RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026381
(239 letters)
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY
crystallography, putative translation factor, PSI,
protein structure initiative; 1.40A {Escherichia coli}
SCOP: d.115.1.1 PDB: 1kk9_A
Length = 206
Score = 181 bits (463), Expect = 5e-58
Identities = 66/215 (30%), Positives = 115/215 (53%), Gaps = 17/215 (7%)
Query: 2 YVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSK 61
+ P + VE++++G V V PTD+ YA+ C ++ +A+ER+ RI+ +
Sbjct: 4 FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGH 63
Query: 62 PLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYG 121
+++CR L ++ TY+ FR +K+ PG YTFIL +KEVP++ +
Sbjct: 64 NFTLMCRDLSELSTYS--------FVDNVAFRLMKNNTPGNYTFILKGTKEVPRRLL--- 112
Query: 122 TTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPE 181
K RK +G+R+P++ I QA+L+ + P++STS+ DP I D +
Sbjct: 113 --QEK---RKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQ 167
Query: 182 GLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGP 216
+D ++ GG +P+TV+D+T P ++R+G G
Sbjct: 168 -VDLIIHGGYLGQKPTTVIDLTDDTPVVVREGVGD 201
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural
genomics; NMR {Methanothermobacterthermautotrophicus}
SCOP: d.115.1.1
Length = 208
Score = 109 bits (275), Expect = 9e-30
Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 49/231 (21%)
Query: 1 MYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPS 60
+ + LE + +++ G + + PTDT+Y + + A+ RL R+K P
Sbjct: 2 LIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPH 61
Query: 61 KPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRY 120
KP+SI + +I ++ ++ LPGPYT +L ++ +P +
Sbjct: 62 KPVSICVSCVDEIPRFSRPSGD--------AMELMERILPGPYTVVLERNELIPDV-ITG 112
Query: 121 GTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYG- 179
G++ VG+R+P+D IC+ I + P+ +TS A+ G
Sbjct: 113 GSSR--------VGIRVPDDEICRRIAARF--PVTATS----------------ANISGK 146
Query: 180 --P----------EGLDFVVDGG-VRVAEPSTVVDMTGTYPKIIRQGKGPK 217
+ +D V+D G EPSTV+D+T P+++R+GKGP
Sbjct: 147 PPSPRLEEIVRDLDAVDLVLDAGDCLDMEPSTVIDLTVNPPRVLRRGKGPL 197
>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5,
PSI, protein structure initiative, midwest center for
structural genomics; 2.00A {Escherichia coli} SCOP:
d.115.1.1
Length = 188
Score = 76.0 bits (188), Expect = 3e-17
Identities = 44/216 (20%), Positives = 74/216 (34%), Gaps = 48/216 (22%)
Query: 11 DSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSL 70
+ +++L E V PT+ ++ + CD S +A+ RL +K K L ++ +
Sbjct: 6 QRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANY 65
Query: 71 RDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLR 130
+ Y D Q + PGP TF+ A P + + +
Sbjct: 66 EQLKPYIDDTMLTDVQ-----RETIFSRWPGPVTFVFPAPATTP-RWLTGRFDS------ 113
Query: 131 KHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYG---P------- 180
+ VR+ + + A+ Q PL+STS A+ G
Sbjct: 114 --LAVRVTDHPLVVALCQAYGKPLVSTS----------------ANLSGLPPCRTVDEVR 155
Query: 181 ---EGLDFVVDGGV-RVAEPSTVVDM-TGTYPKIIR 211
VV G PS + D TG ++ R
Sbjct: 156 AQFGAAFPVVPGETGGRLNPSEIRDALTG---ELFR 188
>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5
domain, structural genomics, NPPSFA; HET: AMP; 1.80A
{Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A*
Length = 352
Score = 67.6 bits (166), Expect = 2e-13
Identities = 49/220 (22%), Positives = 89/220 (40%), Gaps = 41/220 (18%)
Query: 6 DPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPS-KPLS 64
DP + K++ ++++ G PT+T+Y + + +A ++ + KN P PL
Sbjct: 8 DPLNPEIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKN-RPVDNPLI 66
Query: 65 ILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTT 124
+ + P + + PGP TF+L ++ VPK+ V G T
Sbjct: 67 VHIADFNQLFEVAKDIP-------DKVLEIAQIVWPGPLTFVLKKTERVPKE-VTAGLDT 118
Query: 125 AKYSLRKHVGVRIPNDAICQAILQKMDAPL------ISTSVKWLKDNEWMVDPV----VI 174
