RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5736
(346 letters)
>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND
domain, zinc finger MYND domain-containin 1, structural
genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A*
3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*
Length = 429
Score = 108 bits (271), Expect = 1e-26
Identities = 56/307 (18%), Positives = 114/307 (37%), Gaps = 26/307 (8%)
Query: 11 WDHITGSRLISWRPDRGS-WARNSARCTALTLLNEHDDSLLLTGYDDGSLSVYRNYASHE 69
L S +P R R + +S L + D L N + +
Sbjct: 83 DHKRECKCLKSCKPRYPPDSVRLLGRVVFKLMDGAPSESEKLYSFYD--LESNINKLTED 140
Query: 70 HRLVTSFQALTDTSFVNKSLSTVLNEDEALIAQILLKSLQVLQFNAHEVYETLFKTKHHF 129
+ +T F+ + + + + A L ++ + N+ +
Sbjct: 141 RKEGLRQLVMTFQHFMREEI---QDASQLPPAFDLFEAFAKVICNSFTIC---------- 187
Query: 130 PNAKINYVGVGIYPTVSLFNHDCYPAVTRYFNGKNIIVKALRPLKPKEVVAENYGLVFSR 189
NA++ VGVG+YP++SL NH C P + FNG +++++A+R ++ E + Y +
Sbjct: 188 -NAEMQEVGVGLYPSISLLNHSCDPNCSIVFNGPHLLLRAVRDIEVGEELTICYLDMLMT 246
Query: 190 KHLIDRQKVLSARYWFECKCRACVENWPLMESLEKYPIRIRCSNDNCGQIIATVKKLEPS 249
+R+K L +Y FEC C C + L + + +++L+
Sbjct: 247 SE--ERRKQLRDQYCFECDCFRCQTQDKDADMLT----GDEQVWKEVQESLKKIEELKAH 300
Query: 250 AKKVE--KKCESCNSTSDLTEIKTKLSELNEMFYRGIEQMNTSCFREAVESLTKFSDQIH 307
K + C++ S++ + +L + +N EA+ T+ + +
Sbjct: 301 WKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTM-EPY 359
Query: 308 ELVVPPY 314
+ P
Sbjct: 360 RIFFPGS 366
>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90,
transferase-transferase inhibitor; HET: SFG; 1.80A {Mus
musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A*
3tg4_A* 3tg5_A* 3rib_A*
Length = 433
Score = 101 bits (252), Expect = 4e-24
Identities = 36/188 (19%), Positives = 68/188 (36%), Gaps = 20/188 (10%)
Query: 101 AQILLKSLQVLQFNAHEVYETLFKTKHHFPNAKINYVGVGIYPTVSLFNHDCYPAVTRYF 160
L+ + N + + +++++G I+P V+L NH C P V +
Sbjct: 169 HSSLVVLFAQVNCNGFTIE-----------DEELSHLGSAIFPDVALMNHSCCPNVIVTY 217
Query: 161 NGKNIIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYWFECKCRACVENWPLME 220
G V+A++ + P + V +Y + DR L Y+F C+CR C
Sbjct: 218 KGTLAEVRAVQEIHPGDEVFTSYIDLLYPTE--DRNDRLRDSYFFTCECRECTTKDKDKA 275
Query: 221 SLEKYPIRIRCSNDNCGQIIATVKKLEPSAKKVEKKCESCNSTSDLTEIKTKLSELNEMF 280
+E + S+ + I + + A+ V ++ +E+ E
Sbjct: 276 KVE----VRKLSSPPQAEAI---RDMVRYARNVIEEFRRAKHYKSPSELLEICELSQEKM 328
Query: 281 YRGIEQMN 288
E N
Sbjct: 329 SSVFEDSN 336
>3n71_A Histone lysine methyltransferase SMYD1; heart development,
transcription; HET: SFG MES; 2.30A {Mus musculus}
Length = 490
Score = 86.9 bits (214), Expect = 5e-19
Identities = 42/222 (18%), Positives = 75/222 (33%), Gaps = 33/222 (14%)
Query: 85 VNKSLSTVLNEDEALIAQILLKSLQVLQFNAHEVYETLFKTKHHFPNAKINYVGVGIYPT 144
V+ L + + Q + V+ N + + + VGVGI+P
Sbjct: 151 VDTFLQYWPPQSQQFSMQYISHIFGVINCNGFTLSD----------QRGLQAVGVGIFPN 200
Query: 145 VSLFNHDCYPAVTRYFNGKN-------------IIVKALRPLKPKEVVAENYGLVFSRKH 191
+ L NHDC+P T FN N I ++AL + E + +Y
Sbjct: 201 LGLVNHDCWPNCTVIFNNGNHEAVKSMFHTQMRIELRALGKISEGEELTVSYIDFLHLSE 260
