RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780796|ref|YP_003065209.1| ribonuclease H [Candidatus
Liberibacter asiaticus str. psy62]
(152 letters)
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 1rbv_A 1rbt_A 1rbs_A
1kva_A 1kvb_A ...
Length = 155
Score = 154 bits (391), Expect = 5e-39
Identities = 79/140 (56%), Positives = 102/140 (72%)
Query: 6 LREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKY 65
L++V +T G+ GNPGPGG+G +LRY+G+EK S G TTNNRMELMAAI AL ALK
Sbjct: 2 LKQVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKE 61
Query: 66 PCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWI 125
+V+L TDS YV +G +QWI W++ GWKT+DKK VKN+DLW + A QH++ W+
Sbjct: 62 HAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWV 121
Query: 126 KGHAGNQENEKVDRIARNAA 145
KGHAG+ ENE+ D +AR AA
Sbjct: 122 KGHAGHPENERADELARAAA 141
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis mr-1} PDB: 2zqb_A
Length = 158
Score = 124 bits (312), Expect = 7e-30
Identities = 73/140 (52%), Positives = 103/140 (73%)
Query: 6 LREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKY 65
L+ +H +TDG+C GNPGPGG+G+++ YKG K +S G TTNNRMEL+A I AL ALK
Sbjct: 4 LKLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALKE 63
Query: 66 PCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWI 125
PCK++L +DS Y+ +G WI W++ GW TS++ VKN+DLW + +A+ H++D W+
Sbjct: 64 PCKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWV 123
Query: 126 KGHAGNQENEKVDRIARNAA 145
KGHAG+ ENE+ D++AR AA
Sbjct: 124 KGHAGHAENERCDQLARAAA 143
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 124 bits (311), Expect = 9e-30
Identities = 72/140 (51%), Positives = 96/140 (68%), Gaps = 1/140 (0%)
Query: 7 REVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYP 66
+ + YTDGA SGNPG GGWG LL Y K ISG + TTNNRMELMAAIK L ALK P
Sbjct: 3 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDPATTNNRMELMAAIKGLEALKEP 62
Query: 67 CKVLLYTDSSYVHKGFSQ-WIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWI 125
+V LY+DS+Y+ ++ W+K+W +NGWKT+ KK V+NIDLW + ++ + H+V + +
Sbjct: 63 ARVQLYSDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKV 122
Query: 126 KGHAGNQENEKVDRIARNAA 145
KGH+ N N + D +AR A
Sbjct: 123 KGHSDNPYNSRADELARLAI 142
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 123 bits (309), Expect = 1e-29
Identities = 77/146 (52%), Positives = 100/146 (68%), Gaps = 1/146 (0%)
Query: 1 MDSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKAL 60
M+ + V +TDGAC GNPGPGGW LLR+ EK++SGGE TTNNRMEL AAI+ L
Sbjct: 1 MNPSPRKRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGL 60
Query: 61 TALKYPCKVLLYTDSSYVHKGFSQWIKKWQQ-NGWKTSDKKTVKNIDLWMKFVEASAQHK 119
ALK PC+V LYTDS Y+ K F++ + + GW+T++ K VKN DLW + A A H+
Sbjct: 61 KALKEPCEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHR 120
Query: 120 VDLYWIKGHAGNQENEKVDRIARNAA 145
V +++KGH G+ ENE+VDR AR A
Sbjct: 121 VRFHFVKGHTGHPENERVDREARRQA 146
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 122 bits (307), Expect = 3e-29
Identities = 32/136 (23%), Positives = 52/136 (38%), Gaps = 18/136 (13%)
Query: 9 VHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCK 68
YTDG+C+ G G + +GK+K+ + TTN + EL A ALT K
Sbjct: 437 ETFYTDGSCNRQSKEGKAGYVT-DRGKDKVKKLEQ--TTNQQAELEAFAMALTDS--GPK 491
Query: 69 VLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGH 128
V + DS YV + ++ + E + + + W+ H
