RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16712
(221 letters)
>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 = 36.2 bits (83), Expect = 0.007
Identities = 39/183 (21%), Positives = 65/183 (35%), Gaps = 60/183 (32%)
Query: 28 AVVNYTNRSGGSPVDESLLIKSYCAA-----TGSAVA-TALSLNHLAK-KAP-------- 72
VN TN P + + I A +G + L+L L K KAP
Sbjct: 351 DYVNKTNSHL--PAGKQVEISLVNGAKNLVVSGPPQSLYGLNL-TLRKAKAPSGLDQSRI 407
Query: 73 --------------PIFARLVPF-SA--VAAANMVNIPFMRNKEITDG----LPVYDANN 111
P+ + PF S V A++++N ++N + +PVYD +
Sbjct: 408 PFSERKLKFSNRFLPVAS---PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 112 --NLIGNSQKAAVTGISMVVVSRI-------GMAT------PGMI-GIPVILNYLERKGT 155
+L S + + ++ + AT PG G+ V L + + GT
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGV-LTHRNKDGT 523
Query: 156 -IR 157
+R
Sbjct: 524 GVR 526
Score = 35.0 bits (80), Expect = 0.017
Identities = 46/234 (19%), Positives = 74/234 (31%), Gaps = 65/234 (27%)
Query: 24 QSFNAVVNYTNRSGGSPVDESLLIKSYCAATGSAVATAL------------SLNHLAKKA 71
+++ R S L ++ G+A A+ L L +
Sbjct: 124 KNYITARIMAKRPFDKKS-NSALFRA--VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 72 PPIFARLVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNN------------------L 113
+ L+ FSA + ++ K T GL + + N L
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240
Query: 114 IGNSQKAAVTGISMVVVSRIGMATPGMIGIPVILNYLERKGTIRHLKWAPTAIQIGLLAV 173
IG Q A VV +++ TPG + +YL KG H + TA+ +A
Sbjct: 241 IGVIQLA-----HYVVTAKLLGFTPGE-----LRSYL--KGATGHSQGLVTAV---AIAE 285
Query: 174 ------FLTFTTPMCCALF-----PQQT-PIQISSLEPELQERAKKLN---PPP 212
F LF + P +SL P + E + + N P P
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYP--NTSLPPSILEDSLENNEGVPSP 337
>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 = 0.090
Identities = 32/278 (11%), Positives = 72/278 (25%), Gaps = 87/278 (31%)
Query: 7 FTIRRSTPAVVFWQWFNQSFNAVVNYTNRSGGSPVDESLLI----------KSYCAATGS 56
+ ++ +FW +N N + E++L ++ + +
Sbjct: 174 YKVQCKMDFKIFW----------LNLKNCN----SPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 57 AVATALSLNHLAKKAPPIFAR------LVPFSAVAAANMVNIPF---------MRNKEIT 101
+ L ++ + + + L+ V A N F R K++T
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-AFNLSCKILLTTRFKQVT 278
Query: 102 DGLPVYDANNNLIGNSQKAAVTGISMVVVSR-IGMAT-----------P---GMIGIPVI 146
D L + + + ++ + + P +I I
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA-ESI 337
Query: 147 LNYLERKGTIRHLKWAP--TAIQIGLLAVFLTFTTP-------MCCALFPQQTPIQISSL 197
+ L +H+ T I+ L P ++FP I L
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIE-----SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 198 ----------EPE--LQERAKKL-----NPPPTVGYYN 218
+ + + K T+ +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
>2p9m_A Hypothetical protein MJ0922; structural genomics, collaboratory for
structural genomics, secsg; 2.59A {Methanocaldococcus
jannaschii dsm 2661ORGANISM_TAXID}
Length = 138
Score = 26.8 bits (60), Expect = 3.5
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
M +I LPV D N +IG
Sbjct: 34 MLKYKI-SSLPVIDDENKVIG 53
Score = 26.4 bits (59), Expect = 4.9
Identities = 11/31 (35%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 85 AAANMVNIPFMRNKEITDGLPVYDANNNLIG 115
A M I + LPV D NN L+G
Sbjct: 95 AIKKMDISGKKEEI-I-NQLPVVDKNNKLVG 123
>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0,
hydrogen ION transport, inner membrane, ION transport,
membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A
