RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013738
(437 letters)
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural
NPPSFA, national project on protein structural and
function analyses; 2.25A {Thermus thermophilus}
Length = 249
Score = 152 bits (387), Expect = 1e-43
Identities = 61/254 (24%), Positives = 99/254 (38%), Gaps = 48/254 (18%)
Query: 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+R L Y G F G G TV+ E+ +AL + ++ + GRTD G
Sbjct: 2 RRL-LLLCEYDGTLFAGLQRQGRGLRTVQGELERALPG----IGALPKAVAA--GRTDAG 54
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
V ++ + + S I LNR+LP+D++V+G
Sbjct: 55 VHALAMPFHVDVESAI--------------------PVEKVPEALNRLLPEDLKVVGARE 94
Query: 211 APTDFSARFSCISREYKY----------------FFWRENLNLSAMESAGKKFVGEHDFR 254
DF AR + R Y+Y + R L+L AME A +G H+F
Sbjct: 95 VAPDFHARKDALWRAYRYRILVRPHPSPLLRHRALWVRRPLDLEAMEEALSLLLGRHNFL 154
Query: 255 NFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314
F K + + +++ G ++ + RG +FL QVR MV L +G
Sbjct: 155 GFAKEETR-PGERELLEARLQVAE---GEAGLEVR-LYFRGKSFLRGQVRGMVGTLLEVG 209
Query: 315 QGLESIDVIESLLD 328
G + ++++L
Sbjct: 210 LGKRPPESLKAILK 223
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding motif,
RNA-modifying enzyme, lyase; 1.50A {Escherichia coli}
SCOP: d.265.1.1 PDB: 2nqp_A 2nr0_A 2nre_A
Length = 264
Score = 144 bits (367), Expect = 1e-40
Identities = 61/257 (23%), Positives = 97/257 (37%), Gaps = 56/257 (21%)
Query: 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKK-ESHYSRCGRTDK 149
+ AL + Y G ++YG+ +V+ ++ KAL + VA++ + GRTD
Sbjct: 4 YKI-ALGIEYDGSKYYGWQRQNE-VRSVQEKLEKALSQ----VANEPITVFCA--GRTDA 55
Query: 150 GVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWS 209
GV GQV+ + + + +N LP DI V
Sbjct: 56 GVHGTGQVVHFETTALR--------------------KDAAWTLGVNANLPGDIAVRWVK 95
Query: 210 PAPTDFSARFSCISREYKY----------------FFWRENLNLSAMESAGKKFVGEHDF 253
P DF ARFS +R Y+Y + E L+ M A + +GE+DF
Sbjct: 96 TVPDDFHARFSATARRYRYIIYNHRLRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDF 155
Query: 254 RNFCKMDAAN--VHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLF 311
+F A R+V ++ + I+ +AF+ H VR +V L
Sbjct: 156 TSFR---AVQCQSRTPWRNVMHINVT------RHGPYVVVDIKANAFVHHMVRNIVGSLM 206
Query: 312 MIGQGLESIDVIESLLD 328
+G + I LL
Sbjct: 207 EVGAHNQPESWIAELLA 223
>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 = 58.1 bits (140), Expect = 4e-09
Identities = 83/487 (17%), Positives = 138/487 (28%), Gaps = 175/487 (35%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKI----EDKVHDGVEDGTT 58
EL+ L + + V+ + + L L E D +H
Sbjct: 55 TTPAELVGKF---LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND-IHALA---AK 107
Query: 59 LVEENRKTESGGCKTGKKKVKEKMSGTLNHHFKRYVALKVMYFGQRFYGFASDGNMEPTV 118
L++EN T K +K Y R + +
Sbjct: 108 LLQENDTTLV----------------------KTKELIKN-YITARI---MAKRPFDKKS 141
Query: 119 ESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQ-VIAIYL----------RSNIK 167
S +F+A V + + G GQ Y +
Sbjct: 142 NSALFRA-------VGEGNAQLVAIFG---------GQGNTDDYFEELRDLYQTYHVLVG 185
Query: 168 ECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGW----SPAP-TDF--SARFS 220
+ ET+ E I +D +V + + ++ W S P D+ S S
Sbjct: 186 DLIK---FSAETLSEL-IRTTLDA----EKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
Query: 221 CISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCY 280
C L + H + K + + T E+
Sbjct: 238 C--------------PLIGVIQLA------H-YVVTAK-----LLGF----TPGELRS-- 265
Query: 281 ISFEGNQLCAIKIRGSAFL-----W----HQVRCMVAVLFMIG---------QGLESIDV 322
