RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10962
(196 letters)
>3t3l_A Frataxin, mitochondrial; Fe-S cluster biosynthesis, human
mitochondria, oxidoreductas; 1.15A {Homo sapiens} PDB:
3s4m_A 3t3k_A 3t3j_A 3s5f_A 3t3x_A 3t3t_A 3s5e_A 3s5d_A
1ekg_A 1ly7_A
Length = 129
Score = 134 bits (338), Expect = 5e-41
Identities = 59/125 (47%), Positives = 83/125 (66%), Gaps = 3/125 (2%)
Query: 70 TGSISLPEYEVICNETLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGNPHGTYVIN 129
GS+ YE + ETL+SL ++F+ + ++ E+ DV++G GVLTV G GTYVIN
Sbjct: 6 PGSLDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVIN 65
Query: 130 RQTPNKQIWLSSPTSGPKRYDFDPSRNIWIYKHDNKSLHDLLQEEIVTIVTSNVDFYSNC 189
+QTPNK IWLSSP+SGPKRYD+ W+Y HD SLH+LL E+ + + +D S+
Sbjct: 66 KQTPNKAIWLSSPSSGPKRYDWTGKN--WVYSHDGVSLHELLAAELTKALKTKLDL-SSL 122
Query: 190 SHSGK 194
++SGK
Sbjct: 123 AYSGK 127
>3oeq_A Frataxin homolog, mitochondrial; alpha/beta sandwich,
metallochaperone, iron-storage, transpo protein; 2.96A
{Saccharomyces cerevisiae} PDB: 2fql_A 3oer_A 2ga5_A
Length = 123
Score = 116 bits (291), Expect = 6e-34
Identities = 37/104 (35%), Positives = 55/104 (52%), Gaps = 4/104 (3%)
Query: 72 SISLPEYEVICNETLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGNPHGTYVINRQ 131
++ L + ++ L+ L D + + E + DV GV+T+ GTYVIN+Q
Sbjct: 16 NLPLEKAHEEADDYLDHLLDSLEELSEAHPDCI-PDVELSHGVMTLEIPA-FGTYVINKQ 73
Query: 132 TPNKQIWLSSPTSGPKRYDFDPSRNIWIYKHDNKSLHDLLQEEI 175
PNKQIWL+SP SGP R+D W+ + L D+L EE+
Sbjct: 74 PPNKQIWLASPLSGPNRFDLLNGE--WVSLRNGTKLTDILTEEV 115
>1ew4_A CYAY protein; friedreich ataxia, frataxin family, iron homeostasis,
unknown function; 1.40A {Escherichia coli} SCOP:
d.82.2.1 PDB: 2eff_A 2p1x_A 1soy_A
Length = 106
Score = 111 bits (280), Expect = 2e-32
Identities = 26/109 (23%), Positives = 45/109 (41%), Gaps = 8/109 (7%)
Query: 77 EYEVICNETLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGNPHGTYVINRQTPNKQ 136
E+ + ++ ++ + D + + D GVLT+ F N +INRQ P Q
Sbjct: 5 EFHRLADQLWLTIEERLDDWDGD----SDIDCEINGGVLTITFEN-GSKIIINRQEPLHQ 59
Query: 137 IWLSSPTSGPKRYDFDPSRNIWIYKHDNKSLHDLLQEEIVTIVTSNVDF 185
+WL++ G +D WI ++ DLL++ V F
Sbjct: 60 VWLATK-QGGYHFDLKGDE--WICDRSGETFWDLLEQAATQQAGETVSF 105
>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 = 33.9 bits (77), Expect = 0.029
Identities = 45/252 (17%), Positives = 75/252 (29%), Gaps = 93/252 (36%)
Query: 6 ISSYVSNNVGKCLRQV--KCVQSYSRCVCNSNGIIGH-------GSHRKTLVQSQDNVLN 56
+SS V + QV C+ + C N I H + TLV++++ + N
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI--HALAAKLLQENDTTLVKTKELIKN 125
Query: 57 -FTGIHC------RNLCSSLTGSISLPEYEVI-------CNET----LESL-TDYF---- 93