3dze_A 3e2j_A
Length = 176
Score = 27.1 bits (60), Expect = 3.7
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 18 FWQWFNQSFNAVVNYTNRSGG 38
FW+W N FN V + R G
Sbjct: 2 FWEWLNAVFNKVDHDRIRDVG 22
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA
glycosylase, transition state analog, DNA repair; HET:
NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A*
1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Length = 369
Score = 27.3 bits (61), Expect = 4.2
Identities = 7/37 (18%), Positives = 14/37 (37%)
Query: 185 LFPQQTPIQISSLEPELQERAKKLNPPPTVGYYNKGL 221
LF I S ++ +++ G +N+ L
Sbjct: 157 LFLVTDDIAKPSTRKRFEQIVREIMAYENPGAFNEAL 193
>2o16_A Acetoin utilization protein ACUB, putative; structural genomics,
unknown function, PSI-2, protein struct initiative;
1.90A {Vibrio cholerae} SCOP: d.37.1.1
Length = 160
Score = 26.5 bits (59), Expect = 4.5
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
M +I +P+ DAN L+G
Sbjct: 31 MEALDIR-HVPIVDANKKLLG 50
>1o50_A CBS domain-containing predicted protein TM0935; CBS-domain PAIR
fold, structural genomics, joint center for structural
genomics, JCSG; 1.87A {Thermotoga maritima} SCOP:
d.37.1.1
Length = 157
Score = 26.5 bits (59), Expect = 4.8
Identities = 4/21 (19%), Positives = 8/21 (38%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
+ +T +N L+G
Sbjct: 42 ILEDPVT-RTVYVARDNKLVG 61
>3kpb_A Uncharacterized protein MJ0100; CBS domain, S-adenosylmethionine,
conformational change, unknown function; HET: SAM; 1.60A
{Methanocaldococcus jannaschii} PDB: 3kpd_A* 3kpc_A*
Length = 122
Score = 26.3 bits (59), Expect = 4.9
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
+ I LP+ D + L+G
Sbjct: 27 LIKHNIN-HLPIVDEHGKLVG 46
>2nyc_A Nuclear protein SNF4; bateman2 domain, AMP kinase, protein binding;
1.90A {Saccharomyces cerevisiae} SCOP: d.37.1.1 PDB:
2nye_A
Length = 144
Score = 26.4 bits (59), Expect = 5.0
Identities = 5/22 (22%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIGN 116
+ ++ +P+ D N LI
Sbjct: 37 LTQGRVS-SVPIIDENGYLINV 57
>3ddj_A CBS domain-containing protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: AMP; 1.80A {Sulfolobus solfataricus} SCOP:
d.37.1.1 d.37.1.1
Length = 296
Score = 27.0 bits (60), Expect = 5.3
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
M K I L + + +N + G
Sbjct: 253 MIVKRI-GSLLILNKDNTIRG 272
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A
{Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A
1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A*
1wef_A* 1kg7_A 1kqj_A
Length = 225
Score = 26.7 bits (60), Expect = 5.8
Identities = 5/37 (13%), Positives = 15/37 (40%)
Query: 185 LFPQQTPIQISSLEPELQERAKKLNPPPTVGYYNKGL 221
+ +E +L ++++ P V +N+ +
Sbjct: 148 CYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAM 184
>2uv4_A 5'-AMP-activated protein kinase subunit gamma-1; transferase, CBS
domain, lipid synthesis, fatty acid biosynthesis; HET:
AMP; 1.33A {Homo sapiens} PDB: 2uv5_A* 2uv6_A* 2uv7_A*
Length = 152
Score = 26.1 bits (58), Expect = 6.0
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 1/22 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIGN 116
++ LPV D ++
Sbjct: 47 FVQHRVS-ALPVVDEKGRVVDI 67
>3gpg_A NSP3, non-structural protein 3; macro domain, X domain,
alphavirus, VIZI enzymes involved in replication,
ATP-binding, cell membrane endosome; 1.65A {Chikungunya
virus} PDB: 3gpo_A* 3gpq_A
