RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4808
(156 letters)
>3lac_A Pyrrolidone-carboxylate peptidase; alpha beta class, three layer
sandwich, hydrolase, protease, thiol protease,
structural genomics; 2.00A {Bacillus anthracis}
Length = 215
Score = 89.6 bits (221), Expect = 5e-23
Identities = 26/131 (19%), Positives = 54/131 (41%), Gaps = 17/131 (12%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
VL+TGF PF +INP+WE L ++ +I+ +Q+ ++ + ++
Sbjct: 3 TVLLTGFDPFGGESINPAWEVAKSLHEKTI-GEYKIISKQVPTVFHKSISVLKEYIEELA 61
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
P+ +I +G + IT+E A ++ + + L ++++
Sbjct: 62 PEFIICIGQAGGRPDITIERVAINIDDARIADNEGNQPVDVPVVEEGPAAYWSTLPMKAI 121
Query: 130 VKEFQTNKANI 140
VK+ Q
Sbjct: 122 VKKLQEEGIPA 132
>3ro0_A Pyrrolidone-carboxylate peptidase; hydrolase-hydrolase inhibitor
complex; HET: TPT; 1.50A {Bacillus amyloliquefaciens}
PDB: 3rnz_A* 1aug_A
Length = 223
Score = 87.2 bits (215), Expect = 4e-22
Identities = 36/131 (27%), Positives = 51/131 (38%), Gaps = 17/131 (12%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF T+NPSWEAV L IV EQ+ + + KK+
Sbjct: 4 KVLLTGFDPFGGETVNPSWEAVKRLNGAAEG-PASIVSEQVPTVFYKSLAVLREAMKKHQ 62
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
PD++I VG + +IT E A T L ++ +
Sbjct: 63 PDIIICVGQAGGRMQITPERVAINLNEARIPDNEGNQPVGEDISQGGPAAYWTGLPIKRI 122
Query: 130 VKEFQTNKANI 140
V+E +
Sbjct: 123 VEEIKKEGIPA 133
>2ebj_A Pyrrolidone carboxyl peptidase; TTHA08 degradation of proteins and
peptides, structural genomics; 1.90A {Thermus
thermophilus}
Length = 192
Score = 86.1 bits (212), Expect = 5e-22
Identities = 25/126 (19%), Positives = 48/126 (38%), Gaps = 19/126 (15%)
Query: 27 VLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYNP 86
+L+TGF PF + NPS + LLP + + K + V + + L + P
Sbjct: 2 ILVTGFEPFGSLEHNPSQALLDLLPSEVD--GKPLRKAVLPVDAEALGEALEDLH-REGP 58
Query: 87 DLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESLV 130
V+H+G+++ +TLE A +L + V+ ++
Sbjct: 59 KAVLHLGLAEDRPVLTLERLAVNLLDFPRPDNRGRVLEDLPIVPGGPLALPARFPVKPVL 118
Query: 131 KEFQTN 136
++
Sbjct: 119 ARWREA 124
>3giu_A Pyrrolidone-carboxylate peptidase; IDP00836, hydrolase, PROT thiol
protease, structural genomics; HET: MSE PG4; 1.25A
{Staphylococcus aureus subsp}
Length = 215
Score = 86.4 bits (213), Expect = 7e-22
Identities = 32/131 (24%), Positives = 51/131 (38%), Gaps = 18/131 (13%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
+L+TGF PF INPSWEAV+ L D I I K ++ S+ VD + +
Sbjct: 5 HILVTGFAPFDNQNINPSWEAVTQLEDIIGTH--TIDKLKLPTSFKKVDNIINKTLASNH 62
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
D+V+ +G + + IT E A + D + L V+++
Sbjct: 63 YDVVLAIGQAGGRNAITPERVAINIDDARIPDNDDFQPIDQAIHLDGAPAYFSNLPVKAM 122
Query: 130 VKEFQTNKANI 140
+
Sbjct: 123 TQSIINQGLPG 133
>1x10_A Pyrrolidone-carboxylate peptidase; stability of protein, hydrolase;
2.00A {Pyrococcus furiosus} PDB: 1z8t_A 1z8x_A 1ioi_A
1x12_A 1z8w_A 2eo8_A 1iof_A 2df5_A
Length = 208
Score = 86.1 bits (212), Expect = 9e-22
Identities = 24/131 (18%), Positives = 47/131 (35%), Gaps = 17/131 (12%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF INP+ L + ++ + V + + ++
Sbjct: 2 KVLVTGFEPFGGEKINPTERIAKDLDGI-KIGDAQVFGRVLPVVFGKAKEVLEKTLEEIK 60
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
PD+ IHVG++ I++E A + + + L ++ +
Sbjct: 61 PDIAIHVGLAPGRSAISIERIAVNAIDARIPDNEGKKIEDEPIVPGAPTAYFSTLPIKKI 120
Query: 130 VKEFQTNKANI 140
+K+
Sbjct: 121 MKKLHERGIPA 131
>1iu8_A Pyrrolidone-carboxylate peptidase; hydrolase, thiol protease,
complete proteome; 1.60A {Pyrococcus horikoshii} SCOP:
c.56.4.1
Length = 206
Score = 85.7 bits (211), Expect = 1e-21
Identities = 27/131 (20%), Positives = 49/131 (37%), Gaps = 20/131 (15%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
K+L+TGF PF NP+ + V L +R E+V E + VS+ + +
Sbjct: 2 KILLTGFEPFGGDDKNPTMDIVEALSER----IPEVVGEILPVSFKRAREKLLKVLDDVR 57
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
PD+ I++G++ I++E A + + +
Sbjct: 58 PDITINLGLAPGRTHISVERVAVNMIDARIPDNDGEQPKDEPIVEGGPAAYFATIPTREI 117