+G + + + + W VR + VLF IG L +
Sbjct: 266 -YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 323 IESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQ 382
+SL + G+P P M L + + + ++ ++ HL QV
Sbjct: 325 EDSLENNEGVPS-P---M-----LSISNLTQEQVQ--DYVNK---TNSHLPAGKQVE--- 367
Query: 383 AAIFHEALLN---CLPLANDQNSLRNGMV----KKKA------SHIPLFSRPTEPTYKER 429
I +L+N L ++ SL G+ K KA S IP FS ER
Sbjct: 368 --I---SLVNGAKNLVVSGPPQSLY-GLNLTLRKAKAPSGLDQSRIP-FS--------ER 412
Query: 430 RAKLDSR 436
+ K +R
Sbjct: 413 KLKFSNR 419
Score = 39.6 bits (92), Expect = 0.002
Identities = 42/230 (18%), Positives = 69/230 (30%), Gaps = 70/230 (30%)
Query: 13 Q-SQ-----LEALQNR--VKEL--EADNAKL----LSKLSLCRCEKIEDKVHDGVEDGTT 58
Q SQ ++ + +++ ADN S L + + +H G E G
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 59 LVEENRKTESGGCKTGKKKVKEKMSGTLNHHFKRYV------ALKVMYFGQRFYGFASDG 112
+ E GK K EK+ +N H Y L F Q
Sbjct: 1684 IRENYSAMIFETIVDGKLKT-EKIFKEINEHSTSYTFRSEKGLLSATQFTQ--------- 1733
Query: 113 NMEP---TVESEIFKALEKTRLLVADKK-------ESHYS-------------------- 142
P +E F+ L+ L+ AD E Y+
Sbjct: 1734 ---PALTLMEKAAFEDLKSKGLIPADATFAGHSLGE--YAALASLADVMSIESLVEVVFY 1788
Query: 143 RCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYV 192
R G T + ++ RSN N + + +E ++ ++ V
Sbjct: 1789 R-GMTMQVAVPRDEL----GRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Score = 30.0 bits (67), Expect = 2.0
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 2 SEAKQELISSLQSQLEALQNRVKELEA---DNAKLLSKLSLCRCEKIEDKV 49
E +Q + + L+ + N + ++ D +L LSL E++E +
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSL---EEVEGHL 1895
>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 = 50.2 bits (119), Expect = 1e-06
Identities = 48/320 (15%), Positives = 89/320 (27%), Gaps = 107/320 (33%)
Query: 9 ISSLQSQLEALQNRVKELEADNAK-LLSKLSLCRCEKIEDKVHDG-----------VEDG 56
+S+ + +L + L D K LL K CR + + +V + DG
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
Query: 57 TTLVEENRKTESGGCKTGKKKVKEKMSGTLNH-----HFKRYVALKVMYFGQRFYGFASD 111
+ + K+ + +LN + K + L V F
Sbjct: 341 LATWDNWKHVN-------CDKLTTIIESSLNVLEPAEYRKMFDRLSV---------FPPS 384
Query: 112 ------------GNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIA 159
++ + + L K L+ KES S + +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS--------------IPS 430
Query: 160 IYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARF 219
IYL +K N ++ I +D+ + D+ P D
Sbjct: 431 IYLELKVK--LENEYAL-----HRSI---VDHYNIPKTFDSDDL-----IPPYLD----- 470
Query: 220 SCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNF---------------CKMDAAN- 263
+YF+ +L +E + + F +F N
Sbjct: 471 -------QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 264 ---VHNYKRHVTSFEISPCY 280
+ YK ++ + P Y
Sbjct: 524 LQQLKFYKPYIC--DNDPKY 541
Score = 40.6 bits (94), Expect = 0.001
Identities = 62/457 (13%), Positives = 125/457 (27%), Gaps = 126/457 (27%)
Query: 10 SSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEENRKTESG 69
+S ++ R+ ++A+ +LL C + + V++ +
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL---N-VQNAKAW-----NAFNL 264
Query: 70 GCK----TGKKKVKEKMSGTLNHHFKRYVALKVMYFGQRFYGFASDGNMEPTVES-EIFK 124
CK T K+V + +S H ++L D E +
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTH----ISLD-----HHSMTLTPD-------EVKSLL- 307
Query: 125 ALEKTRLLVADKKESHYSR--CGRTDKGVSSVGQVIAIYL-RS-NIKECNTNNASMGETV 180
L D + R + +S + + I L N K N + + +
Sbjct: 308 ------LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK--LTTII 359