Query: 192 LIDRQKVLSARYWFECKCRACVENWPLMESLEKYPIRIRCSNDNCGQIIATVKKLEPSAK 251
+R++ L +Y+F+C C C + + + + + K++ +K
Sbjct: 261 --ERRRQLKKQYYFDCSCEHCQKGLK----DDLFLAAKEDPKPSQEVV----KEMIQFSK 310
Query: 252 KVEKKCESCNSTSDLTEIKTKLSELNEMFYRGIEQMNTSCFR 293
+K + S E+ E E N R
Sbjct: 311 DTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLR 352
>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 = 52.4 bits (125), Expect = 2e-07
Identities = 69/391 (17%), Positives = 119/391 (30%), Gaps = 122/391 (31%)
Query: 5 FLKEGIWD-HITGSRLISWRP----DRGSWARN--SARCTALTLLNEHDDSLLLTGYDDG 57
+L+ D H ++L+ +N +AR A ++ +S L +G
Sbjct: 95 YLEGN--DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 58 SLSVYRNYASHEHRLVTSF--QALTDTSFVNKSLSTVLNEDEALIAQILLKSLQVLQFNA 115
+ + F Q TD F + L + L+ ++ S + L
Sbjct: 153 NAQLV-----------AIFGGQGNTDDYF--EELRDLYQTYHVLVGDLIKFSAETLS--- 196
Query: 116 HEVYETLFKTKHHFPNA--------------KINYVGVGIYPTVSL-------FNHDCYP 154
E+ T + F +Y+ + +S H Y
Sbjct: 197 -ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL---LSIPISCPLIGVIQLAH--Y- 249
Query: 155 AVTRYFNGKNIIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYWFECKCRACVE 214
VT G P E+ + G Q +++A A +
Sbjct: 250 VVTAKLLGFT----------PGELRSYLKGA------TGHSQGLVTAV------AIAETD 287
Query: 215 NWP-LMESLEKYPIRI------RCSNDNCGQIIATVKKLEPSAKKVEKKCESCN------ 261
+W S+ K I + RC L PS + + N
Sbjct: 288 SWESFFVSVRKA-ITVLFFIGVRC------YEAYPNTSLPPS---ILEDSLENNEGVPSP 337
Query: 262 --STSDLTEIKTKLSELNEMFYRGIEQMNTSCFRE-AVE-SLTKFSDQIHELVV--PPYK 315
S S+LT ++ + + + N+ VE SL + LVV PP
Sbjct: 338 MLSISNLT-----QEQVQDY----VNKTNSHLPAGKQVEISLVNGAKN---LVVSGPPQS 385
Query: 316 LASLAHEALRNCWSLAG-NKWVIPENYSQIK 345
L L LR + +G ++ IP +S+ K
Sbjct: 386 LYGLNL-TLRKAKAPSGLDQSRIP--FSERK 413
>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 = 49.9 bits (118), Expect = 9e-07
Identities = 63/401 (15%), Positives = 122/401 (30%), Gaps = 115/401 (28%)
Query: 24 PDRGSWARNSARCTALTLLNEHDDSLL-LTGYDD-GSLSVYRNYASHEHRLVTS-FQALT 80
R + R L +++ LL L + + + + L+T+ F+ +T
Sbjct: 224 KLRIHSIQAELR--RLLKSKPYENCLLVL---LNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 81 D-------TSFVNKSLSTVLNEDEA--LIAQILLKSLQVLQFNAHEVYETLFKTKHHFPN 131
D T S L DE L+ + L Q L EV + P
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL---PREV------LTTN-PR 328
Query: 132 AKINYVGVGIYPTVSLFNHDCYPAVTRYFNGK---NIIVKALRPLKPKEVVAENYGL--V 186
++ + I ++ +++ ++ N II +L L+P E + + V
Sbjct: 329 R-LSIIAESIRDGLATWDN------WKHVNCDKLTTIIESSLNVLEPAEY-RKMFDRLSV 380
Query: 187 FSRKHLIDRQKVLSARYWF------------ECKCRACVENWPLMES------------- 221
F I +LS WF + + VE P +
Sbjct: 381 FPPSAHIP-TILLS-LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 222 -----------LEKYPIRIRCSNDNCGQIIAT----------VKKLEPSAK--------- 251
++ Y I +D+ +K +E +
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 252 -------KVEKKCESCNSTSDLTEIKTKLSELNEMFYRGIEQMNTSCFREAVESLTKFSD 304
K+ + N++ + L +L FY+ N + V ++ F
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNT---LQQLK--FYKPYICDNDPKYERLVNAILDFLP 553
