RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14209
(119 letters)
>3sp4_A Aprataxin-like protein; HIT domain, zinc finger, DNA-binding
protein, DNA deadenylas hydrolase; 1.80A
{Schizosaccharomyces pombe} PDB: 3spd_A* 3spl_A* 3szq_A*
Length = 204
Score = 57.8 bits (139), Expect = 1e-11
Identities = 35/146 (23%), Positives = 60/146 (41%), Gaps = 29/146 (19%)
Query: 1 MSF---LSKIIFKPNTWWFV--TDNDVVAFPDIKPAAKHHTLVISKQ---HVLNAKVLTS 52
MSF L I P ++ V D+DVV D+ P +K H L++++ ++ +
Sbjct: 4 MSFRDNLKVYIESPESYKNVIYYDDDVVLVRDMFPKSKMHLLLMTRDPHLTHVHPLEIMM 63
Query: 53 EHKALVQWLEDLSAITYLCLMV-----------------IFHRYGFHWPPFYSIGHLHLH 95
+H++LV+ L L+ + + GFH P S+ +LHLH
Sbjct: 64 KHRSLVEKLVSYVQGDLSGLIFDEARNCLSQQLTNEALCNYIKVGFHAGP--SMNNLHLH 121
Query: 96 VIAP--VSEMSFLSKIIFKPNTWWFV 119
++ VS S + +FV
Sbjct: 122 IMTLDHVSPSLKNSAHYISFTSPFFV 147
>3o0m_A HIT family protein; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, hydrola structural genomics; HET: AMP;
1.90A {Mycobacterium smegmatis str}
Length = 149
Score = 49.6 bits (119), Expect = 6e-09
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D + + DI+P + HTLVI K H ++ E A +
Sbjct: 25 DENFLGILDIRPFTRGHTLVIPKTHTVDLTDTPPETVAGM 64
>3ksv_A Uncharacterized protein; HIT family, structural genomics,
structural genomics of PATH protozoa consortium, SGPP,
unknown function; 1.90A {Leishmania major}
Length = 149
Score = 48.9 bits (117), Expect = 1e-08
Identities = 15/40 (37%), Positives = 20/40 (50%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
+ +AF DI P ++ H LVI K+H L E A V
Sbjct: 31 TSKALAFMDINPLSRGHMLVIPKEHASCLHELGMEDAADV 70
>1xqu_A HIT family hydrolase; protein STRU initiative, PSI, southeast
collaboratory for structural GEN secsg; 2.30A
{Clostridium thermocellum} SCOP: d.13.1.1
Length = 147
Score = 48.5 bits (116), Expect = 1e-08
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D V+A DI PAA H L+I K+H+ N K + + ++
Sbjct: 55 DERVIAIKDINPAAPVHVLIIPKEHIANVKEINESNAQIL 94
>3oj7_A Putative histidine triad family protein; hydrolase, structural
genomics, seattle structural genomics for infectious
disease, ssgcid; 1.40A {Entamoeba histolytica} PDB:
3omf_A* 3oxk_A*
Length = 117
Score = 47.9 bits (115), Expect = 2e-08
Identities = 17/40 (42%), Positives = 26/40 (65%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D+++ AF DI P A H LVI KQH+ + +T E++A +
Sbjct: 27 DDEIFAFKDINPIAPIHILVIPKQHIASLNEITEENEAFI 66
>1y23_A HIT, histidine triad protein; HIT protein, PKCI-1, cell-cycle
regulation, NYSGXRC, structural genomics, protein
structure initiative; 2.30A {Bacillus subtilis} SCOP:
d.13.1.1
Length = 145
Score = 48.5 bits (116), Expect = 2e-08
Identities = 17/40 (42%), Positives = 19/40 (47%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D V+AF DI K HTLVI K H+ N T E
Sbjct: 25 DEHVLAFLDISQVTKGHTLVIPKTHIENVYEFTDELAKQY 64
>3l7x_A SMU.412C, putative HIT-like protein involved in cell-cycle
regulation; 1.70A {Streptococcus mutans}
Length = 173
Score = 48.6 bits (116), Expect = 2e-08
Identities = 21/40 (52%), Positives = 25/40 (62%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D DV+AF DI A K HTLVI K+HV NA +T A +
Sbjct: 56 DEDVLAFLDISQATKGHTLVIPKEHVRNALEMTQTQAANL 95
>3n1s_A HIT-like protein HINT; histidine triad nucleotide binding
protein, GMP, hydro; HET: 5GP; 1.45A {Escherichia coli}
PDB: 3n1t_A*
Length = 119