Sbjct: 492 VNIIVDSQYVMGIVASQ-------------PTESESKIVNQIIEEMIKKEAIYVAWVPAH 538
Query: 129 AGNQENEKVDRIARNA 144
G N++VD +
Sbjct: 539 KGIGGNQEVDHLVSQG 554
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif,
hydrolase; 1.50A {Bacillus halodurans c-125} SCOP:
c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A
2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A*
Length = 142
Score = 119 bits (299), Expect = 3e-28
Identities = 26/139 (18%), Positives = 46/139 (33%), Gaps = 5/139 (3%)
Query: 1 MDSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKAL 60
M + + D GNPG + + G+ TNN E +A + L
Sbjct: 4 MAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGL 63
Query: 61 TALK-YPCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHK 119
LK + +Y++S +W+K + +++T L + E H
Sbjct: 64 RYLKERNSRKPIYSNSQTA----IKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHT 119
Query: 120 VDLYWIKGHAGNQENEKVD 138
+ +K K D
Sbjct: 120 YETPILKWQTDKWGEIKAD 138
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 117 bits (295), Expect = 8e-28
Identities = 35/152 (23%), Positives = 55/152 (36%), Gaps = 24/152 (15%)
Query: 1 MDSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKE-KIISGGEKETTNNRM-----ELM 54
MD + E YTDG+ G W GK + K M E+
Sbjct: 1 MDDR--TEYDVYTDGSY--VNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIA 56
Query: 55 AAIKALT-ALKYPCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVE 113
AA+ A+ A + K+ + D I W WK ++ T L ++
Sbjct: 57 AALYAVKKASQLGVKIRILHD--------YAGIAFWATGEWKAKNEFTQAYAKLMNQY-- 106
Query: 114 ASAQHKVDLYWIKGHAGNQENEKVDRIARNAA 145
+ +K H+GN+ N+ VD A++A
Sbjct: 107 ---RGIYSFEKVKAHSGNEFNDYVDMKAKSAL 135
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 2hb5_A
Length = 165
Score = 114 bits (286), Expect = 8e-27
Identities = 31/144 (21%), Positives = 52/144 (36%), Gaps = 18/144 (12%)
Query: 8 EVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPC 67
+ YTDG+ G G + + + T+ R EL+A +AL
Sbjct: 23 DYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA-EGK 81
Query: 68 KVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEA-SAQHKVDLYWIK 126
K+ +YTDS Y S+ + +KN + + ++A ++ +
Sbjct: 82 KLNVYTDSRYAFAT-----------AHVHSEGREIKNKNEILALLKALFLPKRLSIIHCP 130
Query: 127 GHAGNQE-----NEKVDRIARNAA 145
GH N D+ AR AA
Sbjct: 131 GHQKGNSAEARGNRMADQAAREAA 154
>3hyf_A Reverse transcriptase/rnaseh; HIV-1, hydrolase, DI-valent metal
nucleic acid cleavage mechanism, DI-valent metal
coordination; HET: ON1; 1.70A {Human immunodeficiency
virus 1} PDB: 1o1w_A 1hrh_A 1rdh_A
Length = 150
Score = 113 bits (284), Expect = 1e-26
Identities = 45/135 (33%), Positives = 64/135 (47%), Gaps = 6/135 (4%)
Query: 12 YTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLL 71
Y DGA + G G + + +TTN + EL A L +V +
Sbjct: 16 YVDGAANRETKLGKAGYVTNRG---RQKVVTLTDTTNQKTELQAIY--LALQDSGLEVNI 70
Query: 72 YTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQ-HKVDLYWIKGHAG 130
TDS Y +QWI W++ GWKT+DKK VKN+DL + +E + KV L W+ H G
Sbjct: 71 VTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKG 130
Query: 131 NQENEKVDRIARNAA 145
NE+VD++
Sbjct: 131 IGGNEQVDKLVSAGI 145
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 2ze2_A*
3bgr_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A*
1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A*
1tvr_A* 2hmi_A* 2vg5_A* 2vg6_A* 2vg7_A* ...
