RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021316
(314 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 = 182 bits (465), Expect = 3e-57
Identities = 66/215 (30%), Positives = 115/215 (53%), Gaps = 17/215 (7%)
Query: 77 YVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSK 136
+ P + VE++++G V V PTD+ YA+ C ++ +A+ER+ RI+ +
Sbjct: 4 FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGH 63
Query: 137 PLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYG 196
+++CR L ++ TY+ FR +K+ PG YTFIL +KEVP++ +
Sbjct: 64 NFTLMCRDLSELSTYS--------FVDNVAFRLMKNNTPGNYTFILKGTKEVPRRLL--- 112
Query: 197 TTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPE 256
K RK +G+R+P++ I QA+L+ + P++STS+ DP I D +
Sbjct: 113 --QEK---RKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQ 167
Query: 257 GLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGP 291
+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 = 5e-29
Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 49/231 (21%)
Query: 76 MYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPS 135
+ + LE + +++ G + + PTDT+Y + + A+ RL R+K P
Sbjct: 2 LIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPH 61
Query: 136 KPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRY 195
KP+SI + +I ++ ++ LPGPYT +L ++ +P +
Sbjct: 62 KPVSICVSCVDEIPRFSRPSGD--------AMELMERILPGPYTVVLERNELIPDV-ITG 112
Query: 196 GTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYG- 254
G++ VG+R+P+D IC+ I + P+ +TS A+ G
Sbjct: 113 GSSR--------VGIRVPDDEICRRIAARF--PVTATS----------------ANISGK 146
Query: 255 --P----------EGLDFVVDGG-VRVAEPSTVVDMTGTYPKIIRQGKGPK 292
+ +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 = 75.6 bits (187), Expect = 1e-16
Identities = 44/216 (20%), Positives = 74/216 (34%), Gaps = 48/216 (22%)
Query: 86 DSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSL 145
+ +++L E V PT+ ++ + CD S +A+ RL +K K L ++ +
Sbjct: 6 QRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANY 65
Query: 146 RDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLR 205
+ Y D Q + PGP TF+ A P + + +
Sbjct: 66 EQLKPYIDDTMLTDVQ-----RETIFSRWPGPVTFVFPAPATTP-RWLTGRFDS------ 113
Query: 206 KHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYG---P------- 255
+ VR+ + + A+ Q PL+STS A+ G
Sbjct: 114 --LAVRVTDHPLVVALCQAYGKPLVSTS----------------ANLSGLPPCRTVDEVR 155
Query: 256 ---EGLDFVVDGGV-RVAEPSTVVDM-TGTYPKIIR 286
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 = 66.9 bits (164), Expect = 9e-13
Identities = 49/220 (22%), Positives = 89/220 (40%), Gaps = 41/220 (18%)
Query: 81 DPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPS-KPLS 139
DP + K++ ++++ G PT+T+Y + + +A ++ + KN P PL
Sbjct: 8 DPLNPEIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKN-RPVDNPLI 66
Query: 140 ILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTT 199
+ + P + + PGP TF+L ++ VPK+ V G T
Sbjct: 67 VHIADFNQLFEVAKDIP-------DKVLEIAQIVWPGPLTFVLKKTERVPKE-VTAGLDT 118
Query: 200 AKYSLRKHVGVRIPNDAICQAILQKMDAPL------ISTSVKWLKDNEWMVDPV----VI 249
V VR+P I ++++ P+ ++T P VI
Sbjct: 119 --------VAVRMPAHPIALQLIRESGVPIAAPSANLATRPS----------PTKAEDVI 160
Query: 250 ADTYGPEGLDFVVDGG-VRVAEPSTVVDMTGTYPKIIRQG 288
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 = 65.9 bits (161), Expect = 3e-12
Identities = 36/223 (16%), Positives = 79/223 (35%), Gaps = 32/223 (14%)
Query: 81 DPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSI 140
D ++ V + LKEG + + + + + A+ LRR K KP ++
Sbjct: 197 GEGCFDDE-IKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRKK-RYGKPFAV 254
