RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12056
(200 letters)
>3icu_A E3 ubiquitin-protein ligase RNF128; E3 ligase, energy, PA domain,
transmembrane,protein turnover conjugation pathway; HET:
NAG; 2.10A {Homo sapiens}
Length = 194
Score = 62.9 bits (152), Expect = 1e-12
Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 14/119 (11%)
Query: 36 FGSSF-NGSFSGEKIRMVPANPPWSCTHPTN--------ANTIKGHIALIERGE-CSFVH 85
+G +G + +C TN + +ALI+RG C+F
Sbjct: 61 YGQDSPLEPVAGVLVPPDGPGALNACNPHTNFTVPTVWGSTVQVSWLALIQRGGGCTFAD 120
Query: 86 KAMIAESIGARGVIISDNDPDSDDFYVEMISDQSKREIHIPVAFLVGKNGRVIKNALKR 144
K +A GA G +I + + E+I + I + G I +++R
Sbjct: 121 KIHLAYERGASGAVIFNFPGTRN----EVIPMSHPGAVDIVAIMIGNLKGTKILQSIQR 175
>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {Streptococcus
pyogenes} PDB: 3eif_A*
Length = 926
Score = 56.6 bits (136), Expect = 7e-10
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 59 SCTHPTNANTIKGHIALIERGECSFVHKAMIAESIGARGVIISDNDPDSDDFYVEMISDQ 118
T + +KG IALIERG+ F K A+ GA GV+I DN + +
Sbjct: 269 RGTKEDDFKDVKGKIALIERGDIDFKDKIAKAKKAGAVGVLIYDNQDKGFPIELPNVDQ- 327
Query: 119 SKREIHIPVAFLVGKNGRVIKNALK 143
+P AF+ K+G ++K+ +
Sbjct: 328 ------MPAAFISRKDGLLLKDNPQ 346
>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 = 41.6 bits (97), Expect = 1e-04
Identities = 34/191 (17%), Positives = 59/191 (30%), Gaps = 67/191 (35%)
Query: 12 ENTYFEIIQP----------EELRYTFKIRPAKDF-G-S--------SFNGSFSGEK-IR 50
+ T QP E+L+ I F G S S S E +
Sbjct: 1730 QFT-----QPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVE 1784
Query: 51 MVPANPPWSCTHPTNANTIKGHIA--LIERGECSFVHKAMIAESIGARGVIISDNDPDSD 108
+V +G + R E + MIA + G S ++
Sbjct: 1785 VV---------------FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ---EAL 1826
Query: 109 DFYVEMISDQSKREIHIPVAFLVGKN--GR--VI---KNALKRLNMDYALINIPVNLTYV 161
+ VE + ++ + I V + N + V AL + N+ L ++
Sbjct: 1827 QYVVERVGKRTGWLVEI-VNY----NVENQQYVAAGDLRALD------TVTNV---LNFI 1872
Query: 162 PIHKINQPPLK 172
+ KI+ L+
Sbjct: 1873 KLQKIDIIELQ 1883
Score = 35.0 bits (80), Expect = 0.014
Identities = 18/99 (18%), Positives = 31/99 (31%), Gaps = 13/99 (13%)
Query: 19 IQPEELRYT-FKIRPAKDFGSSFNGSFSGEKIRMV---PANPPWSCTHPTNANTIKGHIA 74
++++ + D +GS S + + P W T A HI
Sbjct: 450 FNAKDIQIPVYDTFDGSDL-RVLSGSISERIVDCIIRLPVK--WETTTQFKAT----HIL 502
Query: 75 LIERGECSFVHK--AMIAESIGARGVIISDNDPDSDDFY 111
G S + + G R ++ D + DD Y
Sbjct: 503 DFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 26.9 bits (59), Expect = 5.7
Identities = 15/84 (17%), Positives = 24/84 (28%), Gaps = 37/84 (44%)
Query: 117 DQSK-----REIHIPVAFLVGKNGRVI---------KNALKRLNMDYALINIPVNLTYVP 162
DQS+ R++ FL + A +N D N+
Sbjct: 403 DQSRIPFSERKLKFSNRFL------PVASPFHSHLLVPASDLINKDLVKNNV-------- 448