T + S+L ++ +++ + L L Y
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 94 DVIVEENTHLEN-------ADVTYGDGV-----LTVNFGNPHGTYVINRQTPNKQIWLSS 141
D+I L A+ + G+ L NP TP+K LS
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE----NPS-------NTPDKDYLLSI 234
Query: 142 PTSGP--------------KRYDFDPSRNIWIYKHDNKSLHDLLQ------EEIVT-IVT 180
P S P K F P L L+ + +VT +
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLGFTPG-----------ELRSYLKGATGHSQGLVTAVAI 283
Query: 181 SNVD----FYSN 188
+ D F+ +
Sbjct: 284 AETDSWESFFVS 295
Score = 29.2 bits (65), Expect = 1.1
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 16/62 (25%)
Query: 57 FTGIHCRNLCSSLTGSISLPEYEVICNETL--ESLTDYFDVIVEENTHLENADVTYGDGV 114
F G R L S++ I + I + E+ T + + TH+ + +G G
Sbjct: 463 FDGSDLRVLSGSISERI----VDCIIRLPVKWETTTQF------KATHI----LDFGPGG 508
Query: 115 LT 116
+
Sbjct: 509 AS 510
Score = 27.3 bits (60), Expect = 4.5
Identities = 24/122 (19%), Positives = 41/122 (33%), Gaps = 42/122 (34%)
Query: 34 SNGII-------GH--G--SHRKTLVQSQDNVLNF-TGI---HCR-----------NLCS 67
S G+I GH G + L S +V++ + + R L
Sbjct: 1749 SKGLIPADATFAGHSLGEYA---ALA-SLADVMSIESLVEVVFYRGMTMQVAVPRDELGR 1804
Query: 68 SLTGSISLPEYEVICNETLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGN-PHGTY 126
S G I++ V + + E+L + + + L V VN+ N + Y
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWL----------VEIVNY-NVENQQY 1853
Query: 127 VI 128
V
Sbjct: 1854 VA 1855
>3o0q_A Ribonucleoside-diphosphate reductase; alpha/beta barrel,
adenosylcobalamin dependent, ribonucle reductase; HET:
TTP GDP ADN; 1.80A {Thermotoga maritima} PDB: 1xjf_A*
1xjg_A* 1xje_A* 1xjk_A* 1xjm_A* 1xjn_A* 3o0n_A* 3o0o_A*
1xjj_A*
Length = 644
Score = 31.9 bits (73), Expect = 0.12
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 51 QDNVLNFTG-IHCRNLCSSLTGSISLPEYEVICN 83
+ L I+ N C G I L +YE CN
Sbjct: 306 KYYPLYPHRKINSTNPC----GEIGLSDYEA-CN 334
>2ay1_A Aroat, aromatic amino acid aminotransferase; HET: PLP AHC; 2.20A
{Paracoccus denitrificans} SCOP: c.67.1.1 PDB: 1ay5_A*
1ay4_A* 1ay8_A* 2ay2_A* 2ay3_A* 2ay4_A* 2ay5_A* 2ay6_A*
2ay7_A* 2ay8_A* 2ay9_A*
Length = 394
Score = 28.3 bits (64), Expect = 1.8
Identities = 4/16 (25%), Positives = 9/16 (56%)
Query: 128 INRQTPNKQIWLSSPT 143
P+ ++++S PT
Sbjct: 111 ARMANPDLRVFVSDPT 126
>2q7w_A Aspartate aminotransferase; mechanism-based inhibitor, PLP, sadta,
PH dependence; HET: KST PSZ PMP GOL; 1.40A {Escherichia
coli} SCOP: c.67.1.1 PDB: 2qa3_A* 2qb2_A* 2qb3_A*
2qbt_A* 3qn6_A* 3pa9_A* 1aaw_A* 1amq_A* 1ams_A* 1arg_A*
1amr_A* 1art_A* 1asa_A* 1asd_A* 1ase_A* 1asl_A* 1asm_A*
1asn_A* 1c9c_A* 1cq6_A* ...