Query: 141 LCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTA 200
+ R + ++ Y P + + P + +++ K + T
Sbjct: 255 MMRDVEEVKKYCIVSPE-----EERLLLSQ----RRPIVLLKKKGEKLAKG-IADDLDT- 303
Query: 201 KYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGL-- 258
+GV +P I +++++D P++ TS + + +P+ + E L
Sbjct: 304 -------LGVMLPYAPIHYLLMEEIDFPIVMTSGN-VSE-----EPICKDNEEALEKLKD 350
Query: 259 --DFVVDGGVRVAEP--STVVDMTGTYPKIIRQGKGPKLYWME 297
D + + +V +IIR+ +G +
Sbjct: 351 IADVFLLNNRDIVNRIDDSVTSFNAGAERIIRRARGYAPQPIL 393
>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 = 58.9 bits (142), Expect = 9e-10
Identities = 55/364 (15%), Positives = 98/364 (26%), Gaps = 127/364 (34%)
Query: 16 RSHLHSLEAATRRAAPFPGRVSSL-----SPKPKPSR--------------------FRI 50
L L T A + ++ +P P + + +
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 51 VAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWK--------------------- 89
A + +P L+ T + + DSW+
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY 311
Query: 90 -------LEP-VVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRI-KNVEPSKPLSI 140
L P ++E E GV P+ L + +L + + + ++ K + I
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGV-PSPML--SISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 141 LCRSLRDIDTYT----TGFPRGDGQGHANIFRAVKHCLPG------PYTFILTASKEVPK 190
SL ++ +G P+ G R K G P+ S+ K
Sbjct: 369 ---SL--VNGAKNLVVSGPPQ-SLYGLNLTLRKAK-APSGLDQSRIPF------SERKLK 415
Query: 191 KCVRYGTTTAKY--SLRKHVGVRIPNDAICQAI-------------------LQKMDAPL 229
R+ + + L I D + + L+ + +
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI 475
Query: 230 ISTSVKWLKDNEWMVDPVV-----------IADTYGPEGLDFV-------VDG-GVRVAE 270
V + + PV I D +GP G + DG GVRV
Sbjct: 476 SERIVDCI-----IRLPVKWETTTQFKATHILD-FGPGGASGLGVLTHRNKDGTGVRVIV 529
Query: 271 PSTV 274
T+
Sbjct: 530 AGTL 533
Score = 39.6 bits (92), Expect = 0.001
Identities = 47/333 (14%), Positives = 95/333 (28%), Gaps = 121/333 (36%)
Query: 10 DTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIV-----AMTV------KRS 58
+ +L + +H+L AA + ++ A + K+S
Sbjct: 92 ENCYLEGNDIHAL------AAKLLQE----NDTTLVKTKELIKNYITARIMAKRPFDKKS 141
Query: 59 PKRLKYSAPR--------FTKEGG----------L--MYVEADPSGADSWKLEPVVELLK 98
L + F GG L +Y + ++ E L
Sbjct: 142 NSALFRAVGEGNAQLVAIF---GGQGNTDDYFEELRDLY-QTYHVLVGDL-IKFSAETLS 196
Query: 99 EGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVE-----P-SKPLS---------ILCR 143
E + + ++ ++ +E + + P S PL + +
Sbjct: 197 ELIRTTLDAEKVFTQGLNI--LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK 254
Query: 144 SLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTT----- 198
L GF G+ + + G ++TA + +
Sbjct: 255 LL--------GFTPGE---LRSYLKGATGHSQG----LVTAV------AIAETDSWESFF 293
Query: 199 -TAKYSLRK--HVGVR----IPNDAICQAILQK-----MDAP---LISTSVKWLKDN--E 241
+ + ++ +GVR PN ++ +IL+ P L S+ L +
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML---SISNLTQEQVQ 350
Query: 242 WMVD----------PVVIADTYGPEGLDFVVDG 264
V+ V I+ G + + VV G
Sbjct: 351 DYVNKTNSHLPAGKQVEISLVNGAK--NLVVSG 381
Score = 37.0 bits (85), Expect = 0.009
Identities = 22/111 (19%), Positives = 29/111 (26%), Gaps = 43/111 (38%)
Query: 48 FRIVAMTVKRSPKRLKYSAPRFTKEGGL--------MYVEADPSGADSWKLEPVVELLKE 99
F I+ + V +P L F E G M E G K E + + + E
Sbjct: 1659 FSILDI-VINNPVNL---TIHFGGEKGKRIRENYSAMIFETIVDG--KLKTEKIFKEINE 1712
Query: 100 GAVGVV---PTDTL--------------YAIVCDLKS------------HS 121
+ L A DLKS HS
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Score = 27.3 bits (60), Expect = 9.6