Length = 168
Score = 26.4 bits (59), Expect = 6.2
Identities = 10/43 (23%), Positives = 11/43 (25%), Gaps = 12/43 (27%)
Query: 28 AVVNYTNRS--GGSPVD--------ESLLIKSYCAATGSAVAT 60
VVN N G V ES G+A
Sbjct: 26 CVVNAANPRGLPGDGVCKAVYKKWPESFKN--SATPVGTAKTV 66
>2c6q_A GMP reductase 2; TIM barrel, metal-binding, NADP, oxidoreductase,
potassium; HET: IMP NDP; 1.70A {Homo sapiens} PDB:
2bzn_A* 2a7r_A* 2ble_A* 2bwg_A*
Length = 351
Score = 26.4 bits (59), Expect = 7.1
Identities = 9/54 (16%), Positives = 19/54 (35%), Gaps = 12/54 (22%)
Query: 90 VNIPFMRNKEITDGLPVYDANNNLIGNSQKAAVTGISMVVVSRIGMATPGMIGI 143
+ F +K+ G+P+ AN + +G + A V + +
Sbjct: 44 RSFSFRNSKQTYSGVPIIAANMDTVGTFEMAKV------------LCKFSLFTA 85
>3fv6_A YQZB protein; CBS domain dimer, metabolism regulator, central
glycolytic G regulator, transcription; 1.95A {Bacillus
subtilis} PDB: 3fwr_A* 3fws_A*
Length = 159
Score = 26.1 bits (58), Expect = 7.4
Identities = 6/21 (28%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
M +++ L V D + L+G
Sbjct: 42 MFLEDV-GTLFVVDRDAVLVG 61
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices,
helix-hairpin-helix motif, iron-sulfur cluste hydrolase;
2.30A {Homo sapiens}
Length = 287
Score = 26.5 bits (59), Expect = 7.4
Identities = 6/37 (16%), Positives = 14/37 (37%)
Query: 185 LFPQQTPIQISSLEPELQERAKKLNPPPTVGYYNKGL 221
+ + + +L A++L P G +N+
Sbjct: 168 VRAIGADPSSTLVSQQLWGLAQQLVDPARPGDFNQAA 204
>3t4n_C Nuclear protein SNF4; CBS domain, nucleotide binding, cytosol,
protein binding; HET: ADP; 2.30A {Saccharomyces
cerevisiae} PDB: 3tdh_C* 3te5_C* 2qlv_C
Length = 323
Score = 26.5 bits (58), Expect = 8.3
Identities = 5/22 (22%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIGN 116
+ ++ +P+ D N LI
Sbjct: 216 LTQGRVS-SVPIIDENGYLINV 236
>1zb1_A BRO1 protein; AIP1, BRO1 domain, SNF7, trafficking, protein
transport; 1.95A {Saccharomyces cerevisiae}
Length = 392
Score = 26.3 bits (57), Expect = 8.3
Identities = 3/27 (11%), Positives = 11/27 (40%)
Query: 63 SLNHLAKKAPPIFARLVPFSAVAAANM 89
+ +A K ++ ++P ++
Sbjct: 356 YMQDVANKYDSLYRGIIPLDVYEKESI 382
>1vr9_A CBS domain protein/ACT domain protein; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: MSE; 1.70A {Thermotoga maritima}
SCOP: d.37.1.1
Length = 213
Score = 25.9 bits (57), Expect = 9.2
Identities = 5/22 (22%), Positives = 8/22 (36%), Gaps = 1/22 (4%)
Query: 94 FMRNKEITDGLPVYDANNNLIG 115
MR + + V D + G
Sbjct: 38 RMRQYQT-NECIVKDREGHFRG 58
>3sl7_A CBS domain-containing protein CBSX2; CBS-PAIR protein, redox
regulator, plant CBS domain, thiored chloroplast,
membrane protein; 1.91A {Arabidopsis thaliana}
Length = 180
Score = 25.8 bits (57), Expect = 9.8
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 95 MRNKEITDGLPVYDANNNLIG 115
+ K++T GLPV D N L+G
Sbjct: 32 LVEKKVT-GLPVIDDNWTLVG 51
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
0.320 0.134 0.406
Gapped
Lambda K H
0.267 0.0577 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,399,914
Number of extensions: 197669
Number of successful extensions: 459
Number of sequences better than 10.0: 1
Number of HSP's gapped: 456
Number of HSP's successfully gapped: 27
Length of query: 221
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 131
Effective length of database: 4,188,903
Effective search space: 548746293
Effective search space used: 548746293
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: 55 (25.3 bits)