Query: 163 IHKINQPPLKMDYALINIPVNLTY 186
N ++ IPV T+
Sbjct: 449 --SFNAKDIQ-------IPVYDTF 463
>2ek8_A Aminopeptidase; metalloproteinase, hydrolase; 1.80A
{Aneurinibacillus SP} PDB: 2ek9_A*
Length = 421
Score = 39.3 bits (91), Expect = 4e-04
Identities = 25/131 (19%), Positives = 41/131 (31%), Gaps = 10/131 (7%)
Query: 14 TYFEIIQPEELRYTFKIRPAKDFGSSFNGSFSGEKIRMVPANPPWSCTHPTNANTIKGHI 73
+ L+ + + + F S N + E T + G I
Sbjct: 63 EGYTAPSEVTLKIGTEKKEGEAFTYSPNSDVTAE-----LVYVGLGTTADVAGKDLNGKI 117
Query: 74 ALIERGECSFVHKAMIAESIGARGVIISDNDPDSDDFYVEMISDQSKREIHIPVAFLVGK 133
ALI+RG SF K A GA+ VII +N + + + +
Sbjct: 118 ALIQRGNISFADKVRNAAKQGAKAVIIYNNTDGK-----LNGTLGGSDASFVAAVGITKQ 172
Query: 134 NGRVIKNALKR 144
G + L+
Sbjct: 173 EGDALAANLRA 183
>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus,
cell MEMB disulfide bond, endocytosis, HOST-virus inter
receptor, secreted, transmembrane; HET: NAG FUC BMA MAN;
2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A*
3s9n_A* 1cx8_A* 1suv_A 2nsu_A
Length = 640
Score = 34.4 bits (78), Expect = 0.018
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 69 IKGHIALIERGECSFVHKAMIAESIGARGVIISDNDPDSDDFYVE 113
+ G I ++ G+ +F K AES+ A GV+I + E
Sbjct: 130 VNGSIVIVRAGKITFAEKVANAESLNAIGVLIYMDQTKFPIVNAE 174
>3i6s_A Subtilisin-like protease; PA-domain, FN3-domain, hydrolase; HET:
NAG FUC; 2.50A {Solanum lycopersicum} PDB: 3i74_A*
Length = 649
Score = 29.7 bits (66), Expect = 0.64
Identities = 12/85 (14%), Positives = 22/85 (25%), Gaps = 11/85 (12%)
Query: 59 SCTHPTNANTIKGHIALIERGECSFVHKAMIAESIGARGVIISDNDPDSDDFYVEMISDQ 118
S + + I + + F + I + I DP
Sbjct: 272 SEELLSQVENPENTIVICDDN-GDFSDQMRIITRARLKAAIFISEDPGVFRSAT------ 324
Query: 119 SKREIHIPVAFLVGKNGRVIKNALK 143
P + K G+ + N +K
Sbjct: 325 ----FPNPGVVVNKKEGKQVINYVK 345
>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 = 0.88
Identities = 11/45 (24%), Positives = 14/45 (31%), Gaps = 18/45 (40%)
Query: 139 KNALKRLNMDYALINIPVNLTYVPIHKINQPPLKMDYAL-INIPV 182
K ALK+L L Y + P AL I +
Sbjct: 19 KQALKKLQASLKL--------YAD----DSAP-----ALAIKATM 46
>3a24_A Alpha-galactosidase; glycoside hydrolase family 97, retaining
glycosidase; HET: MES; 2.30A {Bacteroides
thetaiotaomicron}
Length = 641
Score = 28.8 bits (64), Expect = 1.3
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 106 DSDDFYVEMISDQSKREIHIPVAFLVGKNGRVI-----KNALKRLNMDYALINIPVN 157
D +YV I+D S R+I + +FL K+ NA R DY + P+
Sbjct: 566 KGDVWYVGGITDWSARDIEVDCSFLGDKSYHATLFKDGVNA-HRAGRDYKCESFPIK 621
>3qvq_A Phosphodiesterase OLEI02445; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, alpha-beta
hydrolase, hydrolase; HET: MSE G3P; 1.60A {Oleispira
antarctica}
Length = 252
Score = 27.6 bits (62), Expect = 2.5
