RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15749
(164 letters)
>1b12_A Signal peptidase I; serine proteinase, serine-dependant
hydrolase, signal peptid processing, protein
translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP:
b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A*
Length = 248
Score = 43.3 bits (102), Expect = 8e-06
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 48 FLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGDVVS 92
+ +I+ +RGDIV P+DP IKR VG+ GD V+
Sbjct: 39 IYQKTLIETGHP--KRGDIVVFKYPEDPKLDYIKRAVGLPGDKVT 81
Score = 30.2 bits (68), Expect = 0.25
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 98 SNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKASSIIW 141
VP G ++ GD+ +S DS +G V + +A + IW
Sbjct: 183 LATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRA-TAIW 225
>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 = 29.1 bits (64), Expect = 0.90
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 4/39 (10%)
Query: 126 PVSMGLVTAKASSIIWPPSRWQYLKSEVPVHRLNAIITS 164
P + ++ A SI + W K V +L II S
Sbjct: 327 PRRLSII---AESIRDGLATWDNWK-HVNCDKLTTIIES 361
>1ug1_A KIAA1010 protein; structural genomics, SH3 domain, hypothetical
protein BAA76854.1, riken structural
genomics/proteomics initiative RSGI; NMR {Homo sapiens}
SCOP: b.34.2.1
Length = 92
Score = 27.3 bits (60), Expect = 0.97
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 55 KGDDIGLQRGDIVSLVSPKDP 75
+ D+ L GD+V ++ KDP
Sbjct: 30 QDLDVSLLEGDLVGVIKKKDP 50
>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 = 28.1 bits (62), Expect = 1.5
Identities = 20/98 (20%), Positives = 35/98 (35%), Gaps = 21/98 (21%)
Query: 1 MFRIFKSMLVGIPISITFCD-SIG-YVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDD 58
F KS + IP TF S+G Y A S+ V + + V +
Sbjct: 1743 AFEDLKSKGL-IPADATFAGHSLGEYAALA---SLADVMSIE----SLVEVVF------- 1787
Query: 59 IGLQRGDIVSLVSPKDPGQKIIKRIVGVE-GDVVSTLD 95
RG + + P+D + ++ + G V ++
Sbjct: 1788 ---YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS 1822
>3v8e_A Nicotinamidase; hydrolase; HET: JJJ; 2.71A {Saccharomyces
cerevisiae} PDB: 2h0r_A
Length = 216
Score = 27.1 bits (60), Expect = 2.1
Identities = 14/75 (18%), Positives = 24/75 (32%), Gaps = 13/75 (17%)
Query: 76 GQKIIKRIVGV------EGD-VVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVS 128
G+++I I + + +V T D+ P HI +H S
Sbjct: 25 GEELINPISDLMQDADRDWHRIVVTRDW------HPSRHISFAKNHKDKEPYSTYTYHSP 78
Query: 129 MGLVTAKASSIIWPP 143
+ I+WP
Sbjct: 79 RPGDDSTQEGILWPV 93
>2vtf_A Endo-beta-N-acetylglucosaminidase; hydrolase, family 85,
glycosidase, carbohydrat binding; HET: B3P PGE; 1.79A
{Arthrobacter protophormiae} PDB: 3fhq_A* 3fha_A*
Length = 626
Score = 27.1 bits (59), Expect = 3.6
Identities = 14/58 (24%), Positives = 23/58 (39%)
Query: 2 FRIFKSMLVGIPISITFCDSIGYVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDI 59
+ KS +P F G +G ++ +R+ QD + RWI G D+
Sbjct: 349 WFPAKSTATSVPFVTHFNTGSGAQFSAEGKTVSEQEWNNRSLQDVLPTWRWIQHGGDL 406
>2g80_A Protein UTR4; YEL038W, UTR4 protein (unknown transcript 4 protein),
struct genomics, PSI, protein structure initiative;
2.28A {Saccharomyces cerevisiae} SCOP: c.108.1.22
Length = 253
Score = 26.7 bits (58), Expect = 4.2
