RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7490
(193 letters)
>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2,
initiation factor 2 alpha subunit, initiation factor 2
beta subunit; 2.80A {Sulfolobus solfataricus} PDB:
2nxu_A 2qmu_C* 3v11_C*
Length = 139
Score = 182 bits (462), Expect = 1e-59
Identities = 44/144 (30%), Positives = 76/144 (52%), Gaps = 6/144 (4%)
Query: 18 DRDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKTLH 77
+ Y E+L R++ + EK +K+ P ++ T NF E C +
Sbjct: 2 SSEKEYVEMLDRLYSKLPEKG------RKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIR 55
Query: 78 RLPKHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTI 137
R K + +LL EL G+VD +L+I+G+F + I ++ R++K YV C TC+S DTI
Sbjct: 56 REDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTI 115
Query: 138 LQKDTRLFFLQCETCGSRCSVASI 161
L+K+ + +++ C CG++ V +
Sbjct: 116 LKKEKKSWYIVCLACGAQTPVKPL 139
>2d74_B Translation initiation factor 2 beta subunit; protein complex;
2.80A {Pyrococcus furiosus} PDB: 2dcu_B*
Length = 148
Score = 174 bits (443), Expect = 1e-56
Identities = 56/148 (37%), Positives = 85/148 (57%), Gaps = 6/148 (4%)
Query: 19 RDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKTLHR 78
Y YE+LL + ++ + P+ V K +F + P +V I KT NF +I L+R
Sbjct: 4 DYYDYEKLLEKAYQEL----PENVKHHKSRFEV-PGALVTIEGNKTIIENFKDIADALNR 58
Query: 79 LPKHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTIL 138
P+HLL FLL E+ T+G+++G +++++GRF I N L++YIKEYV C C SPDT +
Sbjct: 59 DPQHLLKFLLREIATAGTLEGR-RVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKI 117
Query: 139 QKDTRLFFLQCETCGSRCSVASIKSGFQ 166
K R FL+CE CG+ + +
Sbjct: 118 IKRDRFHFLKCEACGAETPIQHLLEHHH 145
>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
two domain protein, mixed alpha-beta structure; NMR
{Methanothermobacterthermautotrophicus} SCOP: d.241.1.1
g.59.1.1
Length = 138
Score = 167 bits (424), Expect = 7e-54
Identities = 51/146 (34%), Positives = 81/146 (55%), Gaps = 8/146 (5%)
Query: 16 GSDRDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKT 75
GS D YE+LL R + + P V K+ V P I +T NF E+
Sbjct: 1 GSHMD-DYEKLLERAIDQL----PPEVFETKRFEV--PKAYSVIQGNRTFIQNFREVADA 53
Query: 76 LHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPD 135
L+R P+HLL FLL ELGT+G+++G + I++G+F I + Y+ ++V CH C PD
Sbjct: 54 LNRDPQHLLKFLLRELGTAGNLEGG-RAILQGKFTHFLINERIEDYVNKFVICHECNRPD 112
Query: 136 TILQKDTRLFFLQCETCGSRCSVASI 161
T + ++ R+ L+CE CG++ + ++
Sbjct: 113 TRIIREGRISLLKCEACGAKAPLKNV 138
>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4
type zinc finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 157
Score = 143 bits (361), Expect = 4e-44
Identities = 31/132 (23%), Positives = 57/132 (43%), Gaps = 6/132 (4%)
Query: 33 IMREKNPDMVAGKKQKFVMRPPQVVRIGTK---KTSFANFTEICKTLHRLPKHLLDFLLA 89
M V+ + ++ M G KT N ++ K L+R P + +
Sbjct: 7 GMSVNVNRSVSDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGC 66
Query: 90 ELGTSGSVD-GNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTR--LFF 146
ELG D N + I+ G + +++++L +IK++V C C +P+T L + +
Sbjct: 67 ELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIG 126
Query: 147 LQCETCGSRCSV 158
C+ CG R +
Sbjct: 127 NSCKACGYRGML 138
>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR
{Homo sapiens}
Length = 170
Score = 138 bits (349), Expect = 4e-42
Identities = 30/135 (22%), Positives = 57/135 (42%), Gaps = 6/135 (4%)
Query: 34 MREKNPDMVAGKKQKFVMRPPQVVRIGTK---KTSFANFTEICKTLHRLPKHLLDFLLAE 90
+ V + ++ M G KT N ++ K L+R P + + E
Sbjct: 1 LSVNVNRSVMDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCE 60
Query: 91 LGTSGSVD-GNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTR--LFFL 147
LG D N + I+ G + +++++L +IK++V C C +P+T L + +
Sbjct: 61 LGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGN 120
Query: 148 QCETCGSRCSVASIK 162
C+ CG R + +
Sbjct: 121 SCKACGYRGMLDTHH 135
>1k8b_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
N-terminal domain, AIF2 subunit beta; NMR
{Methanocaldococcus jannaschii} SCOP: d.241.1.1