Query: 305 QIHELVVPPYKLASLAHEALRNCWSLAGNKWVIPENYSQIK 345
+I E ++ K L AL ++ + E + Q++
Sbjct: 554 KIEENLI-CSKYTDLLRIALMA-----EDEAIFEEAHKQVQ 588
Score = 46.0 bits (108), Expect = 1e-05
Identities = 35/212 (16%), Positives = 68/212 (32%), Gaps = 61/212 (28%)
Query: 161 NGKNIIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYWFECKCRACVENWPLME 220
+ ++ K + +EV+ NY + S RQ + R + E + R +N +
Sbjct: 74 KQEEMVQKFV-----EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN----Q 124
Query: 221 SLEKYPI-RIRCSNDNCGQIIATVKKLEP----------------------SAKKVEKKC 257
KY + R++ ++ + +L P + KV+ K
Sbjct: 125 VFAKYNVSRLQPYL----KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 258 E---------SCNSTSDLTEIKTKL-SELNEMFYRGIEQMNTSCFR--EAVESLTKFSDQ 305
+ +CNS + E+ KL +++ + + + R L +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL--- 237
Query: 306 IHELVVPPYKLASLAHEALRNCWSLAGNKWVI 337
L PY+ L L N N
Sbjct: 238 ---LKSKPYENCLL---VLLNVQ----NAKAW 259
Score = 44.1 bits (103), Expect = 6e-05
Identities = 43/285 (15%), Positives = 86/285 (30%), Gaps = 79/285 (27%)
Query: 87 KSLSTVLNEDEALIAQI------LLKSLQVLQFNAHEVYE---TLFKTKHHFPNAKINYV 137
S TVL + L+ QI ++ H + L K+K + N + +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-ENCLLVLL 251
Query: 138 GVGIYPTVSLFNHDCYPAV-TRYFNGKNIIVKALRPLKPKEVVAENYGLVFSRKHLIDRQ 196
V + FN C + TR+ + L + +++ + + D
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQ----VTDFLSAATTTHISLDHHSMTLTP----DEV 303
Query: 197 KVLSARYWFECKC-----RACVENWPLMESLEKYPIRIRCSNDNCGQIIATVKKLEPSA- 250
K L + + +C+ N P S+ IA + +
Sbjct: 304 KSLLLK-YLDCRPQDLPREVLTTN-PRRLSI-----------------IAESIRDGLATW 344
Query: 251 ---KKVEKKCESCNSTSDLTEIKTKLSELNEMFYRGIEQMNTSCFREAVESLTKFSDQIH 307
K V KL+ + E + + + +R+ + L+ F H
Sbjct: 345 DNWKHVNCD---------------KLTTIIESS---LNVLEPAEYRKMFDRLSVFPPSAH 386
Query: 308 ELVVPPYKLASLAHEALRNC----------WSLAGNKWVIPENYS 342
+P L+ + + +++ +SL K S
Sbjct: 387 ---IPTILLSLIWFDVIKSDVMVVVNKLHKYSLV-EKQPKESTIS 427
Score = 34.8 bits (79), Expect = 0.048
Identities = 36/268 (13%), Positives = 78/268 (29%), Gaps = 84/268 (31%)
Query: 29 WARNSARCTALTLLNE-HDDSLLLTGYDDGSLSVYRNYASHEHRLVTSFQALTDTSFVNK 87
W + ++N+ H SL+ + ++S+ L + + + +++
Sbjct: 396 WFDVIKSDVMV-VVNKLHKYSLVEKQPKESTISI------PSIYLELKVKLENEYA-LHR 447
Query: 88 SLSTVLNEDEALIAQILLKSLQVLQFNAHEVYETLFKTKHHFPNAKINYVGVGIYPTVSL 147
S+ V +N + ++ + P Y
Sbjct: 448 SI--------------------VDHYNIPKTFD----SDDLIPPYLDQYF---------- 473
Query: 148 FNHDCYPAVTRYFNGKNIIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYWFEC 207
++H I L+ ++ E + F L R + E
Sbjct: 474 YSH---------------IGHHLKNIEHPERMTL-----FRMVFLDFR--------FLEQ 505
Query: 208 KCRACVENW-------PLMESLEKYPIRIRCSNDNCGQIIATVKKLEPSAKKVEKKCESC 260
K R W ++ L+ Y I DN + V + K+E+
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYIC---DNDPKYERLVNAILDFLPKIEENLICS 562
Query: 261 NSTSDLTEI--KTKLSELNEMFYRGIEQ 286
T DL I + + E ++ +++
Sbjct: 563 KYT-DLLRIALMAEDEAIFEEAHKQVQR 589
>3rq4_A Histone-lysine N-methyltransferase SUV420H2; suppressor,