Score = 47.9 bits (115), Expect = 2e-08
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D+ V AF DI P A H L+I + +++EH+ +
Sbjct: 23 DDLVTAFRDISPQAPTHILIIPNILIPTVNDVSAEHEQAL 62
>4egu_A Histidine triad (HIT) protein; structural genomics, center for
structural genomics of infec diseases, csgid, HIT
domain, unknown function; HET: 5GP; 0.95A {Clostridium
difficile}
Length = 119
Score = 47.5 bits (114), Expect = 2e-08
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D+ V+AF D+ P A +H LV+ K+H + + + +V
Sbjct: 24 DDRVLAFNDLNPVAPYHILVVPKKHYDSLIDIPDKEMDIV 63
>3o1c_A Histidine triad nucleotide-binding protein 1; hydrolase, HINT
protein, HIT protein, adenosine 5'-
monophosphoramidase; HET: ADN; 1.08A {Oryctolagus
cuniculus} PDB: 3llj_A* 1rzy_A* 3qgz_A* 3o1z_A 3o1x_A*
4eqe_A* 4eqg_A* 4eqh_A* 3tw2_A* 1kpb_A 1kpf_A* 1kpa_A
1kpc_A 1av5_A* 1kpe_A* 4rhn_A* 3rhn_A* 5rhn_A* 6rhn_A
Length = 126
Score = 47.5 bits (114), Expect = 3e-08
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D+ +AF DI P A H LVI K+H+ ++L+
Sbjct: 35 DDQALAFHDISPQAPTHFLVIPKKHISQISAAEDADESLL 74
>3imi_A HIT family protein; structural genomics, infectious diseases for
structural genomics of infectious diseases, unknown FUN
csgid; 2.01A {Bacillus anthracis str}
Length = 147
Score = 47.7 bits (114), Expect = 3e-08
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D V+AF DI K HTLVI K H + LT E + +
Sbjct: 29 DEHVLAFLDISQVTKGHTLVIPKVHKQDIFALTPEIASHI 68
>3p0t_A Uncharacterized protein; ssgcid, HIT-like protein, mycobacerium
paratuberculosis, STR genomics; 1.90A {Mycobacterium
avium subsp}
Length = 138
Score = 47.3 bits (113), Expect = 5e-08
Identities = 22/97 (22%), Positives = 40/97 (41%), Gaps = 20/97 (20%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEH--------KALVQWLEDLSAITYL 70
D+DVVAF I+P + HTLV+ ++ + N + + S + + + + +
Sbjct: 25 DDDVVAFLTIEPMTQGHTLVVPREEIDNWQDVDSAAFNRVMGVSQLIGKAVCK----AFR 80
Query: 71 CLMVIFHRYGFHWPPFYSIGHLHLHVIA--PVSEMSF 105
G + HLH+HV +S+ F
Sbjct: 81 TERSGLIIAGL------EVPHLHVHVFPTRSLSDFGF 111
>2eo4_A 150AA long hypothetical histidine triad nucleotid protein; HIT
family, structural genomics, NPPSFA; 1.80A {Sulfolobus
tokodaii}
Length = 149
Score = 47.3 bits (113), Expect = 5e-08
Identities = 13/40 (32%), Positives = 17/40 (42%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D A D P + HTLVI K+H N + A +
Sbjct: 19 DEKFAAILDKYPVSLGHTLVIPKKHFENYLEADEDTLAEL 58
>3r6f_A HIT family protein; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
protozoan parasite; 1.85A {Encephalitozoon cuniculi}
Length = 135
Score = 46.2 bits (110), Expect = 1e-07
Identities = 18/84 (21%), Positives = 26/84 (30%), Gaps = 13/84 (15%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWL-----EDLSAITYLCLM 73
+ + A D P +K H LVI K H E + V + Y
Sbjct: 24 TDRLFALIDRYPLSKGHFLVIPKAHHPYLHNYKPEELSGVLDTIRHLVQKFGFERY---- 79
Query: 74 VIFHRYGFHWPPFYSIGHLHLHVI 97
+ + H+H HVI
Sbjct: 80 ----NILQNNGNHQEVFHVHFHVI 99
>3lb5_A HIT-like protein involved in cell-cycle regulatio; niaid, seattle
structural genomics center for infectious DIS ssgcid,
histidine triad; 1.90A {Bartonella henselae}
Length = 161
Score = 45.8 bits (109), Expect = 2e-07
Identities = 18/40 (45%), Positives = 22/40 (55%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
D+DV+AF DI P A HTLVI K+ N +E V
Sbjct: 48 DDDVIAFMDIMPQAPGHTLVIPKKGSRNLLDADTETLFPV 87