Length = 52
Score = 80.1 bits (198), Expect = 1e-20
Identities = 16/54 (29%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 55 QVVRIGTKKTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGR 108
+++ G +T NF E+ K ++R + +LL E G++G+++G +LI++ R
Sbjct: 1 EILIEG-NRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEGG-RLILQRR 52
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP:
g.59.1.1
Length = 36
Score = 51.4 bits (123), Expect = 6e-10
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 126 VTCHTCRSPDTILQKDTRLFFLQCETCGSRCSVASI 161
V C C PDT + K+ R+ L+C CG+ + I
Sbjct: 1 VICRECGKPDTKIIKEGRVHLLKCMACGAIRPIRMI 36
>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 = 40.0 bits (93), Expect = 3e-04
Identities = 20/104 (19%), Positives = 34/104 (32%), Gaps = 26/104 (25%)
Query: 2 STLQELEDESHTWIGSDRDYTYEELLSRVFEIMR-----EKNPDMVAGKKQKFVMRPP-Q 55
TL EL + E++ ++ I+ PD + +++ P
Sbjct: 193 ETLSELIRTTLDA---------EKVFTQGLNILEWLENPSNTPD------KDYLLSIPIS 237
Query: 56 VVRIGTKKTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVDG 99
IG A++ K L P L +L G +G G
Sbjct: 238 CPLIGV--IQLAHYVVTAKLLGFTPGELRSYL---KGATGHSQG 276
Score = 33.5 bits (76), Expect = 0.047
Identities = 29/189 (15%), Positives = 60/189 (31%), Gaps = 60/189 (31%)
Query: 2 STLQE-----LEDESHTWIGSDRDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQV 56
S LQE L + + + D T EL+ + F +V +
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGK-F---------------LGYVSSLVE- 73
Query: 57 VRIGTKKTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVDGN------SQLIIKGRFQ 110
+ F ++ L +F L GN ++L+ +
Sbjct: 74 ------PSKVGQFDQVLNLC------LTEFENCYLE------GNDIHALAAKLLQENDTT 115
Query: 111 QKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLFFLQCETCGSRCSVASIKSGF--QKD 168
+ + +++ Y + P + ++ LF + G+ A + + F Q +
Sbjct: 116 LVKTKELIKNY---ITARIMAKRPFDK-KSNSALF--RAVGEGN----AQLVAIFGGQGN 165
Query: 169 TRLFF--LQ 175
T +F L+
Sbjct: 166 TDDYFEELR 174
Score = 31.2 bits (70), Expect = 0.21
Identities = 21/103 (20%), Positives = 34/103 (33%), Gaps = 39/103 (37%)
Query: 12 HTWIGSD-RDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFT 70
T+ GSD R + + R+ D + +R P +
Sbjct: 461 DTFDGSDLRVLS-GSISERIV--------DCI--------IRLP------------VKWE 491
Query: 71 EICKTLHRLPKHLLDF---LLAELG--TSGSVDGNS-QLIIKG 107
T H+LDF + LG T + DG ++I+ G
Sbjct: 492 ---TTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAG 531
>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 = 37.9 bits (87), Expect = 0.002
Identities = 41/220 (18%), Positives = 74/220 (33%), Gaps = 63/220 (28%)
Query: 5 QELEDESHTWIGSDRDY-------TYEELLSRVFEIMREKNPDMVAGKKQKFV------- 50
++++D + I S + R+F + K +MV QKFV
Sbjct: 36 KDVQDMPKS-ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMV----QKFVEEVLRIN 90
Query: 51 -----------MRPPQVVRIG--TKKTSFANFTEICKTLH--RLPKHL-LDFLLAEL--- 91
R P ++ ++ N ++ + RL +L L L EL
Sbjct: 91 YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
Query: 92 ------GTSGSVDGNSQLIIK----GRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKD 141
G GS G + + + + Q K + ++ C SP+T+L+
Sbjct: 151 KNVLIDGVLGS--GKTWVALDVCLSYKVQCKMDFKIF------WLNLKNCNSPETVLEML 202
Query: 142 TRLFF-LQCETCGSRCSVAS-----IKSGFQKDTRLFFLQ 175
+L + + SR +S I S + RL +
Sbjct: 203 QKLLYQIDPNWT-SRSDHSSNIKLRIHSIQAELRRLLKSK 241
Score = 31.7 bits (71), Expect = 0.17
Identities = 12/89 (13%), Positives = 28/89 (31%), Gaps = 5/89 (5%)
Query: 82 HLLDFLLAELGTSGS--VDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQ 139
H +DF E + + F K ++++ + + + H S D +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDN-FDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 140 KDTRLFFLQCETCGSRCSVASIKSGFQKD 168
RLF+ ++ + +
Sbjct: 64 TL-RLFWTLLSK-QEEMVQKFVEEVLRIN 90
Score = 27.1 bits (59), Expect = 4.6
Identities = 11/46 (23%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 1 MSTLQELED-ESHTWIGSDRDYTYEELLSRVFEIMREKNPDMVAGK 45
++TLQ+L+ + + I D D YE L++ + + + + +++ K
