RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7477
(237 letters)
>1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics, protein
structure initiative, NESG, reduced dimensionality PSI;
NMR {Aquifex aeolicus} SCOP: b.124.1.1
Length = 124
Score = 108 bits (271), Expect = 2e-30
Identities = 34/93 (36%), Positives = 51/93 (54%), Gaps = 5/93 (5%)
Query: 108 LVIHDSCIKKLKEI----STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCK 163
+ D ++++K++ + + LRI V GGCSGFQY D V + D V+E G K
Sbjct: 10 FKVTDKAVEEIKKVAQENNIENPILRIRVVPGGCSGFQYAMGFDDTVEEGDHVFEYDGVK 69
Query: 164 VVIDQTSLEYVQGSVIEYHQELIRSAFQISNNP 196
VVID S+ YV G+ ++Y + + F I NP
Sbjct: 70 VVIDPFSMPYVNGAELDYVVDFMGGGFTI-RNP 101
Score = 70.0 bits (172), Expect = 9e-16
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 28 LVIHDSCIKKLKEI----STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCK 83
+ D ++++K++ + + LRI V GGCSGFQY D V + D V+E G K
Sbjct: 10 FKVTDKAVEEIKKVAQENNIENPILRIRVVPGGCSGFQYAMGFDDTVEEGDHVFEYDGVK 69
Query: 84 I 84
+
Sbjct: 70 V 70
>2apn_A Protein HI1723; HI1723 solution structure, structural genomics,
structure 2 function project, S2F, unknown function; NMR
{Haemophilus influenzae}
Length = 114
Score = 107 bits (270), Expect = 3e-30
Identities = 38/93 (40%), Positives = 53/93 (56%), Gaps = 5/93 (5%)
Query: 108 LVIHDSCIKKLKEI----STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCK 163
L D+ K+K + LR+ + GGGCSGFQY F D +V+D D EKSG +
Sbjct: 9 LTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQ 68
Query: 164 VVIDQTSLEYVQGSVIEYHQELIRSAFQISNNP 196
+VID SL+Y+ G ++Y + L S F + NNP
Sbjct: 69 LVIDPMSLQYLIGGTVDYTEGLEGSRFTV-NNP 100
Score = 69.6 bits (171), Expect = 1e-15
Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 28 LVIHDSCIKKLKEI----STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCK 83
L D+ K+K + LR+ + GGGCSGFQY F D +V+D D EKSG +
Sbjct: 9 LTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQ 68
Query: 84 I 84
+
Sbjct: 69 L 69
>1x0g_A ISCA; [2Fe-2S], biosynthesis, cyanobacteria, domain swapping, Fe- S
cluster, iron, iron-sulfur cluster protein, scaffold,
sulfur; 2.50A {Thermosynechococcus elongatus}
Length = 112
Score = 101 bits (253), Expect = 1e-27
Identities = 20/93 (21%), Positives = 43/93 (46%), Gaps = 7/93 (7%)
Query: 112 DSCIKKLKEI------STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKVV 165
+ I++L+ + + LRI V+ C ++Y L + D + + G +
Sbjct: 6 PAAIQELERLQTHGVRRGQAAILRIQVQPSECGDWRYDLALVAEPKPTDLLTQSQGWTIA 65
Query: 166 IDQTSLEYVQGSVIEYHQELIRSAFQISNNPQV 198
I + E ++G ++Y ++L+ AF+ +NP
Sbjct: 66 IAAEAAELLRGLRVDYIEDLMGGAFRF-HNPNA 97
Score = 64.2 bits (157), Expect = 1e-13
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 6/59 (10%)
Query: 32 DSCIKKLKEI------STDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKI 84
+ I++L+ + + LRI V+ C ++Y L + D + + G I
Sbjct: 6 PAAIQELERLQTHGVRRGQAAILRIQVQPSECGDWRYDLALVAEPKPTDLLTQSQGWTI 64
>1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster protein,
pseudo-symmetric motifs, metal transport; 2.30A
{Escherichia coli} SCOP: b.124.1.1 PDB: 1r95_A 1s98_A
Length = 118
Score = 94.6 bits (236), Expect = 4e-25
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 115 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKVVIDQTSLEYV 174
+ G LR+ V GCSG Y E + + ED V+E G KVV+D SL+++
Sbjct: 13 VNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFL 72
Query: 175 QGSVIEYHQELIRSAFQISNNP 196
G+ +++ +E + F+ NP
Sbjct: 73 DGTQLDFVKEGLNEGFKF-TNP 93
Score = 61.1 bits (149), Expect = 2e-12
Identities = 16/50 (32%), Positives = 22/50 (44%)
Query: 35 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKI 84