>1vlr_A MRNA decapping enzyme; 16740816, structural genomics, JCSG, protein
structure initiative, PSI, joint center for structural
genomics; 1.83A {Mus musculus} SCOP: d.13.1.3 d.246.1.1
PDB: 1xmm_B* 1xml_B 1st0_B* 1st4_B*
Length = 350
Score = 45.8 bits (108), Expect = 5e-07
Identities = 20/94 (21%), Positives = 34/94 (36%), Gaps = 22/94 (23%)
Query: 19 DNDVVAFPDIK-----PAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLM 73
+ V PD+K + + ++ + + + LT EH + L ++
Sbjct: 208 SDGFVLIPDLKWNQQQLDDLYLIAICHRRGIRSLRDLTPEH---LPLLRNILRE---GQE 261
Query: 74 VIFHRYG---------FHWPPFYSIGHLHLHVIA 98
I RY H+ P Y HLH+H A
Sbjct: 262 AILKRYQVTGDRLRVYLHYLPSYY--HLHVHFTA 293
>3bl9_A Scavenger mRNA-decapping enzyme DCPS; ligand complex, cytoplasm,
hydrolase, nonsense-mediated mRNA decay, nucleus,
polymorphism, structural genomics; HET: DD2; 1.80A {Homo
sapiens} SCOP: d.13.1.3 d.246.1.1 PDB: 3bl7_A* 3bla_A*
Length = 301
Score = 43.0 bits (101), Expect = 5e-06
Identities = 20/94 (21%), Positives = 34/94 (36%), Gaps = 22/94 (23%)
Query: 19 DNDVVAFPDIK-----PAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLM 73
+ V PD+K + + ++ + + + LT EH + L ++
Sbjct: 161 SDGFVLIPDLKWNQQQLDDLYLIAICHRRGIRSLRDLTPEH---LPLLRNILHQ---GQE 214
Query: 74 VIFHRYG---------FHWPPFYSIGHLHLHVIA 98
I RY H+ P S HLH+H A
Sbjct: 215 AILQRYRMKGDHLRVYLHYLP--SYYHLHVHFTA 246
>3ano_A AP-4-A phosphorylase; diadenosine polyphosphate, HIT transferase;
HET: PG4; 1.89A {Mycobacterium tuberculosis}
Length = 218
Score = 41.9 bits (98), Expect = 8e-06
Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 22/92 (23%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLMVIFHR 78
V A ++ P H +V+ + V + LT +L A T + VI +
Sbjct: 90 GKLVYAVLNLYPYNPGHLMVVPYRRVSELEDLTDL------ESAELMAFTQKAIRVIKNV 143
Query: 79 YGFHWPPFYSIG-------------HLHLHVI 97
P +++G HLH+HV+
Sbjct: 144 SR---PHGFNVGLNLGTSAGGSLAEHLHVHVV 172
>1fit_A FragIle histidine protein; FHIT, fragIle histidine triad protein,
putative human tumor suppressor, advanced photon source,
APS; HET: FRU; 1.85A {Homo sapiens} SCOP: d.13.1.1 PDB:
1fhi_A* 2fit_A* 3fit_A* 4fit_A 5fit_A* 6fit_A* 2fhi_A*
Length = 147
Score = 39.6 bits (93), Expect = 4e-05
Identities = 17/94 (18%), Positives = 28/94 (29%), Gaps = 21/94 (22%)
Query: 16 FVTDNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLMVI 75
F+ A + KP H LV + V L + + DL T V+
Sbjct: 16 FLKTELSFALVNRKPVVPGHVLVCPLRPVERFHDLRPD------EVADLFQTTQRVGTVV 69
Query: 76 FHRYGFHWPPFYSIG------------HLHLHVI 97
+ + H+H+HV+
Sbjct: 70 EKHFH---GTSLTFSMQDGPEAGQTVKHVHVHVL 100
>2oik_A Histidine triad (HIT) protein; HIT-like fold, structural genomics,
joint center for structu genomics, JCSG; HET: MSE; 1.65A
{Methylobacillus flagellatus} SCOP: d.13.1.1
Length = 154
Score = 32.5 bits (74), Expect = 0.016
Identities = 13/87 (14%), Positives = 21/87 (24%), Gaps = 16/87 (18%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLMVIFHR 78
D VI +HV L + L + + +
Sbjct: 26 DALCRVVHVENQDYPGFCRVILNRHVKEMSDLRPAERD------HLMLVVFAVEEAVREV 79
Query: 79 YGFHWPPFYSIG-------HLHLHVIA 98
P ++ H+H HVI
Sbjct: 80 MR---PDKINLASLGNMTPHVHWHVIP 103
>2qkd_A Zinc finger protein ZPR1; helical hairpins, beta helix,
anti-parrallel beta sheet, double straded anti-parallel
beta helix, metal binding protein; 2.00A {Mus musculus}
Length = 404
Score = 27.7 bits (61), Expect = 0.83