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 95 DYKSNVVKVPQGHIWVEGDHVGH 117
D K ++K QG++W G G
Sbjct: 99 DVKDPILKQLQGYVWAHGYESGQ 121
>1dmz_A Protein (protein kinase SPK1); beta-sandwich, antiparallel
beta-sheets, transferase; NMR {Saccharomyces cerevisiae}
SCOP: b.26.1.2 PDB: 1fhq_A 1fhr_A* 1j4k_A* 1j4l_A*
1k2m_A* 1k2n_A*
Length = 158
Score = 26.3 bits (57), Expect = 4.5
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 47 VFLN-RWIIKGDDIGLQRGDIVSLVSPKDPGQKI-----IKRIVGVEGDVVSTLDYKSNV 100
+LN +I+G LQ GD + ++ K+ I I G+ + + L + V
Sbjct: 85 SYLNNNRMIQGTKFLLQDGDEIKIIWDKNNKFVIGFKVEINDTTGLFNEGLGMLQEQRVV 144
Query: 101 VK 102
+K
Sbjct: 145 LK 146
>4ubp_C Protein (urease (chain C)); bacillus pasteurii, nickel,
acetohydroxamic acid, metalloenzyme, hydrolase; HET:
KCX; 1.55A {Sporosarcina pasteurii} SCOP: b.92.1.1
c.1.9.2 PDB: 1s3t_C* 2ubp_C* 3ubp_C* 1ubp_C* 1ie7_C*
Length = 570
Score = 26.6 bits (58), Expect = 5.1
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 6/58 (10%)
Query: 23 GYVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGD-----DIGLQRGDIVSLVSPKDP 75
G V R +G + N D + N I+ DIG++ G IV + +P
Sbjct: 47 GKVLR-EGMGENGTYTRTENVLDLLLTNALILDYTGIYKADIGVKDGYIVGIGKGGNP 103
>1qu5_A Protein kinase SPK1; FHA, RAD53, transferase; NMR {Saccharomyces
cerevisiae} SCOP: b.26.1.2
Length = 182
Score = 26.0 bits (56), Expect = 5.4
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 47 VFLN-RWIIKGDDIGLQRGDIVSLVSPKDPGQKI-----IKRIVGVEGDVVSTLDYKSNV 100
+LN +I+G LQ GD + ++ K+ I I G+ + + L + V
Sbjct: 109 SYLNNNRMIQGTKFLLQDGDEIKIIWDKNNKFVIGFKVEINDTTGLFNEGLGMLQEQRVV 168
Query: 101 VK 102
+K
Sbjct: 169 LK 170
>2nwm_A Vinexin; cell adhesion; NMR {Homo sapiens}
Length = 65
Score = 24.1 bits (53), Expect = 9.8
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 57 DDIGLQRGDIVSLVSPKDPG 76
++ LQ+GDIV + D
Sbjct: 16 KELTLQKGDIVYIHKEVDKN 35
>1ejx_C Urease alpha subunit; alpha-beta barrel, nickel metalloenzyme,
temperature depende structural changes, hydrolase; HET:
KCX; 1.60A {Klebsiella aerogenes} SCOP: b.92.1.1 c.1.9.2
PDB: 1ejw_C* 1fwj_C* 1kra_C 2kau_C* 1ef2_A* 1ejv_C*
1ejt_C* 1eju_C* 1ejs_C* 1ejr_C* 1krc_C 1krb_C* 1fwi_C*
1fwa_C* 1fwb_C* 1fwc_C* 1fwd_C* 1fwe_C* 1fwg_C* 1a5k_C
...
Length = 567
Score = 25.8 bits (56), Expect = 9.9
Identities = 22/124 (17%), Positives = 40/124 (32%), Gaps = 16/124 (12%)
Query: 23 GYVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGD-----DIGLQRGDIVSLVSPKDPGQ 77
G V R DG + D V N I+ DIG++ G I ++ +P
Sbjct: 48 GKVIR-DGMGQGQ--MLAADCVDLVLTNALIVDHWGIVKADIGVKDGRIFAIGKAGNPDI 104
Query: 78 KII--------KRIVGVEGDVVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSM 129
+ ++ EG +V+ +++ + +M GP +
Sbjct: 105 QPNVTIPIGAATEVIAAEGKIVTAGGIDTHIHWICPQQAEEALVSGVTTMVGGGTGPAAG 164
Query: 130 GLVT 133
T
Sbjct: 165 THAT 168
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
0.322 0.139 0.432
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,608,466
Number of extensions: 150549
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 18
Length of query: 164
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 78
Effective length of database: 4,300,587
Effective search space: 335445786
Effective search space used: 335445786
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: 53 (24.6 bits)