Query: 181 Q---EEQIEDEI-DYVRVLNRVLPKDIRV------IGWSPAPTDFSARFSCISREYKYFF 230
+ E L+ V P + + W
Sbjct: 360 ESSLNVLEPAEYRKMFDRLS-VFPPSAHIPTILLSLIWFDVIKSDVMVVVN--------- 409
Query: 231 WRENLNLSAMESAGKKF-VGEHD--FRNFCKMDA-ANVHNYKRHVTSFEISPCYISFEGN 286
+ S +E K+ + K++ +H + V + I + + +
Sbjct: 410 --KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH--RSIVDHYNIPKTF---DSD 462
Query: 287 QLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPL 346
L + F H IG L++I+ +
Sbjct: 463 DLIPPYLDQY-FYSH-----------IGHHLKNIE---------------HPERMTLFRM 495
Query: 347 VLQSCDF-------DGLKFTCS---LDAGHDLRL---HLRNECQVYQLQAAIFHEALLNC 393
V F D + S L+ L+ ++ + Y+ A+L+
Sbjct: 496 VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV----NAILDF 551
Query: 394 LPLANDQNSLRNGMVKKKAS--HIPLFSRPTEPTYKE 428
LP +N + + K I L + E ++E
Sbjct: 552 LPKIE-ENLICS----KYTDLLRIALMA-EDEAIFEE 582
>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 = 33.0 bits (74), Expect = 0.084
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 8/31 (25%)
Query: 5 KQELISSLQSQLEALQNRVKELEADNAKLLS 35
KQ L+ LQ +K D+A L+
Sbjct: 19 KQ--------ALKKLQASLKLYADDSAPALA 41
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 32.3 bits (74), Expect = 0.37
Identities = 12/81 (14%), Positives = 24/81 (29%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEE 62
+ + LEA + LE + L + E + V + E T +
Sbjct: 915 GDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQ 974
Query: 63 NRKTESGGCKTGKKKVKEKMS 83
+T K + ++
Sbjct: 975 QWTGVKSSAETYKNTLLAELE 995
>3ba0_A Macrophage metalloelastase; FULL-length MMP-12, hemopexin domain,
catalytic domain, domain interaction., calcium,
extracellular matrix; 3.00A {Homo sapiens} PDB: 2jxy_A
Length = 365
Score = 31.9 bits (71), Expect = 0.44
Identities = 17/76 (22%), Positives = 24/76 (31%), Gaps = 7/76 (9%)
Query: 200 PKDIRVIGWSPAPTDFSARFSCISREYKYFF-----WRENLNLSAMESAGKKFVGEHDFR 254
PK I G+ A YFF WR + M+ K + +F+
Sbjct: 260 PKSIHSFGFPNFVKKIDAAVFNPRFYRTYFFVDNQYWRYDERRQMMDPGYPKLI-TKNFQ 318
Query: 255 NF-CKMDAANVHNYKR 269
K+DA K
Sbjct: 319 GIGPKIDAVFYSKNKY 334
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus}
Length = 171
Score = 29.9 bits (68), Expect = 0.98
Identities = 5/42 (11%), Positives = 17/42 (40%)
Query: 10 SSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHD 51
+ L +E K+ + +L S ++ + + ++ +
Sbjct: 28 AKLPKTVERFFEEWKDQRKEIERLKSVIADLWADILMERAEE 69
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 30.7 bits (70), Expect = 1.1
Identities = 22/116 (18%), Positives = 38/116 (32%), Gaps = 18/116 (15%)
Query: 4 AKQELISSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTT---LV 60
+E L ++ E L N KE+ A+ L + ++ + VH+ V D
Sbjct: 68 KAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRS-KINQVGNIVHESVVDSQDEENNE 126
Query: 61 EENRKTESGGCKTGKKKVKEKMSGTLNHH----------FKRYVALKVMYFGQRFY 106
T K + L+HH +R +++ G R Y
Sbjct: 127 LVRTWTPENYKKPEQIAAATGAPAKLSHHEVLLRLDGYDPER--GVRI--VGHRGY 178
>1p5d_X PMM, phosphomannomutase; alpha/beta protein, phosphohexomutase,
phosphoserine, enzyme complex, enzyme-metal complex,
isomerase; HET: SEP G1P; 1.60A {Pseudomonas aeruginosa}
SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1k35_A*
1p5g_X* 1pcj_X* 1pcm_X* 1k2y_X* 2h5a_X* 2h4l_X* 2fkf_A*
3rsm_A 3bkq_X* 3c04_A* 2fkm_X*
Length = 463
Score = 30.3 bits (69), Expect = 1.4
Identities = 19/58 (32%), Positives = 24/58 (41%), Gaps = 28/58 (48%)
Query: 66 TESGG----CKTG----KKKVKEK-------MSGTLNHHFKRYVALKVMYFGQRFYGF 108