Identities = 10/65 (15%), Positives = 19/65 (29%), Gaps = 2/65 (3%)
Query: 250 ADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDL 309
AD + + F + V + + G K IR+ ++ E E +
Sbjct: 1649 ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF--ETIVDGKLKTEKI 1706
Query: 310 IPSAT 314
Sbjct: 1707 FKEIN 1711
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A
{Streptococcus mutans}
Length = 295
Score = 56.2 bits (135), Expect = 2e-09
Identities = 29/156 (18%), Positives = 51/156 (32%), Gaps = 18/156 (11%)
Query: 86 DSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSL 145
+ E + EG V V PT Y I+ +ER K +KP +LC S+
Sbjct: 43 GNLSQEGFEIVKGEGGVIVCPTKVGYIIMTS--DKKGLERKFEAKKRNRNKPGVVLCGSM 100
Query: 146 RDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTF--ILTASKEVPKKCVRYGT------ 197
++ P I + IL E +K YG
Sbjct: 101 EELRALAQLTPE--------IDAFYQKHWDEDILLGCILPWKAEAYEKLKAYGDGREELM 152
Query: 198 TTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTS 233
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 = 55.5 bits (134), Expect = 7e-09
Identities = 29/159 (18%), Positives = 57/159 (35%), Gaps = 24/159 (15%)
Query: 75 LMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEP 134
L +V L+ + LK G + + + + CD ++ +A+ LR K+ P
Sbjct: 99 LEWVSHGEHAEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRARKH-RP 157
Query: 135 SKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVR 194
+KPL+++ + + R + P + +
Sbjct: 158 AKPLAVMLPVADGLP---------------DAARQLLTTPAAPIVLVDKKYVPELCDDIA 202
Query: 195 YGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTS 233
G VGV +P + + +LQ++ PL+ TS
Sbjct: 203 PGLNE--------VGVMLPANPLQHLLLQELQCPLVMTS 233
>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 = 34.4 bits (78), Expect = 0.044
Identities = 31/221 (14%), Positives = 61/221 (27%), Gaps = 79/221 (35%)
Query: 117 LKSHSAIERLRR----------------IKNVEPSKPLSILCRSL---RDIDTYTTGFPR 157
L+ HS LRR ++N + ++ C+ L R T F
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ--VTDFLS 282
Query: 158 GDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRI---PN 214
H ++ H K + L K++ R P
Sbjct: 283 AATTTH----ISLDHHSMT---LTPDEVKSL---------------LLKYLDCRPQDLPR 320
Query: 215 DAICQAILQKMDAPL-ISTSVKWLKD-----NEWMVDPVVIADTYGPEGLDFVVDGGVRV 268
+ P +S + ++D + W + L +++ + V
Sbjct: 321 EV-LTT------NPRRLSIIAESIRDGLATWDNW--------KHVNCDKLTTIIESSLNV 365
Query: 269 AEPSTVVDMTGTYPK--IIRQG-KGP----KLYW--MEEED 300
EP+ + + + + P L W + + D
Sbjct: 366 LEPA---EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Score = 33.7 bits (76), Expect = 0.085
Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 60/196 (30%)
Query: 108 DTLYAIV----CD--LKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQ 161
D +I+ D + S A+ R+ L +
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRL--------FWTLLS-----------------K 74
Query: 162 GHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAI 221
+ + V+ L Y F+++ K ++ T R R+ ND +
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQ--PSMMTRMYIEQRD----RLYNDN---QV 125
Query: 222 LQKMDAP------LISTSVKWLKDNEWMV--------DPVVIADTYGPEGLDFVVDGGV- 266
K + + ++ L+ + ++ V D + +D +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 267 -----RVAEPSTVVDM 277
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 = 31.8 bits (72), Expect = 0.35
Identities = 11/77 (14%), Positives = 26/77 (33%), Gaps = 5/77 (6%)
Query: 234 VKWLKDNEWMVDP-VVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQG-KGP 291
+K ++ P +G GL + + G V + + + ++ G + P