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSE 53
N+V + ++P TL I+ + +L SE
Sbjct: 259 TNEVKSGGAVEPLGTRITLHITDPSDMTRDLLKSE 293
>1gxc_A CHK2, CDS1, serine/threonine-protein kinase CHK2;
phosphoprotein-binding domain, checkpoint kinase,
transferase; HET: TPO; 2.7A {Homo sapiens} SCOP:
b.26.1.2
Length = 149
Score = 26.6 bits (58), Expect = 2.0
Identities = 7/48 (14%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSA 66
+ F + SK+H + + ++ + ++ED S
Sbjct: 57 SCEYC-FDEPLLKRTDKYRTYSKKHFRIFREVGPKNSYIA-YIEDHSG 102
>3i24_A HIT family hydrolase; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; 1.50A {Vibrio fischeri ES114}
Length = 149
Score = 26.2 bits (57), Expect = 2.5
Identities = 12/66 (18%), Positives = 20/66 (30%), Gaps = 4/66 (6%)
Query: 34 HHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAITYLCLMVIFHRYGFHWPPFY-SIGHL 92
LV + + +T E + S+ L F + + L
Sbjct: 34 WLILVPRIEELKEIHHMTDEQQIQFI---KESSAVAQLLEDNFSPDKINIGALGNLVPQL 90
Query: 93 HLHVIA 98
H+H IA
Sbjct: 91 HIHHIA 96
>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 = 26.1 bits (56), Expect = 2.7
Identities = 6/24 (25%), Positives = 7/24 (29%), Gaps = 11/24 (45%)
Query: 26 PDIKPAAKHHTLVISKQHVLNAKV 49
D PA L I A +
Sbjct: 34 DDSAPA-----LAI------KATM 46
>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 = 26.0 bits (56), Expect = 3.8
Identities = 16/116 (13%), Positives = 38/116 (32%), Gaps = 23/116 (19%)
Query: 11 PNTW--WFVTDNDVV------AFPDIKPA---AKHHTLVISKQHV-LNAKVLTSEHKALV 58
TW W + D + + ++PA L + + +L+ +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS------L 394
Query: 59 QWLEDLSAITYLCLMVIFHRYGF---HWPPF-YSIGHLHLHVIAPVSEMSFLSKII 110
W + + + + ++ H+Y SI ++L + + L + I
Sbjct: 395 IWFDVIKSDVMV-VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI 449
>2dpn_A Glycerol kinase; thermus thermophilus HB8, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.80A {Thermus thermophilus}
Length = 495
Score = 26.0 bits (58), Expect = 4.2
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 56 ALVQWLEDLSAI 67
A V WL+++ I
Sbjct: 308 AAVGWLKEVGLI 319
>3ixz_B Potassium-transporting ATPase subunit beta; ION pump, H+,
K+-ATPase, P-type ATPase, membrane protein, hydrolase,
aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB:
2xzb_B
Length = 290
Score = 25.4 bits (55), Expect = 5.7
Identities = 8/51 (15%), Positives = 16/51 (31%)
Query: 64 LSAITYLCLMVIFHRYGFHWPPFYSIGHLHLHVIAPVSEMSFLSKIIFKPN 114
+S I LC+ V+ + P + + P I + +
Sbjct: 51 MSGIFALCIYVLMRTIDPYTPDYQDQLKSPGVTLRPDVYGEKGLDISYNVS 101
>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 = 25.0 bits (54), Expect = 9.2
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 16/77 (20%)
Query: 8 IF----KPNTWW------FVTDNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKAL 57
IF + ++ + T + +V IK +A+ L + L+A+ + ++ +
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYHVLVG-DLIKFSAET--LSELIRTTLDAEKVFTQGLNI 215
Query: 58 VQWLEDLSAI---TYLC 71
++WLE+ S YL
Sbjct: 216 LEWLENPSNTPDKDYLL 232
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
0.329 0.139 0.479
Gapped
Lambda K H
0.267 0.0824 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,936,207
Number of extensions: 99404
Number of successful extensions: 369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 361
Number of HSP's successfully gapped: 46
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.2 bits)