V VR+P I ++++ P+ ++T P VI
Sbjct: 119 --------VAVRMPAHPIALQLIRESGVPIAAPSANLATRPS----------PTKAEDVI 160
Query: 175 ADTYGPEGLDFVVDGG-VRVAEPSTVVDMTGTYPKIIRQG 213
D G +D ++DGG ST++++T P ++R G
Sbjct: 161 VDLNG--RVDVIIDGGHTFFGVESTIINVTVEPPVLLRPG 198
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of
[NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET:
APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB:
3vti_A
Length = 761
Score = 66.7 bits (163), Expect = 6e-13
Identities = 36/223 (16%), Positives = 79/223 (35%), Gaps = 32/223 (14%)
Query: 6 DPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSI 65
D ++ V + LKEG + + + + + A+ LRR K KP ++
Sbjct: 197 GEGCFDDE-IKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRKK-RYGKPFAV 254
Query: 66 LCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTA 125
+ R + ++ Y P + + P + +++ K + T
Sbjct: 255 MMRDVEEVKKYCIVSPE-----EERLLLSQ----RRPIVLLKKKGEKLAKG-IADDLDT- 303
Query: 126 KYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGL-- 183
+GV +P I +++++D P++ TS + + +P+ + E L
Sbjct: 304 -------LGVMLPYAPIHYLLMEEIDFPIVMTSGN-VSE-----EPICKDNEEALEKLKD 350
Query: 184 --DFVVDGGVRVAEP--STVVDMTGTYPKIIRQGKGPKLYWME 222
D + + +V +IIR+ +G +
Sbjct: 351 IADVFLLNNRDIVNRIDDSVTSFNAGAERIIRRARGYAPQPIL 393
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A
{Streptococcus mutans}
Length = 295
Score = 56.5 bits (136), Expect = 9e-10
Identities = 29/156 (18%), Positives = 51/156 (32%), Gaps = 18/156 (11%)
Query: 11 DSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSL 70
+ E + EG V V PT Y I+ +ER K +KP +LC S+
Sbjct: 43 GNLSQEGFEIVKGEGGVIVCPTKVGYIIMTS--DKKGLERKFEAKKRNRNKPGVVLCGSM 100
Query: 71 RDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTF--ILTASKEVPKKCVRYGT------ 122
++ P I + IL E +K YG
Sbjct: 101 EELRALAQLTPE--------IDAFYQKHWDEDILLGCILPWKAEAYEKLKAYGDGREELM 152
Query: 123 TTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTS 158
T + + + + + I + + +K + ++S
Sbjct: 153 TDIRGTSCFVIKFGVAGEQIAKEMWEKEGRMVYASS 188
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide
binding, hydrogenase maturation factor transferase; HET:
ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A*
3ttf_A* 3ttd_A 3tsq_A
Length = 657
Score = 55.1 bits (133), Expect = 4e-09
Identities = 28/156 (17%), Positives = 55/156 (35%), Gaps = 24/156 (15%)
Query: 3 VEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKP 62
V L+ + LK G + + + + CD ++ +A+ LR K+ P+KP
Sbjct: 102 VSHGEHAEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRARKH-RPAKP 160
Query: 63 LSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGT 122
L+++ + + R + P + + G
Sbjct: 161 LAVMLPVADGLP---------------DAARQLLTTPAAPIVLVDKKYVPELCDDIAPGL 205
Query: 123 TTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTS 158
VGV +P + + +LQ++ PL+ TS
Sbjct: 206 NE--------VGVMLPANPLQHLLLQELQCPLVMTS 233
>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 = 53.9 bits (129), Expect = 1e-08
Identities = 45/272 (16%), Positives = 77/272 (28%), Gaps = 102/272 (37%)
Query: 8 SGADSWK----------------------------LEP-VVELLKEGAVGVVPTDTLYAI 38
+ DSW+ L P ++E E GV P+ L
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV-PSPML--S 340
Query: 39 VCDLKSHSAIERLRRI-KNVEPSKPLSILCRSLRDIDTYT----TGFPRGDGQGHANIFR 93
+ +L + + + ++ K + I SL ++ +G P+ G R
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEI---SL--VNGAKNLVVSGPPQ-SLYGLNLTLR 394
Query: 94 AVKHCLPG------PYTFILTASKEVPKKCVRYGTTTAKY--SLRKHVGVRIPNDAICQA 145
K G P+ S+ K R+ + + L I D +
Sbjct: 395 KAK-APSGLDQSRIPF------SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN 447
Query: 146 I-------------------LQKMDAPLISTSVKWLKDNEWMVDPVV-----------IA 175
+ L+ + + V + + PV I
Sbjct: 448 VSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI-----IRLPVKWETTTQFKATHIL 502