variegation 4-20 homolog 2, structural genomics,
structural genomics consortium, SGC; HET: SAM; 1.80A
{Homo sapiens}
Length = 247
Score = 37.3 bits (86), Expect = 0.004
Identities = 18/71 (25%), Positives = 24/71 (33%), Gaps = 13/71 (18%)
Query: 146 SLFNHDCYPAVTRYFNGKN-IIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYW 204
+ NHDC P N VK LR ++P + V YG F +
Sbjct: 178 AFINHDCKPNCKFVPADGNAACVKVLRDIEPGDEVTCFYGEGFFGEKNEH---------- 227
Query: 205 FECKCRACVEN 215
C+C C
Sbjct: 228 --CECHTCERK 236
>3s8p_A Histone-lysine N-methyltransferase SUV420H1; SET domain, histone
methyltransferase, transcription regulat histone lysine,
SAM, methylation, nucleus; HET: MSE SAM; 1.85A {Homo
sapiens}
Length = 273
Score = 34.3 bits (78), Expect = 0.039
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 13/68 (19%)
Query: 146 SLFNHDCYPAVTRYFNGKN-IIVKALRPLKPKEVVAENYGLVFSRKHLIDRQKVLSARYW 204
+ NHDC P G++ VKALR ++P E ++ YG F ++
Sbjct: 207 AFINHDCRPNCKFVSTGRDTACVKALRDIEPGEEISCYYGDGFFGENNE----------- 255
Query: 205 FECKCRAC 212
C+C C
Sbjct: 256 -FCECYTC 262
>3qxy_A N-lysine methyltransferase SETD6; epigenetics, protein lysine
methyltransferase, transferase, network VIA methyllysine
signaling; HET: SAM; 2.09A {Homo sapiens} PDB: 3rc0_A*
Length = 449
Score = 31.4 bits (70), Expect = 0.39
Identities = 7/44 (15%), Positives = 16/44 (36%)
Query: 141 IYPTVSLFNHDCYPAVTRYFNGKNIIVKALRPLKPKEVVAENYG 184
+ P + NH ++ + + A +P+ + YG
Sbjct: 219 MVPAADILNHLANHNANLEYSANCLRMVATQPIPKGHEIFNTYG 262
>3smt_A Histone-lysine N-methyltransferase SETD3; histone
methyltransferase, histone modification, LYSI
translational modification, structural genomics; HET:
SAM; 2.04A {Homo sapiens}
Length = 497
Score = 30.6 bits (68), Expect = 0.77
Identities = 10/43 (23%), Positives = 14/43 (32%), Gaps = 1/43 (2%)
Query: 143 PTVSLFNHDCYPAVTRYFN-GKNIIVKALRPLKPKEVVAENYG 184
P + NH T Y AL+ + E + YG
Sbjct: 271 PLWDMCNHTNGLITTGYNLEDDRCECVALQDFRAGEQIYIFYG 313
>1huf_A Tyrosine phosphatase YOPH; helical bundle, beta hairpin, hydrolase;
2.00A {Yersinia pestis} SCOP: d.195.1.1 PDB: 1k46_A
1m0v_A*
Length = 140
Score = 28.3 bits (62), Expect = 2.0
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 71 RLVTSFQALTDTSFVNKSLSTVLNEDEALIAQILLKSLQVLQFNAHEVYETLFKT-KHHF 129
+L + A +T+F ++++ E E + AQ +L + + + + L T KH+
Sbjct: 31 KLRGNVAANKETTFQGLTIASGARESEKVFAQTVLSHVANVVLTQEDTAKLLQSTVKHNL 90
Query: 130 PNAKINYVGVGIYPTVSL 147
N + VG G VSL
Sbjct: 91 NNYDLRSVGNGNSVLVSL 108
>2lbf_B 60S acidic ribosomal protein P2; ribosome, stalk, P1/P2; NMR {Homo
sapiens} PDB: 2w1o_A
Length = 70
Score = 27.0 bits (60), Expect = 2.3
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 245 KLEPSAKKVEKKCESCNSTSDLTEIKTKLSEL-----NEMFYRGIEQMNT 289
PSAK ++K +S +D + +SEL ++ +GI ++ +
Sbjct: 16 NSSPSAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGIGKLAS 65
>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A
{Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB:
3nns_A*
Length = 220
Score = 28.2 bits (64), Expect = 3.0