Length = 396
Score = 28.3 bits (64), Expect = 1.8
Identities = 5/16 (31%), Positives = 12/16 (75%)
Query: 128 INRQTPNKQIWLSSPT 143
+ + T K++W+S+P+
Sbjct: 114 LAKNTSVKRVWVSNPS 129
>3fsl_A Aromatic-amino-acid aminotransferase; tyrosine aminotransferase,
pyridoxal phosphate, internal ALD schiff base,
amino-acid biosynthesis; HET: PLR; 2.35A {Escherichia
coli k-12} PDB: 3tat_A*
Length = 397
Score = 27.9 bits (63), Expect = 2.2
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 128 INRQTPNKQIWLSSPT 143
+ R P +W+S PT
Sbjct: 115 LKRYFPESGVWVSDPT 130
>2xme_A CTP-inositol-1-phosphate cytidylyltransferase; CDP-inositol,
DI-MYO-inositol phosphate; 1.89A {Archaeoglobus
fulgidus} PDB: 2xmh_A*
Length = 232
Score = 27.5 bits (62), Expect = 2.7
Identities = 5/17 (29%), Positives = 7/17 (41%)
Query: 108 VTYGDGVLTVNFGNPHG 124
+T GD V + F
Sbjct: 113 LTMGDHVYSQQFIEKAV 129
>4f4e_A Aromatic-amino-acid aminotransferase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease; HET:
LLP; 1.80A {Burkholderia pseudomallei} PDB: 4eff_A*
Length = 420
Score = 27.6 bits (62), Expect = 2.7
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 128 INRQTPNKQIWLSSPT 143
+ P ++ +S P+
Sbjct: 137 LRTLNPKAKVAISDPS 152
>1yaa_A Aspartate aminotransferase; HET: PLP; 2.05A {Saccharomyces
cerevisiae} SCOP: c.67.1.1
Length = 412
Score = 27.2 bits (61), Expect = 3.6
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 128 INRQTPNKQIWLSSPT 143
++ P+K ++LS PT
Sbjct: 118 FSKFFPDKLVYLSKPT 133
>4aio_A Limit dextrinase; hydrolase, pullulanase, glycoside hydrolase
family 13; 1.90A {Hordeum vulgare} PDB: 2x4c_A* 2y4s_A*
2y5e_A* 2x4b_A
Length = 884
Score = 27.5 bits (61), Expect = 3.8
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 146 PKRYDFDPSRNI-WIYKHDNKSLHDLLQEEIVTIVT 180
P Y P I ++ HDN++L D++ + I++
Sbjct: 623 PVGYTASPIETINYVSAHDNETLFDVISVKTPMILS 658
>3meb_A Aspartate aminotransferase; pyridoxal PHOS transferase, structural
genomics, seattle structural genomi for infectious
disease, ssgcid; HET: PLP; 1.90A {Giardia lamblia}
Length = 448
Score = 26.9 bits (60), Expect = 4.5
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 128 INRQTPNKQIWLSSPT 143
++ P + ++ S T
Sbjct: 139 LHLWMPKAEFYMPSTT 154
>3nd5_A Phosphopantetheine adenylyltransferase; PPAT, coenzyme A BIO
pathway; 2.30A {Enterococcus faecalis} PDB: 3nd6_A*
3nd7_A*
Length = 171
Score = 26.3 bits (59), Expect = 5.1
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 96 IVEENT-HLENADVTYGDGVLTVNFGNPHGTYVINR 130
++EE T + N V + LTV G + R
Sbjct: 54 LIEEATKEMPNVRVIMQETQLTVESAKSLGANFLIR 89
>2fhf_A Pullulanase; multiple domain, beta-alpha-barrel,
alpha-amylase-family, complex with maltotetraose,
hydrolase; HET: GLC; 1.65A {Klebsiella aerogenes} SCOP:
b.1.18.2 b.1.18.2 b.3.1.3 b.71.1.1 c.1.8.1 PDB: 2fh6_A*
2fh8_A* 2fhb_A* 2fhc_A* 2fgz_A*
Length = 1083
Score = 26.9 bits (59), Expect = 5.3
