RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3461
(87 letters)
>2aex_A Coproporphyrinogen III oxidase, mitochondrial; FLAT beta-sheet
sandwiched by helices, oxidoreductase; HET: CIT; 1.58A
{Homo sapiens}
Length = 346
Score = 174 bits (444), Expect = 5e-56
Identities = 55/84 (65%), Positives = 71/84 (84%)
Query: 4 VKKNKDAGYGYHERQWQLLRRGRYVEFNLIYDRGTKFGLQTPGARYESILMSLPLTAKWE 63
VKK+ D + E+ WQ LRRGRYVEFNL+YDRGTKFGL TPG+R ESILMSLPLTA+WE
Sbjct: 261 VKKHCDDSFTPQEKLWQQLRRGRYVEFNLLYDRGTKFGLFTPGSRIESILMSLPLTARWE 320
Query: 64 YMHTPEETSKEGQLIKILKNPKEW 87
YMH+P E SKE +++++L++P++W
Sbjct: 321 YMHSPSENSKEAEILEVLRHPRDW 344
>1txn_A Coproporphyrinogen III oxidase; structural genomics, dimer, novel
fold, PSI, protein structu initiative; 1.70A
{Saccharomyces cerevisiae} SCOP: d.248.1.1 PDB: 1tkl_A
1tlb_A 1tk1_A
Length = 328
Score = 170 bits (432), Expect = 2e-54
Identities = 51/84 (60%), Positives = 63/84 (75%)
Query: 4 VKKNKDAGYGYHERQWQLLRRGRYVEFNLIYDRGTKFGLQTPGARYESILMSLPLTAKWE 63
VK+ KD Y E+QWQ +RRGRYVEFNLIYDRGT+FGL+TPG+R ESILMSLP A W
Sbjct: 243 VKRRKDMPYTKEEQQWQAIRRGRYVEFNLIYDRGTQFGLRTPGSRVESILMSLPEHASWL 302
Query: 64 YMHTPEETSKEGQLIKILKNPKEW 87
Y H P S+E +L+++ P+EW
Sbjct: 303 YNHHPAPGSREAKLLEVTTKPREW 326
>1vju_A Coproporphyrinogen III oxidase; structural genomics, PSI, protein
structure initiative, structural genomics of pathogenic
protozoa consortium; 1.40A {Leishmania major} SCOP:
d.248.1.1 PDB: 2qt8_A* 3dwr_A 3dws_A* 3ejo_A 3e8j_A*
Length = 309
Score = 164 bits (417), Expect = 2e-52
Identities = 39/84 (46%), Positives = 53/84 (63%), Gaps = 1/84 (1%)
Query: 4 VKKNKDAGYGYHERQWQLLRRGRYVEFNLIYDRGTKFGLQTPGARYESILMSLPLTAKWE 63
V + K+ Y + ++Q RRGRY EFNL+ DRGTKFGLQ+ G R ESIL+SLP A+W
Sbjct: 226 VNRRKNTPYTEQQVEFQEFRRGRYAEFNLVIDRGTKFGLQS-GGRTESILISLPPRARWG 284
Query: 64 YMHTPEETSKEGQLIKILKNPKEW 87
Y PE + E +L + ++W
Sbjct: 285 YNWQPEPGTPEARLTEYFLTKRQW 308
>1v0w_A Phospholipase D; hydrolase, substrate SOAK,
dibutyrylphosphatidylcholine, DIC4PC; 1.35A
{Streptomyces SP} SCOP: d.136.1.2 d.136.1.2 PDB: 1v0s_A
1v0r_A 1v0t_A 1v0v_A 1v0u_A 1v0y_A* 1f0i_A 2ze4_A*
2ze9_A*
Length = 506
Score = 27.7 bits (61), Expect = 0.40
Identities = 2/27 (7%), Positives = 11/27 (40%)
Query: 23 RRGRYVEFNLIYDRGTKFGLQTPGARY 49
+G ++ ++ + + ++Y
Sbjct: 108 AKGNKLKVRILVGAAPVYHMNVIPSKY 134
>3q1c_A LEE-encoded effector ESPG; VIRA fold, virulence factor, PAK
recruitment and activation, activated kinase, signaling
protein; 1.60A {Escherichia coli O127} PDB: 3pcr_A*
3pcs_A
Length = 360
Score = 26.4 bits (57), Expect = 1.4
Identities = 7/46 (15%), Positives = 14/46 (30%)
Query: 22 LRRGRYVEFNLIYDRGTKFGLQTPGARYESILMSLPLTAKWEYMHT 67
+ +E + K + +L SLP+ Y+
Sbjct: 71 VTNSESIEAEIRTPDNEKITVLLESNEQNRLLQSLPIDRHMPYIQV 116
>3kl9_A PEPA, glutamyl aminopeptidase; tetrahedral aminopeptidase, S
specificity, metallopeptidase M42, hydrolas; 2.70A
{Streptococcus pneumoniae}
Length = 355
Score = 25.3 bits (56), Expect = 3.2
Identities = 3/21 (14%), Positives = 8/21 (38%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
S + + Y+H+ +
Sbjct: 308 STTIGVCA----RYIHSHQTL 324
>2fvg_A Endoglucanase; TM1049, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PS hydrolase; 2.01A {Thermotoga maritima} SCOP: b.49.3.1
c.56.5.4
Length = 340
Score = 24.9 bits (55), Expect = 3.7
Identities = 5/21 (23%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
+ ++S P Y+H+P
Sbjct: 297 AGVISTPA----RYIHSPNSI 313
>3cpx_A Aminopeptidase, M42 family; YP_676701.1, putative M42 glutamyl
aminopeptidase, structura genomics; 2.39A {Cytophaga
hutchinsonii atcc 33406}
Length = 321