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 11/42 (26%)
Query: 159 YFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
+ GK I L KE +AEN G V +R+ L++
Sbjct: 138 FLKGKRI------HLPKKEFEILLFLAENAGKVVTREKLLET 173
>2oqr_A Sensory transduction protein REGX3; response regulator,
winged-helix-turn-helix, DNA-binding, 3D swapping, two
component system; 2.03A {Mycobacterium tuberculosis
H37RV}
Length = 230
Score = 28.2 bits (64), Expect = 3.4
Identities = 14/42 (33%), Positives = 16/42 (38%), Gaps = 11/42 (26%)
Query: 159 YFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
NG I L KE + N G V +R LIDR
Sbjct: 149 SVNGDTI------TLPLKEFDLLEYLMRNSGRVLTRGQLIDR 184
>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 = 27.6 bits (60), Expect = 3.7
Identities = 7/27 (25%), Positives = 11/27 (40%), Gaps = 7/27 (25%)
Query: 242 TVKKLEPSAKKVEKKCESC-----NST 263
+KKL+ S K +S +T
Sbjct: 21 ALKKLQASLKLYAD--DSAPALAIKAT 45
>2w18_A PALB2, fancn, partner and localizer of BRCA2; fanconi anemia,
homologous recomination, polymorphism, phosphoprotein,
beta-propeller, WD40, nucleus; 1.90A {Homo sapiens} PDB:
3eu7_A
Length = 356
Score = 28.3 bits (62), Expect = 3.7
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 12/72 (16%)
Query: 2 TGLFLKEGIWDHITGSRLISWRPDRGSWARNSARCTALTLLNE----------HDDSLLL 51
G FL+ + DH + I W +CTAL DS LL
Sbjct: 285 AGRFLEGDVKDHCAAA--ILTSGTIAIWDLLLGQCTALLPPVSDQHWSFVKWSGTDSHLL 342
Query: 52 TGYDDGSLSVYR 63
G DG++ VY
Sbjct: 343 AGQKDGNIFVYH 354
>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer;
NMR {Paramecium bursaria chlorella virus 1} SCOP:
b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A*
Length = 119
Score = 27.3 bits (61), Expect = 4.1
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 146 SLFNHDCYP-AVTRYFNGKN-IIVKALRPLKPKEVVAENYG 184
++FNH P A G + + ++P+ E + +YG
Sbjct: 66 AIFNHSKDPNARHELTAGLKRMRIFTIKPIAIGEEITISYG 106
>2k4j_A Putative transcriptional regulator; response regulator, acid
resistance, DN binding, phosphoprotein, transcription
regul; NMR {Helicobacter pylori}
Length = 115
Score = 26.8 bits (60), Expect = 4.3
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 11/42 (26%)
Query: 159 YFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
Y + K + L E ++ G VFSR+ +
Sbjct: 34 YMHEKKL------DLTRAEYEILSLLISKKGYVFSRESIAIE 69
>3ka1_A RBCX protein; chaperone, helix bundle, rubisco assembly; 1.71A
{Thermosynechococcus elongatus bp-1} PDB: 3q20_A
Length = 126
Score = 27.3 bits (60), Expect = 4.4
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 276 LNEMFYRGIEQMNTSCFREAVESLTKFSD 304
L EM GI+Q N + +E +T+ S+
Sbjct: 86 LPEMLRAGIQQANLQQRAQQLERMTQVSE 114
>2z9m_A Response regulator YYCF; two-component system, YYCG, helix-turn-
helix motif, DNA-binding domain, phosphorylation,
transcription; 1.87A {Staphylococcus aureus} PDB: 2zxj_A
2d1v_A
Length = 120
Score = 27.2 bits (61), Expect = 4.4
Identities = 9/42 (21%), Positives = 19/42 (45%), Gaps = 11/42 (26%)
Query: 159 YFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