+ GG KTG KKK+KE MSG H F F +R++GF
Sbjct: 295 SGYGGRPVMWKTGHSLIKKKMKETGALLAGEMSG---HVF----------FKERWFGF 339
>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic
vesicle, protein transport, transport, vacuole; 2.80A
{Saccharomyces cerevisiae}
Length = 152
Score = 29.1 bits (64), Expect = 1.5
Identities = 6/34 (17%), Positives = 19/34 (55%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSK 36
E + S + LQ ++ +L+ ++++L+++
Sbjct: 99 ERLNAALISGTIENNVLQQKLSDLKKEHSQLVAR 132
>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris,
coiled-coil, structur genomics, PSI-2, protein
structure initiative; 2.00A {Xanthomonas campestris PV}
Length = 78
Score = 27.8 bits (62), Expect = 1.7
Identities = 1/25 (4%), Positives = 8/25 (32%)
Query: 6 QELISSLQSQLEALQNRVKELEADN 30
+ + + L + ++ +
Sbjct: 41 RLTGARNAELIRHLLEDLGKVRSTL 65
>3uw2_A Phosphoglucomutase/phosphomannomutase family PROT; structural
genomics, seattle structural genomics center for
infectious disease; 1.95A {Burkholderia thailandensis}
Length = 485
Score = 29.9 bits (68), Expect = 2.0
Identities = 19/58 (32%), Positives = 22/58 (37%), Gaps = 28/58 (48%)
Query: 66 TESGG----CKTG----KKKVKEK-------MSGTLNHHFKRYVALKVMYFGQRFYGF 108
E GG KTG K K++E MSG H F F R+YGF
Sbjct: 317 REKGGEPLMWKTGHSLVKAKLRETGAPLAGEMSG---HVF----------FKDRWYGF 361
>3k2i_A Acyl-coenzyme A thioesterase 4; alpha/beta hydrolase fold
seven-stranded beta-sandwich, structural genomics,
structural genomics consortium, SGC; 2.40A {Homo
sapiens}
Length = 422
Score = 29.4 bits (65), Expect = 2.3
Identities = 7/32 (21%), Positives = 15/32 (46%)
Query: 178 ETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWS 209
+ + E E+ + Y+ +V I ++G S
Sbjct: 202 DNISLEYFEEAVCYMLQHPQVKGPGIGLLGIS 233
>1x8y_A Lamin A/C; structural protein, intermediate filament protein;
2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A
3v4q_A
Length = 86
Score = 27.2 bits (61), Expect = 2.7
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 9 ISSLQSQLEALQNRVKELEA 28
+S LQ QL A + ++++LE
Sbjct: 5 LSQLQCQLAAKEAKLRDLED 24
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 29.3 bits (66), Expect = 3.4
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 2/65 (3%)
Query: 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLS--LCRCEKIEDKVHDGVEDGTTLVEEN 63
Q I + ++L ++ LE + KL + R E++ + +L EE
Sbjct: 934 QRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEI 993
Query: 64 RKTES 68
K
Sbjct: 994 AKLRK 998
>2g36_A Tryptophanyl-tRNA synthetase; TM0492, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI, ligase; HET: TRP; 2.50A {Thermotoga
maritima}
Length = 340
Score = 28.7 bits (65), Expect = 3.8
Identities = 4/35 (11%), Positives = 18/35 (51%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKL 37
+ K+ L+ +++ +L + ++++ D + +
Sbjct: 280 DCKKLLLKNMKRKLAPIWENFRKIDEDPHYVDDVI 314
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex,
transcription/DNA complex; 2.20A {Homo sapiens} SCOP:
h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 26.2 bits (58), Expect = 4.3
Identities = 9/29 (31%), Positives = 19/29 (65%)
Query: 15 QLEALQNRVKELEADNAKLLSKLSLCRCE 43
++ L+ +VK L+A N++L S ++ R +
Sbjct: 23 RIARLEEKVKTLKAQNSELASTANMLREQ 51
>1yi8_B Tryptophanyl-tRNA synthetase; ligase; HET: TRP; 2.10A {Deinococcus
radiodurans} PDB: 1yia_B* 1yid_B* 2a4m_A*
Length = 351
Score = 28.3 bits (64), Expect = 4.9
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKL 37
+ K+ LI L L ++ R E E D +L +
