RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8293
(124 letters)
>3kuq_A RHO GTPase-activating protein 7; structural genomics consortium,
GTPase activation, SGC, alternative splicing, cytoplasm,
phosphoprotein; 2.30A {Homo sapiens}
Length = 228
Score = 113 bits (285), Expect = 8e-33
Identities = 57/105 (54%), Positives = 75/105 (71%), Gaps = 1/105 (0%)
Query: 13 NNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
SVFGVPL VN+Q+TG LP+ I + +L N+ DQ+G+FRK GVK+RIQ LR+M +
Sbjct: 17 QGSVFGVPLTVNVQRTGQPLPQSIQQAMRYLRNHCLDQVGLFRKSGVKSRIQALRQMNEG 76
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+ Q AYDVAD++KQYFR+LPE L+TNK SETF+ I+Q
Sbjct: 77 -AIDCVNYEGQSAYDVADMLKQYFRDLPEPLMTNKLSETFLQIYQ 120
>3eap_A RHO GTPase-activating protein 11A; GAP, structural genomics
consortium, GTPase activation, phosphoprotein,
polymorphism hydrolase activator, SGC; 2.30A {Homo
sapiens}
Length = 271
Score = 84.4 bits (209), Expect = 3e-21
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 7/108 (6%)
Query: 13 NNSVFGVPLLVNIQKTGY---ALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREM 69
+FGVP +P F++ + + + G+FRK G R++ L+
Sbjct: 61 GGKIFGVPFNALPHSAVPEYGHIPSFLVDACTS-LEDHIHTEGLFRKSGSVIRLKALKNK 119
Query: 70 ADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
D + L D+A L+KQ+FRELPE +L E + Q
Sbjct: 120 VDHGEGCLSSAP---PCDIAGLLKQFFRELPEPILPADLHEALLKAQQ 164
>2osa_A N-chimaerin; RHO-GAP, GTPase activation, structural genomics,
structural genomics consortium, SGC, signaling protein;
1.80A {Homo sapiens}
Length = 202
Score = 77.3 bits (191), Expect = 5e-19
Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 4/107 (3%)
Query: 11 KNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMA 70
K+ V+ L ++ P + + + + G++R G I+ ++
Sbjct: 3 KHVKKVYSCDLTTLVKAHTTKRPMVVDMCIREIESRGLNSEGLYRVSGFSDLIEDVKMAF 62
Query: 71 DEVDFKLDEVDSQQAYD---VADLVKQYFRELPEVLLTNKSSETFMS 114
D D + ++ D + +K YFR+LP L+T + F+
Sbjct: 63 DR-DGEKADISVNMYEDINIITGALKLYFRDLPIPLITYDAYPKFIE 108
>3byi_A RHO GTPase activating protein 15; BM046, arhgap15, structural
genomics consortium, signaling protein; 2.25A {Homo
sapiens}
Length = 214
Score = 77.7 bits (192), Expect = 5e-19
Identities = 32/114 (28%), Positives = 49/114 (42%), Gaps = 1/114 (0%)
Query: 2 TKKTKFHHFKNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKT 61
+ KT + +FG L ++ +P F+ E + D GI+R G
Sbjct: 5 SLKTLQEKGLIKDQIFGSHLHKVCERENSTVPWFVKQCIEAVEKRGLDVDGIYRVSGNLA 64
Query: 62 RIQKLREMAD-EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
IQKLR + + E LD+ + + V +K +FRELPE L E F+
Sbjct: 65 TIQKLRFIVNQEEKLNLDDSQWEDIHVVTGALKMFFRELPEPLFPYSFFEQFVE 118
>1tx4_A P50-rhogap; complex (GTPase activation/proto-oncogene), GTPase,
transition state, GAP; HET: GDP; 1.65A {Homo sapiens}
SCOP: a.116.1.1 PDB: 1am4_A* 1grn_B*
Length = 198
Score = 76.1 bits (188), Expect = 1e-18
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 3/106 (2%)
Query: 14 NSVFGVPL--LVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD 71
N FGV L L +P + + +L +A GIFR+ ++++++ +
Sbjct: 6 NQQFGVSLQHLQEKNPEQEPIPIVLRETVAYLQAHALTTEGIFRRSANTQVVREVQQKYN 65
Query: 72 EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+D + A ++K + RELPE LLT +
Sbjct: 66 M-GLPVDFDQYNALHLPAVILKTFLRELPEPLLTFDLYPHVVGFLN 110
>3msx_B RHO GTPase-activating protein 20; protein-proten complex,
transition state, protein BI; HET: GDP; 1.65A {Homo