Identities = 10/31 (32%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 146 PKRYDFDPSRNI-WIYKHDNKSLHDLLQEEI 175
P Y DP+ + ++ KHDN++L D++ +
Sbjct: 816 PGGYAADPTEVVNYVSKHDNQTLWDMISYKA 846
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA
decay, PRE-mRNA splicing, LSM proteins, RNA BI protein;
2.20A {Schizosaccharomyces pombe}
Length = 105
Score = 25.9 bits (57), Expect = 5.5
Identities = 8/37 (21%), Positives = 10/37 (27%), Gaps = 6/37 (16%)
Query: 85 TLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGN 121
LE+ +Y N L T DG
Sbjct: 42 HLENCDNYM------NLTLREVIRTMPDGDKFFRLPE 72
>1cjy_A CPLA2, protein (cytosolic phospholipase A2); lipid-binding,
hydrolase; HET: MES; 2.50A {Homo sapiens} SCOP: b.7.1.1
c.19.1.2 PDB: 1bci_A
Length = 749
Score = 26.8 bits (58), Expect = 6.0
Identities = 11/67 (16%), Positives = 21/67 (31%), Gaps = 6/67 (8%)
Query: 88 SLTDYFDVIVEENTHLENADVTYGDGVLTVNFG-NPHGTYVINRQTPNKQIWLSSPTSGP 146
+ TD F +++ E + T VN P + P+ + +
Sbjct: 290 TFTDIFGMLIGETLIHNRMNTTLSSLKEKVNTAQCPLPLFTCLHVKPDVSELMFADW--- 346
Query: 147 KRYDFDP 153
+F P
Sbjct: 347 --VEFSP 351
>1r17_A Fibrinogen-binding protein SDRG; SDRG, mscramm-ligand complex,
SDRG-fibrinopeptide complex, cell adhesion; 1.86A
{Staphylococcus epidermidis} SCOP: b.2.3.4 b.2.3.4 PDB:
1r19_A 2ral_A
Length = 343
Score = 26.7 bits (58), Expect = 6.3
Identities = 13/58 (22%), Positives = 24/58 (41%)
Query: 71 GSISLPEYEVICNETLESLTDYFDVIVEENTHLENADVTYGDGVLTVNFGNPHGTYVI 128
S + Y+V N+ L +D E+ ++ + + +NFGN Y+I
Sbjct: 227 DSTIIKVYKVGDNQNLPDSNRIYDYSEYEDVTNDDYAQLGNNNDVNINFGNIDSPYII 284
>2z2n_A Virginiamycin B lyase; seven-bladed beta-propeller, antibiotic
resistance, E mechanism, virginiamycin B hydrolase
streptogramin; HET: MSE; 1.65A {Staphylococcus aureus}
PDB: 2z2o_A 2z2p_A*
Length = 299
Score = 26.1 bits (58), Expect = 7.9
Identities = 8/50 (16%), Positives = 14/50 (28%), Gaps = 2/50 (4%)
Query: 111 GDG-VLTVNFGNPHGTYVINRQTPNKQIWLSSPTSGPKRYDFDPSRNIWI 159
D + N + I + + +P SGP +W
Sbjct: 150 SDNALWFTENQN-NAIGRITESGDITEFKIPTPASGPVGITKGNDDALWF 198
>3t18_A Aminotransferase class I and II; PSI-biology, MCSG, midwest center
for structural genomics, P 5'-phosphate binding; HET:
PLP; 2.86A {Anaerococcus prevotii}
Length = 413
Score = 26.1 bits (58), Expect = 8.8
Identities = 0/17 (0%), Positives = 3/17 (17%)
Query: 127 VINRQTPNKQIWLSSPT 143
+ + +
Sbjct: 118 IFSYLDEGDPLICHDYY 134
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 0.133 0.413
Gapped
Lambda K H
0.267 0.0773 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,956,916
Number of extensions: 165854
Number of successful extensions: 508
Number of sequences better than 10.0: 1
Number of HSP's gapped: 498
Number of HSP's successfully gapped: 30
Length of query: 196
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 107
Effective length of database: 4,216,824
Effective search space: 451200168
Effective search space used: 451200168
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: 55 (24.9 bits)