Identities = 13/123 (10%), Positives = 31/123 (25%), Gaps = 23/123 (18%)
Query: 35 DFGSSFNGSFSGEKI-------RMVPANPPWSCTHPTNANT-IKGHIALIERGECSFVHK 86
D GS + E I ++ + N +K +E + +
Sbjct: 83 DAGSWKGQEYQQETIPTLLEAIEVISQ-------YGMGLNLELKPCEG-LEEETIAASVE 134
Query: 87 AMIAESIGARGVIISDNDPDSDDFYVEMISDQSKREIHIPVAFLVGKNGRVIKNALKRLN 146
+ ++ S + + + I + V + L+ L+
Sbjct: 135 VLKQHWPQDLPLLFSSFNYFA----LVSAKALWP---EIARGYNVSAIPSAWQERLEHLD 187
Query: 147 MDY 149
Sbjct: 188 CAG 190
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 26.7 bits (59), Expect = 2.5
Identities = 8/47 (17%), Positives = 18/47 (38%), Gaps = 6/47 (12%)
Query: 112 VEMISDQSKREIHIP---VAFLVGKNGRVIKNALKRLNMDYALINIP 155
V + ++ + A ++G G+ I+ + +D I P
Sbjct: 10 VGELEQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVD---IRFP 53
>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 = 27.9 bits (61), Expect = 3.0
Identities = 21/110 (19%), Positives = 39/110 (35%), Gaps = 34/110 (30%)
Query: 99 IISDNDPD-SDDFYVEMISDQ-----SKREI-HI---P-----VAFLVG----KNGRVIK 139
I+S + D+F + + D SK EI HI L K +++
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 140 NALKR-LNMDYALI--------NIPVNLT--YV----PIHKINQPPLKMD 174
++ L ++Y + P +T Y+ ++ NQ K +
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
>2o3a_A UPF0106 protein AF_0751; structural genomics, unknown function,
PSI-2, protein structure initiative; 2.20A
{Archaeoglobus fulgidus} SCOP: c.116.1.8
Length = 178
Score = 27.0 bits (60), Expect = 3.3
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 5/58 (8%)
Query: 85 HKAMIAESIGARGVIISDNDPDSDDFYVEMISDQSKREIHI----PVAFLVGKNGRVI 138
H A+ A + GA+G+ D + V + ++ + I L +G +
Sbjct: 23 HVALTARAFGAKGIYFDTEDKSVFES-VRDVVERWGGDFFIKAVSWKKLLREFDGLKV 79
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 94
Score = 25.8 bits (57), Expect = 4.5
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 112 VEMISDQSKREIHIP---VAFLVGKNGRVIKN 140
V + Q+ + IP F++GKNG +++
Sbjct: 10 VARLQTQASATVAIPKEHHRFVIGKNGEKLQD 41
>2cki_A Ulilysin; metalloprotease, hydrolase; HET: ARG; 1.7A
{Methanosarcina acetivorans} PDB: 2j83_A* 3lum_A*
3lun_A*
Length = 262
Score = 26.5 bits (57), Expect = 5.5
Identities = 12/73 (16%), Positives = 25/73 (34%), Gaps = 8/73 (10%)
Query: 123 IHIPVAFLV---GKNGRV----IKNALKRLNMDYALINIPVNLTYVPIHKINQPPLKMDY 175
+ IPV V + + I++ + LN D+ +N V+ + +++
Sbjct: 5 VKIPVVVHVVWNEEEENISDAQIQSQIDILNKDFRKLNSDVSQVPSVWSNLIADL-GIEF 63
Query: 176 ALINIPVNLTYVP 188
L N
Sbjct: 64 FLATKDPNGNQTT 76
>1zcc_A Glycerophosphodiester phosphodiesterase; NYSGXRC, agrobacterium
tumefaciens STR. C58, structural genomics; 2.50A
{Agrobacterium tumefaciens str} SCOP: c.1.18.3
Length = 248
Score = 26.5 bits (59), Expect = 5.7