Sbjct: 330 IKLF---DFYFGPKGRELSNFGVPGLTYDIKNGKPVYKDTVLKAAQPVNNQMYDIGAQIP 386
Query: 292 KLYWMEEEDANSTAIED 308
+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 = 1.7
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
+ + +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 = 2.0
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
+ + 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 = 2.4
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
+ + +V + + S + RL PS+ IL ++
Sbjct: 310 NGVLEVVSAM-NSSPVYRLDHTFEQIPSRQKKIL-EEAHEL 348
>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 = 28.0 bits (61), Expect = 2.8
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 13/41 (31%)
Query: 56 KRSPKRLKYSAPRFTKEGGL-MYVEADPSGADSWKLEPVVE 95
K++ K+L + L +Y A + ++ +E
Sbjct: 19 KQALKKL---------QASLKLYA---DDSAPALAIKATME 47
Score = 26.8 bits (58), Expect = 5.7
Identities = 7/18 (38%), Positives = 9/18 (50%), Gaps = 4/18 (22%)
Query: 54 TVKRSPKRLK-Y---SAP 67
+K+ LK Y SAP
Sbjct: 21 ALKKLQASLKLYADDSAP 38
>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 = 4.1
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
++ +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 = 28.3 bits (62), Expect = 4.8
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
++ +AIV L S+ A+ RL PSK +
Sbjct: 849 NSFFAIVMGL-SNVAVSRLALTWEKLPSKFKKFY-AEFESL 887
>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 = 28.0 bits (62), Expect = 5.4
Identities = 10/79 (12%), Positives = 18/79 (22%), Gaps = 5/79 (6%)
Query: 234 VKWLKDNEWMVDP-VVIADTYGPEGLDFVVDG-GVRVAEPSTVVDMTGTYPKIIRQGKGP 291
+K + + G G G + + +TG
Sbjct: 367 LKLA---NLLYSEKYSVQQFLGSFGKAITKTGEHEYTVDNDKLSQLTGDNQYPGLSELLV 423
Query: 292 KLYWMEEEDANSTAIEDLI 310
E T ++LI
Sbjct: 424 GWIPDEATIKGDTHADELI 442
>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 = 6.0
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 6/55 (10%)
Query: 216 AICQAILQKMDA------PLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDG 264
+ A + +DA + D ++DP + L F +D
Sbjct: 135 CLNAACMALVDAGVPMRALFCGVACALDSDGTLVLDPTSKQEKEARAVLTFALDS 189
>1lr0_A TOLA protein; domain-swapping, TONB, protein transport; 1.91A
{Pseudomonas aeruginosa} SCOP: d.212.1.1
Length = 129
Score = 26.5 bits (58), Expect = 6.7
Identities = 11/43 (25%), Positives = 15/43 (34%), Gaps = 3/43 (6%)
Query: 21 SLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLK 63
S AA R P + L S +R + K P+ L
Sbjct: 83 SAVAAVRNVGRIP-EMQQLPRATFDSLYRQRRIIFK--PEDLS 122
>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 = 27.0 bits (60), Expect = 7.3
Identities = 8/41 (19%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 108 DTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDI 148
+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 = 7.6
Identities = 8/55 (14%), Positives = 15/55 (27%), Gaps = 6/55 (10%)
Query: 216 AICQAILQKMDA------PLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDG 264
AI + A ++ L+D E ++D + V
Sbjct: 119 AINACCAALVFAGIPLKHLAVAIGCGVLEDGEVILDTNKAEEQQLKSFAHLVFPN 173
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 0.135 0.409
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,975,528
Number of extensions: 308473
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 669
Number of HSP's successfully gapped: 38
Length of query: 314
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 221
Effective length of database: 4,105,140
Effective search space: 907235940
Effective search space used: 907235940
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: 57 (25.7 bits)