Sbjct: 290 KVKKHLIDVLNGVLAPIRTRRAEYERDPDAVLRFV 324
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo
sapiens} SCOP: h.1.3.1
Length = 61
Score = 25.8 bits (57), Expect = 5.5
Identities = 8/29 (27%), Positives = 20/29 (68%)
Query: 15 QLEALQNRVKELEADNAKLLSKLSLCRCE 43
+++L+ + ++L + N +L S+++L R E
Sbjct: 23 WVQSLEKKAEDLSSLNGQLQSEVTLLRNE 51
Score = 25.4 bits (56), Expect = 8.6
Identities = 6/29 (20%), Positives = 16/29 (55%)
Query: 5 KQELISSLQSQLEALQNRVKELEADNAKL 33
++ + SL+ + E L + +L+++ L
Sbjct: 20 RKVWVQSLEKKAEDLSSLNGQLQSEVTLL 48
>3tzl_A Tryptophanyl-tRNA synthetase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha-beta
structure; HET: ADP TRP; 2.15A {Campylobacter jejuni
subsp} PDB: 3m5w_A*
Length = 322
Score = 28.2 bits (64), Expect = 5.6
Identities = 6/35 (17%), Positives = 12/35 (34%)
Query: 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKL 37
K L + + + + + EL + L L
Sbjct: 264 HFKIYLNELVNAYFKEAREKYNELLEKPSHLKEIL 298
>1zme_C Proline utilization transcription activator; complex
(transcription regulation/DNA), PUT3, Zn2Cys6,
binuclear cluster; HET: DNA 5IU; 2.50A {Saccharomyces
cerevisiae} SCOP: g.38.1.1 h.1.3.1 PDB: 1ajy_A
Length = 70
Score = 25.8 bits (57), Expect = 6.9
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 14 SQLEALQNRVKELEADNAKLLSKL 37
L+ LQ + + +N +L + L
Sbjct: 44 KYLQQLQKDLNDKTEENNRLKALL 67
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 28.3 bits (63), Expect = 7.3
Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 5/68 (7%)
Query: 1 MSEAKQELISSLQSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLV 60
S+ Q +Q Q+ L+ +++E EA KL + + K+ +D +
Sbjct: 942 RSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLE-----KVTADGKIKKMEDDILIME 996
Query: 61 EENRKTES 68
++N K
Sbjct: 997 DQNNKLTK 1004
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 25.6 bits (56), Expect = 7.8
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLS 38
K + + L+ ++E L ++ LE + A+L +
Sbjct: 28 KLQRMKQLEDKVEELLSKNYHLENEVARLKKLVG 61
>2hh8_A Hypothetical protein YDFO; structure, autostructure, NESG, PSI-2,
northeast structural genomics consortium, protein
structure initiative; NMR {Escherichia coli} SCOP:
d.358.1.1
Length = 149
Score = 27.0 bits (59), Expect = 8.3
Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 241 ESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGS 296
++ K E F+ + + + A ++ E Y +F+ + L I+ +
Sbjct: 81 TTSNKLKSREITFQEYRR-NLAKAGVFRWVTNIHEQKRYYYTFDNSLLFTESIQKT 135
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 25.8 bits (57), Expect = 9.4
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLS 38
I S+Q++ + L + L +L KL
Sbjct: 52 AYILSVQAEEQKLISEEDLLRKRREQLKHKLE 83
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 25.1 bits (55), Expect = 10.0
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 13 QSQLEALQNRVKELEADNAKLLSKLS 38
+ +++L+NRV LE N L+ +L
Sbjct: 21 KEYVKSLENRVAVLENQNKTLIEELK 46
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 0.134 0.394
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,472,615
Number of extensions: 383710
Number of successful extensions: 843
Number of sequences better than 10.0: 1
Number of HSP's gapped: 830
Number of HSP's successfully gapped: 47
Length of query: 437
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 341
Effective length of database: 4,021,377
Effective search space: 1371289557
Effective search space used: 1371289557
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: 59 (26.5 bits)