RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11622
(346 letters)
>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 = 42.5 bits (99), Expect = 2e-04
Identities = 57/461 (12%), Positives = 125/461 (27%), Gaps = 141/461 (30%)
Query: 5 QDLSNN--LEANSIEAIQDDPEPK----IEKNVPENEPCDTNTAEPP------------- 45
L +A D+ + K + K++ E D
Sbjct: 14 HQYQYKDILSVF-EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72
Query: 46 -----LSKRAMKRKLKHE-KWLKWKPIKR------------AKEREKLKQKKQYAREHNI 87
+ ++ ++ L+ K+L PIK ++R++L Q ++N+
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131
Query: 88 PLGPSRKALKLVKMETSPNK----------------LRVCIDFSF--------------- 116
L+ +E P K L VC+ +
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 117 -----DHLMTQKDICKCVKQFNWCYSLNRRAQHPLQFYVSSFKDKCKQEIARYNGYEH-- 169
L + + + NW + + L+ S + + + + + YE+
Sbjct: 192 CNSPETVLEMLQKLLYQIDP-NWTSRSDHSSNIKLRI--HSIQAE-LRRLLKSKPYENCL 247
Query: 170 ------WDVHIHEQAYLDLFKKEDL---VYLTSDSDNIIEELDQSKVYIIGGLVDHNQHK 220
+ + F +L + LT+ + + L + I +DH+
Sbjct: 248 LVLLNVQNAKA-----WNAF---NLSCKILLTTRFKQVTDFLSAATTTHI--SLDHHS-M 296
Query: 221 LLTLNKARE-----ENIAHGKLP---------------------IDTYLNMKTRQVLAVN 254
LT ++ + + LP + T+ N K +
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 255 HVFQILLAI---SSDKKSWKDALLETLPERKNAAAK-------NTGSEDAESCGEEEFEI 304
+ + L + + +K + L P + + D +
Sbjct: 357 TIIESSLNVLEPAEYRKMFDR--LSVFPPSAHIPTILLSLIWFDVIKSDVMVV-VNKLHK 413
Query: 305 KTGGEKSGNE-RCEAESCDRSEHEKKVQDSTCEKKLLECDN 344
+ EK E S K + + +++ N
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454
>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 = 38.5 bits (89), Expect = 0.004
Identities = 31/175 (17%), Positives = 52/175 (29%), Gaps = 54/175 (30%)
Query: 18 AIQDDPEPKIEKNVPE-NE--PCD-------TNTAE------PPLSKRAMKRKLKHEKWL 61
+I + + +++ V + N P N A+ PP S + L+ K
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 62 KWKPIKRAK--EREKLKQKKQY----AREHNIPLGPSRKALKLVKMETSPNKLRVCIDFS 115
R ER KLK ++ + H+ L P A L+ + N + S
Sbjct: 400 SGLDQSRIPFSER-KLKFSNRFLPVASPFHSHLLVP---ASDLINKDLVKN------NVS 449
Query: 116 FD---------HLMTQKDICK-------------CVKQFNWCYSLNRRAQHPLQF 148
F+ D+ W + +A H L F
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF 504
>1k92_A Argininosuccinate synthase, argininosuccinate SY; N-type ATP
pyrophosphatase, ligase; 1.60A {Escherichia coli} SCOP:
c.26.2.1 d.210.1.1 PDB: 1k97_A* 1kp2_A* 1kp3_A*
Length = 455
Score = 31.0 bits (71), Expect = 0.61
Identities = 5/36 (13%), Positives = 10/36 (27%), Gaps = 3/36 (8%)
Query: 60 WLKWKPIKRAKEREKLKQKKQYAREHNIPLGPSRKA 95
WL I R ++ + + S +
Sbjct: 156 WLDTDFIDELGGRHEMSE---FMIACGFDYKMSVEK 188
>4g65_A TRK system potassium uptake protein TRKA; structural genomics,
center for structural genomics of infec diseases, csgid,
niaid; HET: MSE; 2.09A {Vibrio vulnificus}
Length = 461
Score = 30.7 bits (70), Expect = 0.68
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 18/71 (25%)
Query: 181 DLFKKEDLVYLTSDSDNI--------IEELDQSKVYIIGG----------LVDHNQHKLL 222
+ + +D V+ + S++I E ++ I+GG L KL+
Sbjct: 204 TIIEADDEVFFVAASNHIRSVMSELQRLEKPYRRIMIVGGGNIGASLAKRLEQTYSVKLI 263
Query: 223 TLNKAREENIA 233
N R E ++
Sbjct: 264 ERNLQRAEKLS 274
>1vl2_A Argininosuccinate synthase; TM1780, structural genomics, JCS
protein structure initiative, PSI, joint center for
structu genomics, ligase; 1.65A {Thermotoga maritima}
SCOP: c.26.2.1 d.210.1.1
Length = 421
Score = 29.1 bits (66), Expect = 2.1
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 60 WLKWKPIKRAKEREKLKQKKQYAREHNIPLGPSRKA 95
W + + + K R L YA E IP+ S+K
Sbjct: 155 WKDPEFLAKFKGRTDLIN---YAMEKGIPIKVSKKR 187
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA
methyltransferase fold, maintenance methyla transferase;
HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A*
3pt6_A* 3pt9_A* 4da4_A*