Query: 130 VKEFQTNKANI 140
V+E + N
Sbjct: 118 VEEMKKNGIPA 128
>1a2z_A Pyrrolidone carboxyl peptidase; N-pyroglutamate hydrolysis; 1.73A
{Thermococcus litoralis} SCOP: c.56.4.1
Length = 220
Score = 85.3 bits (210), Expect = 2e-21
Identities = 27/131 (20%), Positives = 49/131 (37%), Gaps = 17/131 (12%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVLITGF PF + NP+ + + N + + VS + + ++
Sbjct: 3 KVLITGFEPFGGDSKNPTEQIAKYFDRK-QIGNAMVYGRVLPVSVKRATIELKRYLEEIK 61
Query: 86 PDLVIHVGVSDMADKITLECKA----------------AELCQCTDSIDVIKTALDVESL 129
P++VI++G++ IT+E A + D+ L V ++
Sbjct: 62 PEIVINLGLAPTYSNITVERIAVNIIDARIPDNDGYQPIDEKIEEDAPLAYMATLPVRAI 121
Query: 130 VKEFQTNKANI 140
K + N
Sbjct: 122 TKTLRDNGIPA 132
>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 = 41.0 bits (95), Expect = 7e-05
Identities = 28/188 (14%), Positives = 57/188 (30%), Gaps = 53/188 (28%)
Query: 5 VELDTDTRGET-SNALDVTASFKVLITGFG--PFKTHTINPSWEAVSLLPDRI---PNT- 57
+ LD + T + K L P + T NP +S++ + I T
Sbjct: 289 ISLDHHSMTLTPDEVKSLLL--KYLDCRPQDLPREVLTTNP--RRLSIIAESIRDGLATW 344
Query: 58 ------NIEIVKEQIQVSYN----------YV-------DVTVPA-----LWKKYNPDLV 89
N + + I+ S N + +P +W V
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 90 IHVGVSDMADKITLECKAAE------------LCQCTDSIDVIKTALDVESLVKEFQTNK 137
+ V V+ + +E + E + + + ++ +D ++ K F ++
Sbjct: 405 MVV-VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 138 ANINQVLD 145
LD
Sbjct: 464 LIPPY-LD 470
>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 = 0.003
Identities = 17/113 (15%), Positives = 33/113 (29%), Gaps = 42/113 (37%)
Query: 19 LDVTASFKVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVS-YNYVD--- 74
L V + PF +H + P A L+ + N+ + IQ+ Y+ D
Sbjct: 421 LPVAS----------PFHSHLLVP---ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 75 ----------------VTVPALWKKYNPDLVIHV---------GVSDMADKIT 102
+ +P W+ H+ G+ + +
Sbjct: 468 LRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNK 520
>3gve_A YFKN protein; alpha-beta-BETA-alpha sandwich, structural genomics,
PSI-2, structure initiative; HET: CIT; 1.25A {Bacillus
subtilis subsp}
Length = 341
Score = 33.2 bits (76), Expect = 0.023
Identities = 23/98 (23%), Positives = 34/98 (34%), Gaps = 19/98 (19%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KV GF P + +W+ +L +E E T+P + K
Sbjct: 164 KVGYIGFVPPQI----MTWDKKNLEGQVQVQDIVESANE-----------TIPKM-KAEG 207
Query: 86 PDLVI---HVGVSDMADKITLECKAAELCQCTDSIDVI 120
D++I H G+ A E +L T ID I
Sbjct: 208 ADVIIALAHTGIEKQAQSSGAENAVFDLATKTKGIDAI 245
>2rh8_A Anthocyanidin reductase; flavonoids, rossmann fold, short chain
dehydrogenase/reductase, oxidoreductase; 2.22A {Vitis
vinifera} PDB: 3hfs_A
Length = 338
Score = 29.9 bits (68), Expect = 0.27
Identities = 8/45 (17%), Positives = 13/45 (28%), Gaps = 1/45 (2%)
Query: 32 FGPFKTHTINPSWEAV-SLLPDRIPNTNIEIVKEQIQVSYNYVDV 75
G T + S SL+ N + + S + V
Sbjct: 199 AGSSLTSDVPSSIGLAMSLITGNEFLINGMKGMQMLSGSVSIAHV 243
>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 = 28.8 bits (63), Expect = 0.62
Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 21/46 (45%)
Query: 63 KEQI---QVSYN-YVDVTVPALWKKYNPDLVIHVGVSDMADKITLE 104
K+ + Q S Y D + PAL A K T+E
Sbjct: 19 KQALKKLQASLKLYADDSAPAL-----------------AIKATME 47
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 27.4 bits (60), Expect = 1.7
Identities = 8/63 (12%), Positives = 17/63 (26%), Gaps = 12/63 (19%)
Query: 25 FKVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKY 84
K L+ + PF+ I +P I + + N + +
Sbjct: 161 KKFLVIAYEPFENIAI------------ELPPNEILFSENNDMDNNNDGVDELNKKCTFW 208
Query: 85 NPD 87
+
Sbjct: 209 DAI 211
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
0.317 0.132 0.382
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,357,808
Number of extensions: 132268
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 288
Number of HSP's successfully gapped: 25
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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: 53 (24.7 bits)