sapiens}
Length = 201
Score = 75.0 bits (185), Expect = 4e-18
Identities = 21/108 (19%), Positives = 46/108 (42%), Gaps = 6/108 (5%)
Query: 11 KNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMA 70
+FG+ L + LPK ++ +L GIFR+ ++L+E
Sbjct: 7 PMPGQLFGISLPNICENDN--LPKPVLDMLFFLNQKGPLTKGIFRQSANVKSCRELKEKL 64
Query: 71 D-EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+ V+ LD + +A ++K + R +P + ++ + ++S+
Sbjct: 65 NSGVEVHLDCES---IFVIASVLKDFLRNIPGSIFSSDLYDHWVSVMD 109
>1ow3_A RHO-GTPase-activating protein 1; complex, GTPase, GAP, transition
state, gene regulation/signaling protein complex; HET:
GDP; 1.80A {Homo sapiens} SCOP: a.116.1.1 PDB: 1rgp_A
2ngr_B*
Length = 242
Score = 74.7 bits (184), Expect = 1e-17
Identities = 24/106 (22%), Positives = 44/106 (41%), Gaps = 3/106 (2%)
Query: 14 NSVFGVPL--LVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD 71
N FGV L L +P + + +L +A GIFR+ ++++++ +
Sbjct: 42 NQQFGVSLQHLQEKNPEQEPIPIVLRETVAYLQAHALTTEGIFRRSANTQVVREVQQKYN 101
Query: 72 EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+D + + A ++K + RELPE LLT +
Sbjct: 102 M-GLPVDFDQYNELHLPAVILKTFLRELPEPLLTFDLYPHVVGFLN 146
>3cxl_A N-chimerin; SH2, RHO-GAP, structural genomics consortium, SGC,
gtpas activation, metal-binding, phorbol-ester binding,
SH2 domai finger; 2.60A {Homo sapiens} PDB: 1xa6_A
Length = 463
Score = 74.9 bits (184), Expect = 3e-17
Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 4/107 (3%)
Query: 11 KNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMA 70
K+ V+ L ++ P + + + + G++R G I+ ++
Sbjct: 264 KHVKKVYSCDLTTLVKAHTTKRPMVVDMCIREIESRGLNSEGLYRVSGFSDLIEDVKMAF 323
Query: 71 DEVDFKLDEVDSQQAYD---VADLVKQYFRELPEVLLTNKSSETFMS 114
D D + ++ D + +K YFR+LP L+T + F+
Sbjct: 324 DR-DGEKADISVNMYEDINIITGALKLYFRDLPIPLITYDAYPKFIE 369
>3iug_A RHO/CDC42/RAC GTPase-activating protein RICS; structural genomics
consortium (SGC), GAP, alternative splicing, cell
junction, cell membrane; 1.77A {Homo sapiens}
Length = 229
Score = 72.4 bits (178), Expect = 6e-17
Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 3/102 (2%)
Query: 15 SVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREM--ADE 72
VFG L ++ +G+ +P+ + S ++ GI+R GV + IQ+LR ++
Sbjct: 20 RVFGCDLGEHLLNSGFEVPQVLQSCTAFIERYGIVD-GIYRLSGVASNIQRLRHEFDSEH 78
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
V E Q + V L K YFRELP LLT + E F
Sbjct: 79 VPDLTKEPYVQDIHSVGSLCKLYFRELPNPLLTYQLYEKFSD 120
>2ee4_A RHO GTPase activating protein 5 variant; all alpha protein,
GTPase-activating protein for RHO family members,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2ee5_A
Length = 209
Score = 71.5 bits (176), Expect = 1e-16
Identities = 22/105 (20%), Positives = 45/105 (42%), Gaps = 7/105 (6%)
Query: 13 NNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD- 71
++ FG+PL ++ +P F+ E++ + G++R G KT +++ D
Sbjct: 9 ESNYFGMPL-QDLVTAEKPIPLFVEKCVEFIEDTGLCTEGLYRVSGNKTDQDNIQKQFDQ 67
Query: 72 --EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
++ EV VA +K +F +LP+ L+ +
Sbjct: 68 DHNINLVSMEVTV---NAVAGALKAFFADLPDPLIPYSLHPELLE 109
>3fk2_A Glucocorticoid receptor DNA-binding factor 1; structural genomics
consortium, GTPase-activating protein, SGC, alternative
splicing, anti-oncogene; 2.80A {Homo sapiens}
Length = 246
Score = 70.9 bits (174), Expect = 3e-16