Length = 557
Score = 110 bits (276), Expect = 1e-25
Identities = 33/133 (24%), Positives = 52/133 (39%), Gaps = 18/133 (13%)
Query: 10 HAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKV 69
Y DGA + G G + KG++K++ TTN + EL A AL +V
Sbjct: 441 TFYVDGAANRETKLGKAGYVT-NKGRQKVVPLTN--TTNQKTELQAIYLALQDS--GLEV 495
Query: 70 LLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHA 129
+ TDS Y G + ++ + + + KV L W+ H
Sbjct: 496 NIVTDSQYAL-------------GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 542
Query: 130 GNQENEKVDRIAR 142
G NE+VD++
Sbjct: 543 GIGGNEQVDKLVS 555
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 103 bits (259), Expect = 1e-23
Identities = 30/143 (20%), Positives = 51/143 (35%), Gaps = 21/143 (14%)
Query: 9 VHAYTDGACSGNPGPGGWGVLLRYKGKEKI---ISGGEKETTNNRMELMAAIKALTALKY 65
V DG GNPGP G+G ++ + TNN E I L
Sbjct: 4 VVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVK 63
Query: 66 --PCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQ-HKVDL 122
+ + DS V + Q +W+ K + L+++ ++Q +++
Sbjct: 64 LGATEAAVLMDSKLVVE---QMSGRWKV--------KHPDLLKLYVQAQALASQFRRINY 112
Query: 123 YWIKGHAGNQENEKVDRIARNAA 145
W+ N DR+A +A
Sbjct: 113 EWVPRA----RNTYADRLANDAM 131
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 99.3 bits (246), Expect = 3e-22
Identities = 45/142 (31%), Positives = 69/142 (48%), Gaps = 5/142 (3%)
Query: 9 VHAYTDGACSGNPGPGGWGVLLRYKGKEKIIS---GGEKETTNNRMELMAAIKALTA--L 63
V YTDG CS N + Y G ++ TN R E+ AA KA+
Sbjct: 8 VVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKT 67
Query: 64 KYPCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLY 123
+ K++LYT+S + G + W++ W++NGWKTS K V N + ++ + +
Sbjct: 68 QNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWM 127
Query: 124 WIKGHAGNQENEKVDRIARNAA 145
+ GH+G NE+ DR+AR A
Sbjct: 128 HVPGHSGFIGNEEADRLAREGA 149
>2hb5_A Reverse transcriptase/ribonuclease H; RNAse H, hydrolase; 1.59A
{Moloney murine leukemia virus}
Length = 164
Score = 90.3 bits (223), Expect = 2e-19
Identities = 31/144 (21%), Positives = 51/144 (35%), Gaps = 18/144 (12%)
Query: 8 EVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPC 67
+ YTDG+ G G + + + T+ R EL+A +AL
Sbjct: 22 DHTWYTDGSSLLQEGQRKAGAAVTTETEVIWAKALPAGTSAQRAELIALTQALKM-AEGK 80
Query: 68 KVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQ-HKVDLYWIK 126
K+ +YTDS Y + + +KN D + ++A ++ +
Sbjct: 81 KLNVYTDSRYAFATAHLTSEGKE-----------IKNKDEILALLKALFLPKRLSIIHCP 129
Query: 127 GHAGNQE-----NEKVDRIARNAA 145
GH N D+ AR AA
Sbjct: 130 GHQKGHSAEARGNRMADQAARKAA 153
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon,
double-stranded RNA-dependent RNAse, hydrolase; 1.60A
{Sulfolobus tokodaii str}
Length = 149
Score = 81.7 bits (201), Expect = 6e-17
Identities = 30/144 (20%), Positives = 50/144 (34%), Gaps = 20/144 (13%)
Query: 9 VHAYTDGACS-GNPGPG-GWGVLLRYKGKEKIISG-----GEKETTNNRMELMAAIKALT 61
+ Y DG C NPG +G ++ ++ G +TNN E I +
Sbjct: 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLME 61
Query: 62 ALKYPCKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVD 121
+ Q + K +K K + I L+ K +E +
Sbjct: 62 TMLRLGISSPIIKGDS------QLVIKQMNGEYKVKAK---RIIPLYEKAIELKKKLNAT 112
Query: 122 LYWIKGHAGNQENEKVDRIARNAA 145
L W+ EN++ DR++R A
Sbjct: 113 LIWVPRE----ENKEADRLSRVAY 132
>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 = 35.7 bits (81), Expect = 0.004
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 17/35 (48%)
Query: 43 EKETTNNRMELMAAIKALTA-LKYPCKVLLYTDSS 76
EK+ A+K L A LK LY D S
Sbjct: 18 EKQ----------ALKKLQASLK------LYADDS 36
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.1 bits (69), Expect = 0.11
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 9/63 (14%)
Query: 86 IKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKV--DL-YWIKGHAGNQENEKV-DRIA 141