Length = 1002
Score = 29.5 bits (65), Expect = 2.1
Identities = 12/86 (13%), Positives = 26/86 (30%), Gaps = 1/86 (1%)
Query: 253 VNHVFQILLAISSDKKSWKDALLETLPERKNAAAKNTGSEDAESCGEEEFEIKTGGEKSG 312
V +F A +K ++ R+ + + C + +K GG
Sbjct: 26 VYQIFDTFFAEQIEKDD-REDKENAFKRRRCGVCEVCQQPECGKCKACKDMVKFGGSGRS 84
Query: 313 NERCEAESCDRSEHEKKVQDSTCEKK 338
+ C+ C ++ D +
Sbjct: 85 KQACQERRCPNMAMKEADDDEEVDDN 110
>2hnh_A DNA polymerase III alpha subunit; DNA replication,
nucleotidyltransferase, beta, PHP, transferase; HET:
DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
Length = 910
Score = 29.0 bits (66), Expect = 2.8
Identities = 5/14 (35%), Positives = 12/14 (85%)
Query: 80 QYAREHNIPLGPSR 93
Q+++++ +P+GP R
Sbjct: 349 QWSKDNGVPVGPGR 362
>2nz2_A Argininosuccinate synthase; amino-acid biosynthesis, aspartate,
citrulline, ST genomics, structural genomics consortium,
SGC, ligase; HET: CIR; 2.40A {Homo sapiens}
Length = 413
Score = 28.7 bits (65), Expect = 3.2
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 60 WLKWKPIKRAKEREKLKQKKQYAREHNIPLGPSRK 94
W + R K R L + YA++H IP+ + K
Sbjct: 146 WRMPEFYNRFKGRNDLME---YAKQHGIPIPVTPK 177
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold, transferase; HET: DNA;
3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*
Length = 1220
Score = 28.8 bits (65), Expect = 3.7
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 80 QYAREHNIPLGPSR 93
+AR H + +GP R
Sbjct: 411 NWARGHGVSVGPGR 424
>3g79_A NDP-N-acetyl-D-galactosaminuronic acid dehydrogen; structural
genomics, protein structure initiative; 2.40A
{Methanosarcina mazei GO1}
Length = 478
Score = 28.4 bits (64), Expect = 4.0
Identities = 8/58 (13%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 184 KKEDLVYLTSDSDNIIEELDQSKVYIIGGLVDHNQHKLLTLNKAREENIAHGKLPIDT 241
V ++ + + ++ D ++ L H+ + L + A++ + + ID
Sbjct: 397 VNYPGVEISDNLEEVVRNAD---AIVV--LAGHSAYSSLKADWAKKVSAKANPVIIDG 449
>2w7t_A CTP synthetase, putative cytidine triphosphate synthase;
glutaminase domain, trypsanosoma brucei, ligase,
acivicin; HET: 5CS; 2.10A {Trypanosoma brucei}
Length = 273
Score = 27.6 bits (61), Expect = 5.4
Identities = 7/12 (58%), Positives = 8/12 (66%), Gaps = 1/12 (8%)
Query: 80 QYAREHNIP-LG 90
Q AR +NIP G
Sbjct: 90 QVARMNNIPYFG 101
>3nva_A CTP synthase; rossman fold, nucleotide binding, LIG; 2.50A
{Sulfolobus solfataricus}
Length = 535
Score = 27.4 bits (62), Expect = 8.0
Identities = 10/12 (83%), Positives = 11/12 (91%), Gaps = 1/12 (8%)
Query: 80 QYAREHNIP-LG 90
+YAREHNIP LG
Sbjct: 373 KYAREHNIPFLG 384
>3m66_A Mterf3, mterf domain-containing protein 1, mitochondrial;
mitochondrion, DNA binding protein, transcription
factor, transcription termination; 1.60A {Homo sapiens}
PDB: 3opg_A 3my3_A
Length = 270
Score = 27.1 bits (60), Expect = 8.9
Identities = 6/52 (11%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 104 SPNKLRVCIDFSFDHLMTQKDICKCVKQFNWCYSLN-RRAQHPLQFYVSSFK 154
L+ + + ++ D+ + V++ + + + R + L F+ +
Sbjct: 72 DLENLKTRVAYLHSKNFSKADVAQMVRKAPFLLNFSVERLDNRLGFFQKELE 123
>1vco_A CTP synthetase; tetramer, riken structural genomics/proteomics
initiative, RSGI, structural genomics, ligase; HET: GLN;
2.15A {Thermus thermophilus} SCOP: c.23.16.1 c.37.1.10
PDB: 1vcn_A 1vcm_A
Length = 550
Score = 27.1 bits (61), Expect = 9.4
Identities = 9/12 (75%), Positives = 9/12 (75%), Gaps = 1/12 (8%)
Query: 80 QYAREHNIP-LG 90
QYARE IP LG
Sbjct: 378 QYARERKIPYLG 389
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
0.313 0.130 0.384
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,099,994
Number of extensions: 294945
Number of successful extensions: 603
Number of sequences better than 10.0: 1
Number of HSP's gapped: 598
Number of HSP's successfully gapped: 31
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.0 bits)