Score = 25.0 bits (55), Expect = 3.7
Identities = 5/21 (23%), Positives = 7/21 (33%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
+ P + HTP E
Sbjct: 285 WCFIGAPE----KDAHTPNEC 301
>1y0y_A FRV operon protein FRVX; aminopeptidase, PDZ, hydrolase; HET: ATI;
1.60A {Pyrococcus horikoshii} SCOP: b.49.3.1 c.56.5.4
PDB: 1y0r_A* 1xfo_A
Length = 353
Score = 24.6 bits (54), Expect = 5.2
Identities = 5/21 (23%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
+ +S+P Y+H+ E
Sbjct: 312 TGALSVPA----RYIHSNTEV 328
>3isx_A Endoglucanase; TM1050, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-2, hydrolase; HET: MSE; 1.40A {Thermotoga maritima}
Length = 343
Score = 24.5 bits (54), Expect = 5.6
Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
S +S+P Y+H+P E
Sbjct: 308 SATVSIPT----RYVHSPSEM 324
>1vhe_A Aminopeptidase/glucanase homolog; structural genomics, unknown
function; HET: MSE; 1.90A {Bacillus subtilis} SCOP:
b.49.3.1 c.56.5.4
Length = 373
Score = 24.6 bits (54), Expect = 5.8
Identities = 3/21 (14%), Positives = 9/21 (42%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
++ +++ Y+HT
Sbjct: 316 ALSITIAT----RYIHTHAAM 332
>2vpu_A TET3, 354AA long hypothetical operon protein FRV; unknown function,
protease, thermophilic, SELF-compartmentalising,
hydrolase; 1.9A {Pyrococcus horikoshii} PDB: 2wzn_A
2pe3_A
Length = 354
Score = 24.2 bits (53), Expect = 7.1
Identities = 6/21 (28%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
+ ++S+P+ YMH+ E
Sbjct: 311 TAVLSIPI----RYMHSQVEL 327
>2jw4_A Cytoplasmic protein NCK1; SH3 domain, phosphorylation, SH2
domain, signaling protein; NMR {Homo sapiens}
Length = 72
Score = 23.4 bits (51), Expect = 7.6
Identities = 8/30 (26%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 60 AKWEYM-HTPEETS-KEGQLIKILKNPKEW 87
AK++Y+ +E K+ + + +L + K W
Sbjct: 12 AKFDYVAQQEQELDIKKNERLWLLDDSKSW 41
>1ylo_A Hypothetical protein SF2450; structural genomics, MCSG, PSI,
structure initiative; 2.15A {Shigella flexneri 2a str}
SCOP: b.49.3.1 c.56.5.4
Length = 348
Score = 24.1 bits (53), Expect = 8.5
Identities = 2/21 (9%), Positives = 6/21 (28%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
+++M + H
Sbjct: 300 TLVMGPAT----RHGHCAASI 316
>2gre_A Deblocking aminopeptidase; structural genomi protein structure
initiative, midwest center for structural genomics,
MCSG, hydrolase; 2.65A {Bacillus cereus} SCOP: b.49.3.1
c.56.5.4
Length = 349
Score = 23.7 bits (52), Expect = 9.5
Identities = 4/34 (11%), Positives = 10/34 (29%), Gaps = 6/34 (17%)
Query: 51 SILMSLPLTAKWEYMHTPEETSKEG--QLIKILK 82
L+ + + H E T + ++
Sbjct: 310 HALIGAGI----DSSHAFERTHESSIAHTEALVY 339
>2wyr_A Cobalt-activated peptidase TET1; hydrolase, large SELF-assembled
dodecamer, hyperthermophilic; 2.24A {Pyrococcus
horikoshii} PDB: 2cf4_A
Length = 332
Score = 23.8 bits (52), Expect = 9.6
Identities = 6/21 (28%), Positives = 14/21 (66%), Gaps = 4/21 (19%)
Query: 51 SILMSLPLTAKWEYMHTPEET 71
++ +S+P+ +Y+H+ ET
Sbjct: 296 TLALSVPI----KYLHSEVET 312
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
0.318 0.137 0.429
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,375,978
Number of extensions: 65767
Number of successful extensions: 97
Number of sequences better than 10.0: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 19
Length of query: 87
Length of database: 6,701,793
Length adjustment: 55
Effective length of query: 32
Effective length of database: 5,166,138
Effective search space: 165316416
Effective search space used: 165316416
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: 51 (23.5 bits)