Identities = 25/117 (21%), Positives = 45/117 (38%), Gaps = 7/117 (5%)
Query: 2 TKKTKFHHFKNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKT 61
+ ++ FGVPL + +P FI E++ GI+R G K+
Sbjct: 39 KPRPSITKATWESNYFGVPL-TTVVTPEKPIPIFIERCIEYIEATGLSTEGIYRVSGNKS 97
Query: 62 RIQKLREMADE---VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSI 115
++ L+ D+ +D + VA +K +F ELP+ L+ +
Sbjct: 98 EMESLQRQFDQDHNLDLAEKDFT---VNTVAGAMKSFFSELPDPLVPYNMQIDLVEA 151
>1f7c_A Rhogap protein; GTPase activating protein, RHO GTPase regulator, BH
domain, signaling protein; 2.40A {Gallus gallus} SCOP:
a.116.1.1
Length = 231
Score = 69.6 bits (171), Expect = 7e-16
Identities = 18/106 (16%), Positives = 39/106 (36%), Gaps = 7/106 (6%)
Query: 16 VFGVPLLVNIQKTGYAL---PKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
V+ + T I + ++ G++R GV +R+QKL + +
Sbjct: 18 VYNSNKDNQSEGTAQLDSIGFSIIKKCIHAVETRGINEQGLYRIVGVNSRVQKLLSILMD 77
Query: 73 ----VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
+ + + + + +K Y R LP L+ + +F+
Sbjct: 78 PKTATETETEICAEWEIKTITSALKTYLRMLPGPLMMYQFQRSFIK 123
>1pbw_A Rhogap domain, phosphatidylinositol 3-kinase; phosphotransferase,
tpase activating protein, CDC42, phosphoinositide
3-kinase, SH3 domain; 2.00A {Homo sapiens} SCOP:
a.116.1.1
Length = 216
Score = 63.9 bits (156), Expect = 1e-13
Identities = 17/107 (15%), Positives = 40/107 (37%), Gaps = 4/107 (3%)
Query: 15 SVFGVPL--LVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
+ L L P +I E + + ++R + + +LR++ D
Sbjct: 6 EQQALTLPDLAEQFAPPDIAPPLLIKLVEAIEKKGLECSTLYRTQS-SSNLAELRQLLDC 64
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQPI 119
D +++ + +AD K+Y +LP ++ +S+ +
Sbjct: 65 -DTPSVDLEMIDVHVLADAFKRYLLDLPNPVIPAAVYSEMISLAPEV 110
>3qis_A Inositol polyphosphate 5-phosphatase OCRL-1; DENT disease, RAC1,
RAB gtpases, APPL1, endocytic PATH golgi complex,
hydrolase-protein binding complex; 2.30A {Homo sapiens}
PDB: 2qv2_A
Length = 366
Score = 63.8 bits (155), Expect = 2e-13
Identities = 20/100 (20%), Positives = 42/100 (42%), Gaps = 3/100 (3%)
Query: 15 SVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVD 74
+ VPL + +PK I + L A Q +F+ PG++ +Q++ + D
Sbjct: 182 LLQMVPLDEGASERPLQVPKEIWLLVDHLFKYACHQEDLFQTPGMQEELQQIIDCLDT-- 239
Query: 75 FKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
+ E + VA+ + + LPE ++ + + +
Sbjct: 240 -SIPETIPGSNHSVAEALLIFLEALPEPVICYELYQRCLD 278
>2ovj_A Mgcracgap, RAC GTPase-activating protein 1; signaling protein,
structural genomics, structural genomics consortium,
SGC; HET: 7PE; 1.49A {Homo sapiens}
Length = 201
Score = 62.3 bits (152), Expect = 3e-13
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 49 DQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQ-AYDVADLVKQYFRELPEVLLTNK 107
+ G++R G +++L+E + + + + L+K + R L E LLT +
Sbjct: 34 TETGLYRISGCDRTVKELKEKFLR-VKTVPLLSKVDDIHAICSLLKDFLRNLKEPLLTFR 92
Query: 108 SSETFMS 114
+ FM
Sbjct: 93 LNRAFME 99
>2xs6_A Phosphatidylinositol 3-kinase regulatory subunit; structural
genomics consortium, SGC, transferase; 2.09A {Homo
sapiens}
Length = 214
Score = 52.5 bits (126), Expect = 1e-09
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 10/70 (14%)
Query: 49 DQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKS 108
D +R R D+ L +VD +AD +K + LP L+T ++
Sbjct: 57 DSESHYRPELPAPR----------TDWSLSDVDQWDTAALADGIKSFLLALPAPLVTPEA 106
Query: 109 SETFMSIFQP 118