Query: 176 DTYGPEGLDFV-------VDG-GVRVAEPSTV 199
D +GP G + DG GVRV T+
Sbjct: 503 D-FGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
Score = 31.2 bits (70), Expect = 0.31
Identities = 33/222 (14%), Positives = 68/222 (30%), Gaps = 75/222 (33%)
Query: 15 LEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVE-----P-SKPLS---- 64
++ E L E + + ++ ++ +E + + P S PL
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNI--LEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245
Query: 65 -----ILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVR 119
+ + L GF G+ + + G ++TA +
Sbjct: 246 LAHYVVTAKLL--------GFTPGE---LRSYLKGATGHSQG----LVTAV------AIA 284
Query: 120 YGTT------TAKYSLRK--HVGVR----IPNDAICQAILQK-----MDAP---LISTSV 159
+ + + ++ +GVR PN ++ +IL+ P L S+
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML---SI 341
Query: 160 KWLKDN--EWMVD----------PVVIADTYGPEGLDFVVDG 189
L + V+ V I+ G + + VV G
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK--NLVVSG 381
Score = 27.3 bits (60), Expect = 6.1
Identities = 10/65 (15%), Positives = 19/65 (29%), Gaps = 2/65 (3%)
Query: 175 ADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDL 234
AD + + F + V + + G K IR+ ++ E E +
Sbjct: 1649 ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF--ETIVDGKLKTEKI 1706
Query: 235 IPSAT 239
Sbjct: 1707 FKEIN 1711
>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 = 32.9 bits (74), Expect = 0.086
Identities = 31/221 (14%), Positives = 61/221 (27%), Gaps = 79/221 (35%)
Query: 42 LKSHSAIERLRR----------------IKNVEPSKPLSILCRSL---RDIDTYTTGFPR 82
L+ HS LRR ++N + ++ C+ L R T F
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ--VTDFLS 282
Query: 83 GDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRI---PN 139
H ++ H K + L K++ R P
Sbjct: 283 AATTTH----ISLDHHSMT---LTPDEVKSL---------------LLKYLDCRPQDLPR 320
Query: 140 DAICQAILQKMDAPL-ISTSVKWLKD-----NEWMVDPVVIADTYGPEGLDFVVDGGVRV 193
+ P +S + ++D + W + L +++ + V
Sbjct: 321 EV-LTT------NPRRLSIIAESIRDGLATWDNW--------KHVNCDKLTTIIESSLNV 365
Query: 194 AEPSTVVDMTGTYPK--IIRQG-KGP----KLYW--MEEED 225
EP+ + + + + P L W + + D
Sbjct: 366 LEPA---EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Score = 32.5 bits (73), Expect = 0.12
Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 60/196 (30%)
Query: 33 DTLYAIV----CD--LKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQ 86
D +I+ D + S A+ R+ L +
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRL--------FWTLLS-----------------K 74
Query: 87 GHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAI 146
+ + V+ L Y F+++ K ++ T R R+ ND +
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQ--PSMMTRMYIEQRD----RLYNDN---QV 125
Query: 147 LQKMDAP------LISTSVKWLKDNEWMV--------DPVVIADTYGPEGLDFVVDGGV- 191
K + + ++ L+ + ++ V D + +D +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 192 -----RVAEPSTVVDM 202
P TV++M
Sbjct: 186 WLNLKNCNSPETVLEM 201
>3vlv_A ALGQ1; sugar binding protein, alginate; HET: MAW LGU; 1.50A
{Sphingomonas SP} PDB: 3vlu_A* 3vlw_A* 1y3n_A* 1y3p_A*
1y3q_A 1j1n_A* 1kwh_A
Length = 502
Score = 30.2 bits (68), Expect = 0.68
Identities = 11/77 (14%), Positives = 26/77 (33%), Gaps = 5/77 (6%)
Query: 159 VKWLKDNEWMVDP-VVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQG-KGP 216
+K ++ P +G GL + + G V + + + ++ G + P
Sbjct: 330 IKLF---DFYFGPKGRELSNFGVPGLTYDIKNGKPVYKDTVLKAAQPVNNQMYDIGAQIP 386
Query: 217 KLYWMEEEDANSTAIED 233
+W + E +
Sbjct: 387 IGFWQDYEYERQWTNDV 403
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 29.4 bits (65), Expect = 1.1
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
+ + +V + + S + RL PS+ IL ++
Sbjct: 869 NGVLEVVSAM-NSSPVYRLDHTFEQIPSRQKKIL-EEAHEL 907
>2ije_S Guanine nucleotide-releasing protein; rasgrf1, CDC25 domain, RAS