Sbjct: 521 LNTLQQLKFYKPY--I-CDNDPKYERLVNAILDFLPKIEENLICSK 563
>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 = 32.2 bits (72), Expect = 0.051
Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 12/28 (42%)
Query: 110 QQ-KQIENVLRRYIKEYVTCHTCRSPDT 136
Q K+++ L+ Y + D+
Sbjct: 20 QALKKLQASLKLY-----------ADDS 36
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.2 bits (70), Expect = 0.13
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 126 VTCHTCRSPDTILQKDTRLFFLQCETCG 153
+TC C+ + + + C CG
Sbjct: 22 LTCPECKVYPPKIVERFSEGDVVCALCG 49
Score = 26.6 bits (58), Expect = 4.6
Identities = 9/36 (25%), Positives = 9/36 (25%), Gaps = 10/36 (27%)
Query: 147 LQCETCGSRCS--VASIKSGFQKDTRLFFLQCETCG 180
L C C V G D C CG
Sbjct: 22 LTCPECKVYPPKIVERFSEG---DVV-----CALCG 49
>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex,
phosphoesterase fold, OB fold, zinc-binding motif, DNA
replication; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Length = 206
Score = 30.8 bits (69), Expect = 0.19
Identities = 13/49 (26%), Positives = 17/49 (34%)
Query: 140 KDTRLFFLQCETCGSRCSVASIKSGFQKDTRLFFLQCETCGSRCSVASI 188
KDT L C +C R I S LQC+ C + +
Sbjct: 16 KDTVTLELSCPSCDKRFPFGGIVSSNYYRVSYNGLQCKHCEQLFTPLQL 64
>2hx1_A Predicted sugar phosphatases of the HAD superfamily; ZP_00311070.1,
possible sugar phosphatase, structural genomics; HET:
MSE EPE; 2.10A {Cytophaga hutchinsonii}
Length = 284
Score = 28.4 bits (64), Expect = 1.2
Identities = 5/35 (14%), Positives = 14/35 (40%), Gaps = 7/35 (20%)
Query: 15 IGSDRDYTYEELLSRVFEIMREK-------NPDMV 42
+ D + + L++ ++R++ N D
Sbjct: 138 LLDDEGFNWFHDLNKTVNLLRKRTIPAIVANTDNT 172
>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase, nucleotide-binding, protein
biosynthesis, ligase/RNA complex; HET: ANP; 2.00A
{Pyrococcus horikoshii} PDB: 2zuf_A
Length = 629
Score = 28.9 bits (65), Expect = 1.3
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 13 TWIGSDRDYTYEELLSRVFEIMREKNPDMVAGKKQK 48
TW+G D +E + R E++ EKNP + +K +
Sbjct: 431 TWVGFTVDEVIQEAVKRARELIEEKNPALSDEEKAE 466
>3gzu_A Inner capsid protein VP2; 7RP, DLP, metal- binding, virion, zinc,
core protein, RNA-binding, icosaderal virus; 3.80A
{Rotavirus A} PDB: 3kz4_A 3n09_A
Length = 800
Score = 28.2 bits (62), Expect = 1.8
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 97 VDGNSQLIIKGRFQQKQIENVLRRYIKE 124
VD + I FQ ++ E +RR+I E
Sbjct: 120 VDSETASICDAIFQDEETEGAVRRFIAE 147
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A
{Human herpesvirus 1} PDB: 1dml_B*
Length = 1193
Score = 26.3 bits (57), Expect = 7.6
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 24 EELLSRVFEIMREKNPDMVAG 44
E+L ++++ P+ V G
Sbjct: 402 FEMLLAFMTLVKQYGPEFVTG 422
>1jqo_A Phosphoenolpyruvate carboxylase; beta barrel, carbon dioxide
fixation, lyase; 3.00A {Zea mays} SCOP: c.1.12.3
Length = 970
Score = 26.4 bits (58), Expect = 8.1
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 12 HTWIGSDRD 20
+W+G DRD
Sbjct: 286 SSWMGGDRD 294
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B
polymer alpha family polymerase, transferase; 2.10A
{Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A
2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A*
4ail_C* 3a2f_A* 2jgu_A* 1d5a_A
Length = 775
Score = 26.3 bits (58), Expect = 8.5
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 24 EELLSRVFEIMREKNPDMVAG 44
+E++ R ++REK+PD++
Sbjct: 188 KEMIKRFLRVVREKDPDVLIT 208
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
0.323 0.136 0.406
Gapped
Lambda K H
0.267 0.0555 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,883,978
Number of extensions: 163628
Number of successful extensions: 414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 396
Number of HSP's successfully gapped: 30
Length of query: 193
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 105
Effective length of database: 4,244,745
Effective search space: 445698225
Effective search space used: 445698225
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.4 bits)