S +
Sbjct: 107 SAEARRALRE 116
>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate-T ligase
1, glurs 1, structural genomics, joint center for ST
genomics, JCSG; 2.34A {Thermotoga maritima}
Length = 481
Score = 29.8 bits (68), Expect = 0.16
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVL 103
K R++ L E +E F ++ ++ + +K+ F +L E L
Sbjct: 371 EITKERVEVLSEFPEESRFFFEDPA---PVEIPEEMKEVFSQLKEEL 414
>1odo_A Putative cytochrome P450 154A1; P450 monooxygenase, oxidoreductase;
HET: HEM PIM; 1.85A {Streptomyces coelicolor} SCOP:
a.104.1.1
Length = 408
Score = 29.2 bits (66), Expect = 0.28
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 7/43 (16%)
Query: 62 RIQKLR----EMADEVDFKLDEVDSQQAYDVADLVKQYFRELP 100
R+ +R M + +D + A + DL ++ LP
Sbjct: 110 RVDAMRPAVEAMVTGL---VDRLAELPAGEPVDLRQELAYPLP 149
>2okt_A OSB synthetase, O-succinylbenzoic acid synthetase; enolase,
structural genom protein structure initiative, PSI,
nysgrc; 1.30A {Staphylococcus aureus subsp} PDB: 2ola_A
3h70_A
Length = 342
Score = 29.3 bits (66), Expect = 0.30
Identities = 9/49 (18%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 56 KPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLL 104
P + +I+ LRE+ +D+ ++ D D + + L +
Sbjct: 150 TPQIMHQIRVLRELDFHFQLV---IDANESLDRQDFTQ--LQLLAREQV 193
>2wm5_A CYP124, putative cytochrome P450 124; metal-binding,
oxidoreductase, omega-hydroxylation, iron, heme, fatty
acid, monooxygenase; HET: HEM; 1.50A {Mycobacterium
tuberculosis} PDB: 2wm4_A*
Length = 435
Score = 28.1 bits (63), Expect = 0.80
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 65 KLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELP 100
+R+ A + + + + ADLV + LP
Sbjct: 147 AVRDRAHRL---VSSMIANNPDRQADLVSELAGPLP 179
>1wuf_A Hypothetical protein LIN2664; structural genomics, unknown
function, nysgxrc target T2186, superfamily, protein
structure initiative, PSI; 2.90A {Listeria innocua}
SCOP: c.1.11.2 d.54.1.1
Length = 393
Score = 27.3 bits (61), Expect = 1.4
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLT 105
++ +R+ ++ D+ AY+ D + +EL + L
Sbjct: 192 FVEAVRKSFPKLSLM---ADANSAYNREDFLL--LKELDQYDLE 230
>2ja2_A Glutamyl-tRNA synthetase; non-discriminating glutamyl-tRNA
aminoacylation, protein biosynthesis, aminoacyl-tRNA
synthetase, ligase; 1.65A {Mycobacterium tuberculosis}
PDB: 3pny_A 3pnv_A
Length = 498
Score = 27.1 bits (61), Expect = 1.5
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 3/47 (6%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVL 103
V+TRI L + + + F D+ D K+ + VL
Sbjct: 367 ELVQTRIVVLGDAWELLKFFNDDQY---VIDPKAAAKELGPDGAAVL 410
>3u9i_A Mandelate racemase/muconate lactonizing enzyme, C domain protein;
structural genomics, PSI-biology; 2.90A {Roseiflexus SP}
Length = 393
Score = 26.9 bits (60), Expect = 1.6
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 4/40 (10%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPE 101
RI +R++A +D Y D ++ L
Sbjct: 207 RIVAIRDVAPTARLI---LDGNCGYTAPDALR-LLDMLGV 242
>3m9d_G Prokaryotic ubiquitin-like protein PUP; alpha helix coil COIL, 5
beta-strand barrel, ATP-binding, CH nucleotide-binding,
proteasome; 4.50A {Mycobacterium tuberculosis}
Length = 68
Score = 25.7 bits (55), Expect = 1.7
Identities = 9/35 (25%), Positives = 19/35 (54%)
Query: 64 QKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRE 98