G++I L +E ++++ G V +R+HL+
Sbjct: 29 KKRGEDI------ELTHREFELFHYLSKHMGQVMTREHLLQT 64
>2hwv_A DNA-binding response regulator VICR; essential response regulator,
C-terminal domain, DNA-binding transcription; 1.90A
{Enterococcus faecalis}
Length = 121
Score = 26.8 bits (60), Expect = 5.3
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 11/42 (26%)
Query: 159 YFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
G+ I L +E +A++ G V +R+HL+
Sbjct: 36 SKRGEKI------ELTHREFELLYYLAKHIGQVMTREHLLQT 71
>2gwr_A DNA-binding response regulator MTRA; two-component regulatory
system, transcription regulation, phosphorylation, OMPR
family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A
Length = 238
Score = 27.5 bits (62), Expect = 5.5
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 13/45 (28%)
Query: 156 VTRYFNGKNIIVKALRPLKPKE-----VVAENYGLVFSRKHLIDR 195
VTR NG+ I L P E +A VF+R L+++
Sbjct: 145 VTR--NGEQI------SLTPLEFDLLVALARKPRQVFTRDVLLEQ 181
>3e20_C Eukaryotic peptide chain release factor subunit 1; SUP35, SUP45,
translation termination, peptide release, GTP-
nucleotide-binding; 3.50A {Schizosaccharomyces pombe}
Length = 441
Score = 27.7 bits (60), Expect = 6.3
Identities = 10/68 (14%), Positives = 18/68 (26%)
Query: 212 CVENWPLMESLEKYPIRIRCSNDNCGQIIATVKKLEPSAKKVEKKCESCNSTSDLTEIKT 271
VE L+ + S N T ++ E + + + +L
Sbjct: 321 AVETLLCFADLDMIRYEFKNSEGNPVITYMTKEQEEKDSTNSFLLDKDTGAEMELVSSML 380
Query: 272 KLSELNEM 279
L E
Sbjct: 381 LSEWLAEH 388
>2c7p_A Modification methylase HHAI; DNA methyltransferase,
methyltransferase, base flipping, restriction system,
transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus
haemolyticus} SCOP: c.66.1.26 PDB: 10mh_A* 1m0e_A*
1mht_A* 1hmy_A* 1skm_A* 2c7o_A* 2c7q_A* 2hmy_B* 2hr1_A*
3eeo_A* 3mht_A* 4mht_A* 5mht_A* 6mht_A* 7mht_A* 8mht_A*
9mht_A* 2zcj_A* 2z6u_A* 2z6q_A* ...
Length = 327
Score = 27.4 bits (61), Expect = 6.5
Identities = 8/26 (30%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 166 IVKALRPLKPKEVVAEN-YGLVFSRK 190
I + +R KPK V EN
Sbjct: 104 IARIVREKKPKVVFMENVKNFASHDN 129
>4f4h_A Glutamine dependent NAD+ synthetase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, ligase; 1.75A {Burkholderia thailandensis}
Length = 565
Score = 27.8 bits (62), Expect = 6.8
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 311 VPPYKLASLAHEALRNCWSLAGNKWVIPEN 340
+ + L RN + G ++PE
Sbjct: 440 IAKTLVYRLCR--YRNAAAEYGQPDIVPER 467
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 0.133 0.407
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,190,749
Number of extensions: 295584
Number of successful extensions: 589
Number of sequences better than 10.0: 1
Number of HSP's gapped: 579
Number of HSP's successfully gapped: 34
Length of query: 346
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 252
Effective length of database: 4,077,219
Effective search space: 1027459188
Effective search space used: 1027459188
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: 58 (26.3 bits)