I+KW++ +K ++ +D K +E + K DL W + + E K+ +RIA
Sbjct: 87 IRKWRE-----EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA 141
Query: 142 RNA 144
A
Sbjct: 142 DKA 144
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 28.0 bits (62), Expect = 1.0
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 8/28 (28%)
Query: 22 GPG---GWGVLLRYKGKE----KIISGG 42
GPG G GVL + K+ ++I G
Sbjct: 505 GPGGASGLGVLTH-RNKDGTGVRVIVAG 531
>3g08_A T-cell surface glycoprotein CD1D1; antigen presentation,
glycolipid, NKT cells, cell membrane, endosome,
glycoprotein, immune response, immunoglobulin domain;
HET: NAG FEE PLM; 1.60A {Mus musculus} PDB: 1z5l_A*
2gaz_A* 2q7y_A* 2akr_A* 3he7_A* 3he6_A* 3gmo_A* 2fik_A*
3gmm_A* 3gmn_A* 3gml_A* 3gmp_A* 3gmq_A* 3gmr_A* 1zhn_A*
Length = 285
Score = 27.7 bits (61), Expect = 1.2
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 124 WIKGHAGNQENEKVDRIARNAAVSFKNKI 152
W +G NQ+ EK+ + + VSF I
Sbjct: 53 WSQGKLSNQQWEKLQHMFQVYRVSFTRDI 81
>1cd1_A CD1, MCD1D.1; immunology, MHC, TCR, glycoprotein, signal,
immunoglobulin fold, T-cell; 2.67A {Mus musculus} SCOP:
b.1.1.2 d.19.1.1
Length = 315
Score = 27.3 bits (60), Expect = 1.5
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 124 WIKGHAGNQENEKVDRIARNAAVSFKNKI 152
W +G NQ+ EK+ + + VSF I
Sbjct: 50 WSQGKLSNQQWEKLQHMFQVYRVSFTRDI 78
>1rf6_A 5-enolpyruvylshikimate-3-phosphate synthase; shikimate pathway,
EPSP synthase, glyphosate, PEP, transferase; HET: GPJ
S3P; 1.90A {Streptococcus pneumoniae} SCOP: d.68.2.2
PDB: 1rf5_A 1rf4_A*
Length = 427
Score = 25.6 bits (55), Expect = 4.9
Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 5/63 (7%)
Query: 30 LRYKGKEKIISGGEKETTNN-RMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQWIKK 88
+ KGK + G T + R+ +M AI AL ++ + ++ + +
Sbjct: 365 MIIKGKSAL-HGARVNTFGDHRIGMMTAIAALLVADGEVEL---DRAEAINTSYPSFFDD 420
Query: 89 WQQ 91
+
Sbjct: 421 LES 423
>3imk_A Putative molybdenum carrier protein; YP_461806.1, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE MES PG4 PG6; 1.45A {Syntrophus aciditrophicus
SB}
Length = 158
Score = 24.7 bits (54), Expect = 8.5
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 29 LLRYKGKEKIISGGEKETTNNRMELMAAIKA 59
+ KIISGG +T +R L AIK
Sbjct: 2 MDEKPAITKIISGG--QTGADRAALDFAIKH 30
>2nqa_A Calpain 8; calpain, calcium-dependent cytoplasmic cysteine
proteinases, papain-like, EF-hand, structural genomics;
2.20A {Homo sapiens}
Length = 326
Score = 24.7 bits (53), Expect = 9.0
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 53 LMAAIKALTALKYPCKVLLYTDSSYVHKGFSQWIKKWQQNGW 94
L+AAI +LT + ++ D + + ++ Q G
Sbjct: 87 LLAAIASLTLNEELLYRVVPRDQDFQENYAGIFHFQFWQYGE 128
>3huj_A R3G1, T-cell surface glycoprotein CD1D; CD1D,
alpha-galactosylceramide, protein receptor complex, cell
membrane, disulfide bond, endosome, glycoprotein; HET:
NDG BMA NAG AGH; 2.50A {Homo sapiens} PDB: 2po6_A*
1zt4_A*
Length = 284
Score = 24.6 bits (53), Expect = 9.3
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 124 WIKGHAGNQENEKVDRIARNAAVSFKNKI 152
W +G +Q+ E + I R SF +
Sbjct: 54 WSQGTFSDQQWETLQHIFRVYRSSFTRDV 82
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.315 0.131 0.408
Gapped
Lambda K H
0.267 0.0491 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,341,122
Number of extensions: 57149
Number of successful extensions: 215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 27
Length of query: 152
Length of database: 5,693,230
Length adjustment: 84
Effective length of query: 68
Effective length of database: 3,656,734
Effective search space: 248657912
Effective search space used: 248657912
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 (21.6 bits)
S2: 52 (24.4 bits)