+ G LR+ V GCSG Y E + + ED V+E G K+
Sbjct: 13 VNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKV 62
>2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal
transport; 2.70A {Escherichia coli}
Length = 145
Score = 94.4 bits (235), Expect = 1e-24
Identities = 18/84 (21%), Positives = 45/84 (53%), Gaps = 1/84 (1%)
Query: 115 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKVVIDQTSLEYV 174
I++L +R+ V+ GC+GF Y + ++ +D ++E G K+ + ++ ++
Sbjct: 51 IRELVAKQPGMVGVRLGVKQTGCAGFGYVLDSVSEPDKDDLLFEHDGAKLFVPLQAMPFI 110
Query: 175 QGSVIEYHQELIRSAFQISNNPQV 198
G+ +++ +E + F+ +NP+
Sbjct: 111 DGTEVDFVREGLNQIFKF-HNPKA 133
Score = 60.5 bits (147), Expect = 6e-12
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 35 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKI 84
I++L +R+ V+ GC+GF Y + ++ +D ++E G K+
Sbjct: 51 IRELVAKQPGMVGVRLGVKQTGCAGFGYVLDSVSEPDKDDLLFEHDGAKL 100
>2k4z_A DSRR; ISCA/SUFA/HESB like fold, structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; NMR {Allochromatium vinosum}
Length = 125
Score = 88.5 bits (220), Expect = 1e-22
Identities = 14/92 (15%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 110 IHDSCIKKLKEIS----TDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKVV 165
+ + +++ + + T+G LR+ Y+ D ++++D G ++V
Sbjct: 25 LTPAAAEQVLKAAKQGGTEGMCLRLAAGRNPDGSIDYRMGFD-DLTEDDIRLTSEGVEIV 83
Query: 166 IDQTSLEYVQGSVIEYHQELI-RSAFQISNNP 196
I + + + ++Y + + F NP
Sbjct: 84 IAPDYVSLLDQTTLDYVELEPGQFHFIF-LNP 114
Score = 61.2 bits (149), Expect = 2e-12
Identities = 9/59 (15%), Positives = 24/59 (40%), Gaps = 5/59 (8%)
Query: 30 IHDSCIKKLKEIS----TDGSFLRIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKI 84
+ + +++ + + T+G LR+ Y+ D ++++D G +I
Sbjct: 25 LTPAAAEQVLKAAKQGGTEGMCLRLAAGRNPDGSIDYRMGFD-DLTEDDIRLTSEGVEI 82
>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 = 36.2 bits (83), Expect = 0.008
Identities = 33/159 (20%), Positives = 48/159 (30%), Gaps = 50/159 (31%)
Query: 5 PTVSPYSTSSPSEKPVSASTLKDLVIHDSCIKKLKEISTDGSFLRIIVEGGGCSGFQYKF 64
P SP+ S P S KDLV ++ +S + ++I V Y
Sbjct: 422 PVASPFH--SHLLVPASDLINKDLVKNN--------VSFNAKDIQIPV---------Y-- 460
Query: 65 ELDTQVSDEDRVYEKSGCKIPTLSPYSTSSPS--EKPVSASTLKDLVIH--------DSC 114
DT D + SG + P E H S
Sbjct: 461 --DT--FDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKAT-----HILDFGPGGASG 511
Query: 115 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDE 153
+ L + DG+ +R+IV G LD D+
Sbjct: 512 LGVLTHRNKDGTGVRVIVAG----------TLDINPDDD 540
Score = 31.2 bits (70), Expect = 0.37
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 15/62 (24%)
Query: 175 QGSVIEYHQELIRSAFQISNNPQVEQGNLTKGDHFISPS-----NITRIRPRLSYRISPG 229
QG+ +Y +EL R +Q + V I S + R + G
Sbjct: 163 QGNTDDYFEEL-RDLYQTY-HVLVGD--------LIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 230 ID 231
++
Sbjct: 213 LN 214
Score = 30.8 bits (69), Expect = 0.43
Identities = 23/99 (23%), Positives = 35/99 (35%), Gaps = 40/99 (40%)
Query: 2 LQIPTVSPYSTSSPSE-KPVSASTLKDLV--I----------------H--------DSC 34
+QIP V Y T S+ + +S S + +V I H S
Sbjct: 455 IQIP-V--YDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASG 511
Query: 35 IKKLKEISTDGSFLRIIVEGGGCSGFQYKFELDTQVSDE 73
+ L + DG+ +R+IV G LD D+
Sbjct: 512 LGVLTHRNKDGTGVRVIVAG----------TLDINPDDD 540
>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 = 35.6 bits (81), Expect = 0.015
Identities = 25/183 (13%), Positives = 47/183 (25%), Gaps = 61/183 (33%)
Query: 61 QYKFELDTQVSDEDRVYEKSGCKIPTLSP-------YSTSSPSEKPV-SASTLKDLVIHD 112
+ +D + + Y+ + K + S + +++
Sbjct: 2 HHHHHMDFETGEHQYQYKDI---LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK 58