guanine nucleotide releasing FACT specific nucleotide
exchange factor; 2.20A {Mus musculus}
Length = 240
Score = 28.8 bits (65), Expect = 1.3
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
+ + I + + SAI RL++ + S+L L+ +
Sbjct: 94 NAVLEITSSI-NRSAIFRLKKTWLKVSKQTKSLL-DKLQKL 132
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo
sapiens} SCOP: a.117.1.1 PDB: 1xd2_C* 1nvv_S* 1nvu_S*
1nvw_S* 1nvx_S* 1bkd_S
Length = 490
Score = 28.9 bits (64), Expect = 1.5
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
+ + +V + + S + RL PS+ IL ++
Sbjct: 310 NGVLEVVSAM-NSSPVYRLDHTFEQIPSRQKKIL-EEAHEL 348
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 28.2 bits (62), Expect = 2.7
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
++ +AIV L S+ A+ RL PSK +
Sbjct: 544 NSFFAIVMGL-SNVAVSRLALTWEKLPSKFKKFY-AEFESL 582
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 27.9 bits (61), Expect = 3.2
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
++ +AIV L S+ A+ RL PSK +
Sbjct: 849 NSFFAIVMGL-SNVAVSRLALTWEKLPSKFKKFY-AEFESL 887
>2nn6_D Exosome complex exonuclease RRP46; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: d.14.1.4 d.101.1.1
Length = 237
Score = 27.4 bits (61), Expect = 3.5
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 6/55 (10%)
Query: 141 AICQAILQKMDA------PLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDG 189
+ A + +DA + D ++DP + L F +D
Sbjct: 135 CLNAACMALVDAGVPMRALFCGVACALDSDGTLVLDPTSKQEKEARAVLTFALDS 189
>3qxl_A RAS-specific guanine nucleotide-releasing factor; CDC25 domain
homology, guanine-nucleotide exchange factor, S GTPase
RAL subfamily; 2.24A {Homo sapiens}
Length = 271
Score = 27.4 bits (61), Expect = 4.5
Identities = 8/41 (19%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 33 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 73
+L ++V L + I RL + + K + L +
Sbjct: 121 HSLMSVVSAL-QSAPIFRLTKTWALLNRKDKTTF-EKLDYL 159
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase;
1.98A {Oryza sativa japonica group}
Length = 246
Score = 27.0 bits (60), Expect = 4.8
Identities = 8/55 (14%), Positives = 15/55 (27%), Gaps = 6/55 (10%)
Query: 141 AICQAILQKMDA------PLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDG 189
AI + A ++ L+D E ++D + V
Sbjct: 119 AINACCAALVFAGIPLKHLAVAIGCGVLEDGEVILDTNKAEEQQLKSFAHLVFPN 173
>3omb_A Extracellular solute-binding protein, family 1; PSI-2, midwest
center for structural genomics, protein struc
initiative, MCSG; 2.10A {Bifidobacterium longum subsp}
Length = 535
Score = 26.4 bits (58), Expect = 9.0
Identities = 10/79 (12%), Positives = 18/79 (22%), Gaps = 5/79 (6%)
Query: 159 VKWLKDNEWMVDP-VVIADTYGPEGLDFVVDG-GVRVAEPSTVVDMTGTYPKIIRQGKGP 216
+K + + G G G + + +TG
Sbjct: 367 LKLA---NLLYSEKYSVQQFLGSFGKAITKTGEHEYTVDNDKLSQLTGDNQYPGLSELLV 423
Query: 217 KLYWMEEEDANSTAIEDLI 235
E T ++LI
Sbjct: 424 GWIPDEATIKGDTHADELI 442
>2cka_A Chromodomain-helicase-DNA-binding protein 8; BRK domain,
transcription elongation, chromatin remodeling,
protein-protein interaction, transcription; NMR {Homo
sapiens} SCOP: d.76.2.1
Length = 95
Score = 25.2 bits (54), Expect = 9.7
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 151 DAPLISTSVKWLKDN-EWMVDP 171
DAP + WL+ + E+ VDP
Sbjct: 61 DAPRRAELEMWLQGHPEFAVDP 82
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
0.318 0.136 0.413
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: 3,862,235
Number of extensions: 235592
Number of successful extensions: 598
Number of sequences better than 10.0: 1
Number of HSP's gapped: 583
Number of HSP's successfully gapped: 33
Length of query: 239
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 148
Effective length of database: 4,160,982
Effective search space: 615825336
Effective search space used: 615825336
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: 56 (25.5 bits)