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 35 DFGSSFNGSFSGEKI 49
D G F+ F G +
Sbjct: 75 DAGGWFDDRFKGAIV 89
>2ygq_A WIF-1, WNT inhibitory factor 1; signaling protein, WNT signaling
pathway, WNT antagonist, MO cancer, glycosaminoglycan;
HET: PCF NAG FUC SCR; 3.95A {Homo sapiens}
Length = 324
Score = 26.4 bits (58), Expect = 6.4
Identities = 9/56 (16%), Positives = 22/56 (39%)
Query: 106 DSDDFYVEMISDQSKREIHIPVAFLVGKNGRVIKNALKRLNMDYALINIPVNLTYV 161
++ Y+ + + Q++ I L+ G++ + IPVN+ +
Sbjct: 1 ETGSLYLWIDAHQARVLIGFEEDILIVSEGKMAPFTHDFRKAQQRMPAIPVNIHSM 56
>2ygo_A WIF-1, WNT inhibitory factor 1; signaling protein, WNT signaling
pathway, WNT antagonist, MO cancer, glycosaminoglycan;
HET: MLY PCF NAG; 1.85A {Homo sapiens} PDB: 2ygp_A*
Length = 188
Score = 26.0 bits (56), Expect = 8.4
Identities = 12/92 (13%), Positives = 31/92 (33%), Gaps = 1/92 (1%)
Query: 106 DSDDFYVEMISDQSKREIHIPVAFLVGKNGRVIKNALKRLNMDYALINIPVNLTYVPIHK 165
++ Y+ + + Q++ I L+ G + + IPVN+ +
Sbjct: 1 ETGSLYLWIDAHQARVLIGFEEDILIVSEGXMAPFTHDFRXAQQRMPAIPVNIHSMNFTW 60
Query: 166 INQPPLKMDYALINIPV-NLTYVPIHKINQPP 196
+ Y +++ + + +N P
Sbjct: 61 QAAGQAEYFYEFLSLRSLDXGIMADPTVNVPL 92
>2otd_A Glycerophosphodiester phosphodiesterase; structural genomics
PSI-2, protein structure initiative, midwest center for
STR genomics, hydrolase; 2.60A {Shigella flexneri}
Length = 247
Score = 26.0 bits (58), Expect = 8.9
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 35 DFGSSFNGSFSGEKI 49
D GS ++ +F GE +
Sbjct: 80 DAGSWYSKAFKGEPL 94
>2pz0_A Glycerophosphoryl diester phosphodiesterase;
glycerophosphodiester phosphodiesterase, T.
tengcongensis; 1.91A {Thermoanaerobacter tengcongensis}
Length = 252
Score = 25.7 bits (57), Expect = 9.5
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 35 DFGSSFNGSFSGEKI 49
D G F F+GE+I
Sbjct: 85 DAGIKFGEKFAGERI 99
>2lrt_A Uncharacterized protein; structural genomics, thioredoxin-like, NEW
YORK structural G research consortium, nysgrc,
PSI-biology; NMR {Bacteroides vulgatus}
Length = 152
Score = 25.4 bits (56), Expect = 9.9
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 125 IPVAFLVGKNGRVIKNALKRLNMDYAL 151
+P FLV +N + ++D A+
Sbjct: 114 LPSVFLVNRNNELSARGENIKDLDEAI 140
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 0.138 0.419
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,210,666
Number of extensions: 190353
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 551
Number of HSP's successfully gapped: 44
Length of query: 200
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 111
Effective length of database: 4,216,824
Effective search space: 468067464
Effective search space used: 468067464
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 (21.8 bits)
S2: 55 (24.9 bits)