Query: 113 SCIKKLKEISTDGSFLRIIVEGGGCSGFQ----------YKFELDTQVSDEDRVYEKSGC 162
+ L + Q YKF L + + E R
Sbjct: 59 DAVSGTL-------RLFWTLLSKQEEMVQKFVEEVLRINYKF-LMSPIKTEQR------- 103
Query: 163 KVVIDQTSLEYVQGSVIEYHQELIRSAFQISNNPQVEQGNLTKGDHFISPSNITRIRPRL 222
Q S+ IE L N+ QV + N++R++P L
Sbjct: 104 -----QPSMMTR--MYIEQRDRL-------YNDNQV-----------FAKYNVSRLQPYL 138
Query: 223 SYR 225
R
Sbjct: 139 KLR 141
>2qrj_A Saccharopine dehydrogenase, NAD+, L-lysine- forming; sulfate,
rossmann fold, alpha-aminoadipate pathway, fungal lysine
biosynthesis; 1.60A {Saccharomyces cerevisiae} PDB:
2qrk_A* 2qrl_A* 2q99_A 3ugk_A 3uh1_A* 3uha_A*
Length = 394
Score = 28.1 bits (62), Expect = 2.5
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 12/51 (23%)
Query: 129 RIIVEGGGCSGFQYKFELDTQVSDEDRVYEKSGCKVVIDQTSLEYVQGSVI 179
+I VE S F + + Y ++G +V + + +I
Sbjct: 56 KIYVEDSPQSTF----------NINE--YRQAGAIIVPAGSWKTAPRDRII 94
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 27.1 bits (60), Expect = 5.5
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 1/38 (2%)
Query: 23 STLKDLVIHDSCIKKLKE-ISTDGSFLRIIVEGGGCSG 59
+L L ++ LK +++ G +G
Sbjct: 11 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTG 48
Score = 27.1 bits (60), Expect = 5.5
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 1/38 (2%)
Query: 103 STLKDLVIHDSCIKKLKE-ISTDGSFLRIIVEGGGCSG 139
+L L ++ LK +++ G +G
Sbjct: 11 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTG 48
>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 = 26.5 bits (57), Expect = 5.9
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 7/33 (21%)
Query: 78 EKSGCKI--PTLSPYSTSSPSEKPVSA--STLK 106
EK K +L Y+ P A +T++
Sbjct: 18 EKQALKKLQASLKLYA---DDSAPALAIKATME 47
>2qol_A Ephrin receptor; receptor tyrosine kinase, juxtamembrane segment,
structural genomics, mutant, structural genomics
consortium, SGC, ATP- binding; 1.07A {Homo sapiens} PDB:
2qok_A 2qoi_A 2qoo_A 2qof_A 2qod_A 2qo9_A* 2gsf_A
2qo7_A* 2qo2_A* 2qoq_A* 2qon_A* 3fxx_A* 3fy2_A 2qoc_A*
2qob_A* 3dzq_A* 2r2p_A 2hel_A 2rei_A 3dko_A* ...
Length = 373
Score = 26.9 bits (60), Expect = 7.1
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 2/58 (3%)
Query: 71 SDEDRVYEKSG-CKIPTLSPYSTSSPSEKPVSASTLKDLVIHDSCIKKLKEISTDGSF 127
SDE R++ +G K+P L + E P + + I K + G F
Sbjct: 2 SDEKRLHFGNGHLKLPGLRTFVDPHTFEDPTQTVHEFAKELDATNISIDKVVGA-GEF 58
>3lq0_A Proastacin; metallopeptidase, zymogen activation, proenzyme,
protease, Z disulfide bond, hydrolase, metal-binding,
metalloprotease,; 1.45A {Astacus astacus} PDB: 1iab_A
1iaa_A 1ast_A 1iac_A 1iad_A 1iae_A 1qji_A* 1qjj_A
Length = 235
Score = 26.3 bits (58), Expect = 9.2
Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 9 PY--STSSPSEKPVSASTLKDLVIHD-SCIKKLKEISTDGSFLRIIVEGGGCS 58
PY + S +++ S +++ + + +CI+ +T+ ++ I G GC
Sbjct: 50 PYTFAGVSGADQSAILSGMQE--LEEKTCIR-FVPRTTESDYVEIFTSGSGCW 99
Score = 26.3 bits (58), Expect = 9.2
Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 89 PY--STSSPSEKPVSASTLKDLVIHD-SCIKKLKEISTDGSFLRIIVEGGGCS 138
PY + S +++ S +++ + + +CI+ +T+ ++ I G GC
Sbjct: 50 PYTFAGVSGADQSAILSGMQE--LEEKTCIR-FVPRTTESDYVEIFTSGSGCW 99
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
0.314 0.133 0.380
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,495,435
Number of extensions: 200236
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 23
Length of query: 237
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 146
Effective length of database: 4,160,982
Effective search space: 607503372
Effective search space used: 607503372
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.5 bits)