++ ++ +E D LDE+D + D V+ Y ++
Sbjct: 31 ERREKLTEETDDLLDEIDDVLEENAEDFVRAYVQK 65
>3al0_C Glutamyl-tRNA(Gln) amidotransferase subunit C, GL tRNA synthetase
2; protein-RNA complex, ligase-RNA complex; HET: GSU;
3.37A {Thermotoga maritima}
Length = 592
Score = 26.8 bits (60), Expect = 2.3
Identities = 8/48 (16%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRE-LPEVL 103
+ ++ L ++ D + +++ Y+ + K RE VL
Sbjct: 469 RICREKVNTLSQLYDIMYPFMNDDY---EYEKDYVEKFLKREEAERVL 513
>3afh_A Glutamyl-tRNA synthetase 2; protein-substrate complex,
aminoacyl-tRNA synthetase, ATP-binding, ligase,
nucleotide-binding; HET: GSU; 2.00A {Thermotoga
maritima} PDB: 3akz_B*
Length = 488
Score = 26.3 bits (59), Expect = 2.6
Identities = 8/48 (16%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRE-LPEVL 103
+ ++ L ++ D + +++ Y+ + K RE VL
Sbjct: 365 RICREKVNTLSQLYDIMYPFMNDDY---EYEKDYVEKFLKREEAERVL 409
>3m91_B Prokaryotic ubiquitin-like protein PUP; coil COIL alpha helix,
ATP-binding, chaperone, nucleotide-BI proteasome,
S-nitrosylation; 1.80A {Mycobacterium tuberculosis}
Length = 44
Score = 24.8 bits (53), Expect = 2.8
Identities = 9/35 (25%), Positives = 19/35 (54%)
Query: 64 QKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRE 98
++ ++ +E D LDE+D + D V+ Y ++
Sbjct: 7 ERREKLTEETDDLLDEIDDVLEENAEDFVRAYVQK 41
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 26.0 bits (56), Expect = 4.4
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 5/62 (8%)
Query: 10 FKNNNSVFGVPLLVNIQKTGYALPKFIISSFEW--LINNASDQIGIFRKPG--VKTRIQK 65
F+ + ++G K+ Y LP + + + ++ D R P + R+ K
Sbjct: 257 FRKLDDLYGTWRKAASLKSNYNLPMHKMLNTDLSRILKMPRDP-RALRAPRKKIHRRVLK 315
Query: 66 LR 67
Sbjct: 316 KN 317
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.5 bits (55), Expect = 4.6
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 63 IQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPE 101
I+K RE E +L E+D+ + ++ ++L E
Sbjct: 87 IRKWRE---EQRKRLQELDAASKVMEQEWREKAKKDLEE 122
Score = 24.7 bits (53), Expect = 8.5
Identities = 5/49 (10%), Positives = 22/49 (44%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSE 110
+ ++L+E+ E + D+ + ++ ++ + + N+ ++
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD 142
>2zad_A Muconate cycloisomerase; muconate lactonizing enzyme (MLE), TM0006,
struct genomics, NPPSFA; HET: 1PE; 1.60A {Thermotoga
maritima} PDB: 3deq_A 3der_A* 3des_A* 3dfy_A
Length = 345
Score = 25.7 bits (57), Expect = 4.6
Identities = 5/40 (12%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPE 101
++++ ++ + VD+ Y + V+ + R + +
Sbjct: 172 AVEEIAKVTRGAKYI---VDANMGYTQKEAVE-FARAVYQ 207
>2cfo_A Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase,
ATP-binding, nucleotide-B; HET: GLU; 2.45A
{Synechococcus elongatus}
Length = 492
Score = 25.6 bits (57), Expect = 5.0
Identities = 7/48 (14%), Positives = 17/48 (35%), Gaps = 5/48 (10%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRE-LPEVL 103
++ + LRE D+ +D ++ + Q + +L
Sbjct: 360 QLLQPGLNTLREAIDQGAVFFIPSV---TFD-SEAMAQLGQPQSATIL 403
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition,
helix-coil dynamics, inhibitor design, complex
(polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP:
a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A*
1taq_A*
Length = 832
Score = 25.6 bits (57), Expect = 5.3
Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 58 GVKTRIQKLREMADEVDFKLDEVDSQQAYDVA 89
GV+ + LR ++ EV ++ + + + +A
Sbjct: 448 GVRLDVAYLRALSLEVAEEIARL-EAEVFRLA 478
>1xp4_A D-alanyl-D-alanine carboxypeptidase; five-stranded antiparallel
beta-sheet, omega-like loop, hydrolase; 2.80A
{Streptococcus pneumoniae R6} SCOP: b.105.1.1 e.3.1.1
Length = 379
Score = 25.4 bits (56), Expect = 6.4
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 85 AYDVADLVKQYFRELPEVL-LTNKSSETFMSIFQP 118
AYDVA + + ++ P+VL +T K S TF +
Sbjct: 170 AYDVAIVARNLIKKYPQVLEITKKPSSTFAGMTIT 204
>3hyi_A Protein DUF199/WHIA; laglidadg, homing endonuclease,
helix-turn-helix, HTH, trans regulator; 2.34A
{Thermotoga maritima} PDB: 3hyj_A
Length = 295
Score = 25.3 bits (55), Expect = 6.5
Identities = 2/18 (11%), Positives = 12/18 (66%)
Query: 56 KPGVKTRIQKLREMADEV 73
K + ++++++ ++A+
Sbjct: 274 KSQIYSKLKRIIKIAERF 291
>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc
genomics, center for structural genomics of infectious
DISE csgid; 2.05A {Francisella tularensis subsp}
Length = 246
Score = 25.2 bits (56), Expect = 6.5
Identities = 4/26 (15%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 57 PGVKTRIQKLREMADEVDFKLD-EVD 81
P + + +++ + D + E+D
Sbjct: 176 PAMLDKAKEISKWISSTDRDILLEID 201
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 25.2 bits (56), Expect = 6.7
Identities = 6/28 (21%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 70 ADEVDFKLDEV---DSQQAYDVADLVKQ 94
D ++ LD + + YD+ +L+ +
Sbjct: 283 PDRIEPSLDTLVPDNPNTPYDMKELIHK 310
>1m6y_A S-adenosyl-methyltransferase MRAW; SAM-dependent methyltransferase
fold, protein-cofactor product complex, structural
genomics, PSI; HET: SAH; 1.90A {Thermotoga maritima}
SCOP: a.60.13.1 c.66.1.23 PDB: 1n2x_A*
Length = 301
Score = 25.1 bits (56), Expect = 7.0
Identities = 7/18 (38%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 91 LVKQYFRELPEV-LLTNK 107
+VK+ FR ++ +LT K
Sbjct: 253 IVKETFRNSKKLRILTEK 270
>1j09_A Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase; HET: GLU ATP; 1.80A {Thermus
thermophilus} SCOP: a.97.1.1 c.26.1.1 PDB: 1n75_A*
1n77_A* 1n78_A* 2cuz_A* 2cv0_A* 2cv1_A* 2cv2_A* 2dxi_A*
1g59_A 1gln_A
Length = 468
Score = 25.2 bits (56), Expect = 7.6
Identities = 3/19 (15%), Positives = 9/19 (47%)
Query: 57 PGVKTRIQKLREMADEVDF 75
++ R L+E ++ +
Sbjct: 353 ELMRPRFDTLKEFPEKARY 371
>3fhh_A Outer membrane heme receptor SHUA; membrane protein, transporter,
TONB-dependent transporter, TONB box; HET: BOG; 2.60A
{Shigella dysenteriae}
Length = 640
Score = 25.1 bits (55), Expect = 9.4
Identities = 8/39 (20%), Positives = 12/39 (30%), Gaps = 4/39 (10%)
Query: 78 DEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIF 116
++Q A DL R +P + L I
Sbjct: 28 SAPENQTATSATDL----LRHVPGITLDGTGRTNGQDIN 62
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
0.321 0.136 0.393
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,863,061
Number of extensions: 100626
Number of successful extensions: 340
Number of sequences better than 10.0: 1
Number of HSP's gapped: 319
Number of HSP's successfully gapped: 56
Length of query: 124
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 42
Effective length of database: 4,412,271
Effective search space: 185315382
Effective search space used: 185315382
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 (21.9 bits)
S2: 51 (23.3 bits)