLAPKEKGIISQSVKEILQSLVDDGLV 63
+ + L + K + S+K+ + L ++G +
Sbjct: 225 LNFQDLKNQLKHMSVSSIKQAVDFLSNEGHI 255
>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic
hypermutat protein-DNA complex, DNA mispair, cancer;
HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B*
2o8e_B* 2o8f_B*
Length = 1022
Score = 26.2 bits (58), Expect = 9.2
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 6/68 (8%)
Query: 14 TGLLELFHEKEEFFQLKLIIELEKLAPKE----KGIISQSVKEILQSLVDDGLVESEKIG 69
G + ++ + + P + KG +S+ K IL+S + L E
Sbjct: 227 LGKFFIGQFSDDRHCSRFRTLVAHYPPVQVLFEKGNLSKETKTILKSSLSCSLQEGLI-- 284
Query: 70 TSTYFWSF 77
+ FW
Sbjct: 285 PGSQFWDA 292
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
0.310 0.130 0.355
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,092,723
Number of extensions: 176558
Number of successful extensions: 507
Number of sequences better than 10.0: 1
Number of HSP's gapped: 497
Number of HSP's successfully gapped: 82
Length of query: 208
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 119
Effective length of database: 4,216,824
Effective search space: 501802056
Effective search space used: 501802056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (24.9 bits)